diff --git a/.gitignore b/.gitignore index 812ad75f..a76fcffd 100644 --- a/.gitignore +++ b/.gitignore @@ -11,3 +11,4 @@ __pycache__ **/#*# files/ +.cvmfscatalog diff --git a/bin/wrappers/deepemhancer-cryosparc b/bin/wrappers/deepemhancer-cryosparc new file mode 100755 index 00000000..c9dc695d --- /dev/null +++ b/bin/wrappers/deepemhancer-cryosparc @@ -0,0 +1,18 @@ +#!/bin/bash -l +if command -v conda > /dev/null 2>&1; then + conda deactivate > /dev/null 2>&1 || true # ignore any errors + conda deactivate > /dev/null 2>&1 || true # ignore any errors +fi +unset _CE_CONDA +unset CONDA_DEFAULT_ENV +unset CONDA_EXE +unset CONDA_PREFIX +unset CONDA_PROMPT_MODIFIER +unset CONDA_PYTHON_EXE +unset CONDA_SHLVL +unset PYTHONPATH +unset LD_PRELOAD +unset LD_LIBRARY_PATH + +module load conda/deepemhancer +exec deepemhancer --deepLearningModelPath /share/databases/deepemhancer/models $@ diff --git a/bin/wrappers/topaz b/bin/wrappers/topaz new file mode 100755 index 00000000..509602c7 --- /dev/null +++ b/bin/wrappers/topaz @@ -0,0 +1,3 @@ +#!/bin/bash -l +module load conda/topaz +topaz $@ diff --git a/bin/wrappers/topaz-cryosparc b/bin/wrappers/topaz-cryosparc new file mode 100755 index 00000000..30b52c81 --- /dev/null +++ b/bin/wrappers/topaz-cryosparc @@ -0,0 +1,18 @@ +#!/bin/bash -l +if command -v conda > /dev/null 2>&1; then + conda deactivate > /dev/null 2>&1 || true # ignore any errors + conda deactivate > /dev/null 2>&1 || true # ignore any errors +fi +unset _CE_CONDA +unset CONDA_DEFAULT_ENV +unset CONDA_EXE +unset CONDA_PREFIX +unset CONDA_PROMPT_MODIFIER +unset CONDA_PYTHON_EXE +unset CONDA_SHLVL +unset PYTHONPATH +unset LD_PRELOAD +unset LD_LIBRARY_PATH + +module load conda/topaz +exec topaz $@ diff --git a/config/hpccf/farm/v0.19.1/packages.yaml b/config/hpccf/farm/v0.19.1/packages.yaml index 7ee9a26f..4d158fbd 100644 --- a/config/hpccf/farm/v0.19.1/packages.yaml +++ b/config/hpccf/farm/v0.19.1/packages.yaml @@ -1,98 +1,52 @@ packages: - #gettext: - # externals: - # - spec: gettext@0.21 - # prefix: /usr - # buildable: false - pkg-config: - externals: - - spec: pkg-config@0.29.2 - prefix: /usr - buildable: false - curl: - externals: - - spec: curl@7.81.0+gssapi+ldap+nghttp2 - prefix: /usr - bash: - externals: - - spec: bash@5.1.16 - prefix: /usr - buildable: false - munge: - externals: - - spec: munge@0.5.14 %gcc@11.3.0 - prefix: /usr - buildable: false - mariadb: - externals: - - spec: mariadb@10.8.2 %gcc@11.3.0 - prefix: /usr - buildable: false - mariadb-c-client: - externals: - - spec: mariadb-c-client@3 %gcc@11.3.0 - prefix: /usr + #### + # Externals: non-buildable + #### + at-spi2-core: externals: - spec: at-spi2-core@2.44.0 %gcc@11.3.0 prefix: /usr buildable: false + at-spi2-atk: externals: - spec: at-spi2-atk@2.38.0 %gcc@11.3.0 prefix: /usr buildable: false + atk: externals: - spec: atk@2.36.0 prefix: /usr buildable: false - gtkplus: - buildable: false - externals: - - spec: gtkplus@3.24.33 - prefix: /usr - - spec: gtkplus@2.24.33 - prefix: /usr - opengl: - buildable: false + + bash: externals: - - spec: opengl@4.5.0 %gcc@11.3.0 + - spec: bash@5.1.16 prefix: /usr - linux-pam: buildable: false - externals: - - spec: linux-pam@1.4.0 %gcc@11.3.0 - prefix: /usr - openssl: - externals: - - spec: openssl@3.0.2 - prefix: /usr - #buildable: False - rust: - externals: - - spec: rust@1.61.0 - prefix: /usr cvs: buildable: false externals: - spec: cvs@1.12.13 prefix: /usr - subversion: + + gtkplus: buildable: false externals: - - spec: subversion@1.14.1 + - spec: gtkplus@3.24.33 prefix: /usr - llvm: + - spec: gtkplus@2.24.33 + prefix: /usr + + pkg-config: externals: - - spec: llvm@14.0.0+clang~lld~lldb + - spec: pkg-config@0.29.2 prefix: /usr - extra_attributes: - compilers: - c: /usr/bin/clang-14 - cxx: /usr/bin/clang++-14 - + buildable: false + julia: buildable: false externals: @@ -110,69 +64,169 @@ packages: externals: - spec: slurm@22-05-9.p2 +pmix +mariadb +hwloc +restd prefix: /share/apps/22.04/slurm/22.05.9.p2 + hwloc: buildable: false externals: - spec: hwloc@2.9.3 prefix: /share/apps/22.04/hwloc/2.9.3 + pmix: buildable: false externals: - spec: pmix@4.2.6 prefix: /share/apps/22.04/pmix/4.2.6 + ucx: buildable: false externals: - spec: ucx@1.14.1 +thread_multiple prefix: /share/apps/22.04/ucx/1.14.1 + libevent: buildable: false externals: - spec: libevent@2.1.12 prefix: /share/apps/22.04/libevent/2.1.12-stable + + linux-pam: + buildable: false + externals: + - spec: linux-pam@1.4.0 %gcc@11.3.0 + prefix: /usr + + mariadb: + externals: + - spec: mariadb@10.8.2 %gcc@11.3.0 + prefix: /usr + buildable: false + + mariadb-c-client: + externals: + - spec: mariadb-c-client@3 %gcc@11.3.0 + prefix: /usr + + munge: + externals: + - spec: munge@0.5.14 %gcc@11.3.0 + prefix: /usr + buildable: false + + opengl: + buildable: false + externals: + - spec: opengl@4.5.0 %gcc@11.3.0 + prefix: /usr + openmpi: buildable: false externals: - spec: openmpi@4.1.5 fabrics=ucx schedulers=slurm +cuda prefix: /share/apps/22.04/openmpi/4.1.5 - ########## - intel-mkl: - require: '@2017.0.098:' - mpi: - require: openmpi - tbb: - require: intel-oneapi-tbb - mkl: - require: intel-oneapi-mkl - dbus: - require: '@1.12.8 local_state_dir=/var/' - cairo: - require: +X +ft +fc +pdf +png +gobject - python: - require: ~libxml2 - libxml2: - require: '@2.10.2: +python' - lmod: - require: '@8.7.14 modulepath_root=/share/apps/spack/modulefiles/' - version: - - 8.7.14 - variants: modulepath_root=/share/apps/spack/modulefiles/ + + + subversion: + buildable: false + externals: + - spec: subversion@1.14.1 + prefix: /usr + + + #### + # Externals: buildable + #### + # + + curl: + externals: + - spec: curl@7.81.0+gssapi+ldap+nghttp2 + prefix: /usr + + llvm: + externals: + - spec: llvm@14.0.0+clang~lld~lldb + prefix: /usr + extra_attributes: + compilers: + c: /usr/bin/clang-14 + cxx: /usr/bin/clang++-14 + + openssl: + externals: + - spec: openssl@3.0.2 + prefix: /usr + + rust: + externals: + - spec: rust@1.61.0 + prefix: /usr + + #### + # Package requirements and variants + #### + # + amdfftw: require: '@3.2 +openmp' version: - 3.2 variants: +openmp - intel-oneapi-mkl: - require: '@2022.2.1' - version: - - 2022.2.1 + + cairo: + require: +X +ft +fc +pdf +png +gobject + + dbus: + require: '@1.12.8 local_state_dir=/var/' fftw: require: '@3.3.10 +openmp' version: - 3.3.10 variants: +openmp + + gdal: + variants: +netcdf +sqlite3 +xml2 +grib +hdf5 +curl +geos +cfitsio +crypto +expat + +gif +jasper +pcre +png +zstd + gdl: + version: [0.9.9] + variants: +graphicsmagick +python + + hdf5: + variants: +fortran +hl + + intel-mkl: + require: '@2017.0.098:' + + intel-oneapi-mkl: + require: '@2022.2.1' + version: + - 2022.2.1 + + libxml2: + require: '@2.10.2: +python' + + lmod: + require: '@8.7.14 modulepath_root=/share/apps/spack/modulefiles/' + version: + - 8.7.14 + variants: modulepath_root=/share/apps/spack/modulefiles/ + + mkl: + require: intel-oneapi-mkl + + mpi: + require: openmpi + + python: + require: ~libxml2 + + sqlite: + variants: +rtree + + tbb: + require: intel-oneapi-tbb + #### all: @@ -185,14 +239,3 @@ packages: variants: - cuda_arch=75 - gdal: - variants: +netcdf +sqlite3 +xml2 +grib +hdf5 +curl +geos +cfitsio +crypto +expat - +gif +jasper +pcre +png +zstd - gdl: - version: [0.9.9] - variants: +graphicsmagick +python - sqlite: - variants: +rtree - - hdf5: - variants: +fortran +hl diff --git a/config/hpccf/franklin/compilers.yaml b/config/hpccf/franklin/compilers.yaml deleted file mode 100644 index cf92f6f4..00000000 --- a/config/hpccf/franklin/compilers.yaml +++ /dev/null @@ -1,79 +0,0 @@ -compilers: -- compiler: - spec: gcc@5.5.0 - paths: - cc: /usr/bin/gcc-5 - cxx: /usr/bin/g++-5 - f77: null - fc: null - flags: {} - operating_system: ubuntu18.04 - target: x86_64 - modules: [] - environment: {} - extra_rpaths: [] -- compiler: - spec: gcc@7.5.0 - paths: - cc: /usr/bin/gcc - cxx: /usr/bin/g++ - f77: /usr/bin/gfortran - fc: /usr/bin/gfortran - flags: {} - operating_system: ubuntu18.04 - target: x86_64 - modules: [] - environment: {} - extra_rpaths: [] -- compiler: - spec: gcc@11.2.0 - paths: - cc: /share/apps/spack-v0.17.1/opt/spack/linux-ubuntu18.04-x86_64/gcc-11.2.0/gcc-11.2.0-6ll4vbi6dn34fyt4fwtrj4whi2hejmhf/bin/gcc - cxx: /share/apps/spack-v0.17.1/opt/spack/linux-ubuntu18.04-x86_64/gcc-11.2.0/gcc-11.2.0-6ll4vbi6dn34fyt4fwtrj4whi2hejmhf/bin/g++ - f77: /share/apps/spack-v0.17.1/opt/spack/linux-ubuntu18.04-x86_64/gcc-11.2.0/gcc-11.2.0-6ll4vbi6dn34fyt4fwtrj4whi2hejmhf/bin/gfortran - fc: /share/apps/spack-v0.17.1/opt/spack/linux-ubuntu18.04-x86_64/gcc-11.2.0/gcc-11.2.0-6ll4vbi6dn34fyt4fwtrj4whi2hejmhf/bin/gfortran - flags: {} - operating_system: ubuntu18.04 - target: x86_64 - modules: [] - environment: {} - extra_rpaths: [] -- compiler: - spec: intel@2021.7.1 - paths: - cc: /share/apps/spack/spack-v0.19/opt/spack/linux-ubuntu22.04-x86_64_v3/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-emmtgavvau4zt54suxbzqw25znqx2cko/compiler/latest/linux/bin/intel64/icc - cxx: /share/apps/spack/spack-v0.19/opt/spack/linux-ubuntu22.04-x86_64_v3/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-emmtgavvau4zt54suxbzqw25znqx2cko/compiler/latest/linux/bin/intel64/icpc - f77: /share/apps/spack/spack-v0.19/opt/spack/linux-ubuntu22.04-x86_64_v3/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-emmtgavvau4zt54suxbzqw25znqx2cko/compiler/latest/linux/bin/intel64/ifort - fc: /share/apps/spack/spack-v0.19/opt/spack/linux-ubuntu22.04-x86_64_v3/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-emmtgavvau4zt54suxbzqw25znqx2cko/compiler/latest/linux/bin/intel64/ifort - flags: {} - operating_system: ubuntu22.04 - target: x86_64 - modules: [] - environment: {} - extra_rpaths: [] -- compiler: - spec: dpcpp@2022.2.1 - paths: - cc: /share/apps/spack/spack-v0.19/opt/spack/linux-ubuntu22.04-x86_64_v3/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-emmtgavvau4zt54suxbzqw25znqx2cko/compiler/latest/linux/bin/icx - cxx: /share/apps/spack/spack-v0.19/opt/spack/linux-ubuntu22.04-x86_64_v3/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-emmtgavvau4zt54suxbzqw25znqx2cko/compiler/latest/linux/bin/dpcpp - f77: /share/apps/spack/spack-v0.19/opt/spack/linux-ubuntu22.04-x86_64_v3/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-emmtgavvau4zt54suxbzqw25znqx2cko/compiler/latest/linux/bin/ifx - fc: /share/apps/spack/spack-v0.19/opt/spack/linux-ubuntu22.04-x86_64_v3/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-emmtgavvau4zt54suxbzqw25znqx2cko/compiler/latest/linux/bin/ifx - flags: {} - operating_system: ubuntu22.04 - target: x86_64 - modules: [] - environment: {} - extra_rpaths: [] -- compiler: - spec: oneapi@2022.2.1 - paths: - cc: /share/apps/spack/spack-v0.19/opt/spack/linux-ubuntu22.04-x86_64_v3/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-emmtgavvau4zt54suxbzqw25znqx2cko/compiler/latest/linux/bin/icx - cxx: /share/apps/spack/spack-v0.19/opt/spack/linux-ubuntu22.04-x86_64_v3/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-emmtgavvau4zt54suxbzqw25znqx2cko/compiler/latest/linux/bin/icpx - f77: /share/apps/spack/spack-v0.19/opt/spack/linux-ubuntu22.04-x86_64_v3/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-emmtgavvau4zt54suxbzqw25znqx2cko/compiler/latest/linux/bin/ifx - fc: /share/apps/spack/spack-v0.19/opt/spack/linux-ubuntu22.04-x86_64_v3/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-emmtgavvau4zt54suxbzqw25znqx2cko/compiler/latest/linux/bin/ifx - flags: {} - operating_system: ubuntu22.04 - target: x86_64 - modules: [] - environment: {} - extra_rpaths: [] diff --git a/config/hpccf/franklin/config.yaml b/config/hpccf/franklin/config.yaml deleted file mode 100644 index ae09214c..00000000 --- a/config/hpccf/franklin/config.yaml +++ /dev/null @@ -1,3 +0,0 @@ -config: - template_dirs: - - $spack/../spack-ucdavis/templates diff --git a/config/hpccf/franklin/modules.yaml b/config/hpccf/franklin/modules.yaml deleted file mode 100644 index ac353f92..00000000 --- a/config/hpccf/franklin/modules.yaml +++ /dev/null @@ -1,13 +0,0 @@ -modules: - tcl: - verbose: True - all: - template: 'hpccf/default.tcl' - conflict: - - '{name}' - environment: - set: - '{name}_ROOT': '{prefix}' - #autoload: 'direct' - circos: - template: 'hpccf/circos-version-warning.tcl' diff --git a/config/hpccf/franklin/packages.yaml b/config/hpccf/franklin/packages.yaml deleted file mode 100644 index ac6d0105..00000000 --- a/config/hpccf/franklin/packages.yaml +++ /dev/null @@ -1,25 +0,0 @@ -packages: - all: - target: [x86_64] - compiler: - - gcc@11.2.0 - - openmpi: - variants: pmix=True schedulers=slurm fabrics=ucx thread_multiple=True singularity=True - - slurm: - variants: +pmix +hwloc +mariadb +singularity - - r: - version: [4.1.1] - variants: +X - - gdal: - variants: +netcdf +sqlite3 +xml2 +grib +hdf5 +curl +geos +cfitsio +crypto +expat +gif +jasper +pcre +png +zstd - - gdl: - version: [0.9.8] - variants: +graphicsmagick +ipo +python - - sqlite: - variants: +rtree diff --git a/config/hpccf/franklin/repos.yaml b/config/hpccf/franklin/repos.yaml deleted file mode 100644 index 14835e3f..00000000 --- a/config/hpccf/franklin/repos.yaml +++ /dev/null @@ -1,15 +0,0 @@ -# ------------------------------------------------------------------------- -# This is the default spack repository configuration. It includes the -# builtin spack package repository. -# -# Users can override these settings by editing the following files. -# -# Per-spack-instance settings (overrides defaults): -# $SPACK_ROOT/etc/spack/repos.yaml -# -# Per-user settings (overrides default and site settings): -# ~/.spack/repos.yaml -# ------------------------------------------------------------------------- -repos: - - $spack/../spack-ucdavis/repos/hpccf - - $spack/var/spack/repos/builtin diff --git a/config/hpccf/franklin/v0.19/repos.yaml b/config/hpccf/franklin/v0.19/repos.yaml index 9be33169..ba321e2d 100644 --- a/config/hpccf/franklin/v0.19/repos.yaml +++ b/config/hpccf/franklin/v0.19/repos.yaml @@ -12,5 +12,6 @@ # ------------------------------------------------------------------------- repos: - $spack/../spack-ucdavis/repos/hpccf + - $spack/../spack-ucdavis/repos/forked - $spack/../spack-ucdavis/repos/backports - $spack/var/spack/repos/builtin diff --git a/config/hpccf/franklin/v0.21/Makefile b/config/hpccf/franklin/v0.21/Makefile new file mode 100644 index 00000000..e08f4736 --- /dev/null +++ b/config/hpccf/franklin/v0.21/Makefile @@ -0,0 +1,8 @@ + +software/packages.yaml: software/packages.in.yaml core/packages.yaml + @yq eval-all '. as $$item ireduce ({}; . * $$item)' $^ > $@ + +all: software/packages.yaml + +clean: + @rm -f software/packages.yaml diff --git a/config/hpccf/franklin/v0.21/common/compilers.yaml b/config/hpccf/franklin/v0.21/common/compilers.yaml new file mode 100644 index 00000000..61abc3f5 --- /dev/null +++ b/config/hpccf/franklin/v0.21/common/compilers.yaml @@ -0,0 +1,95 @@ +compilers: +- compiler: + spec: clang@=14.0.0 + paths: + cc: /usr/bin/clang + cxx: /usr/bin/clang++ + f77: null + fc: null + flags: {} + operating_system: ubuntu22.04 + target: x86_64 + modules: [] + environment: {} + extra_rpaths: [] +- compiler: + spec: gcc@=9.5.0 + paths: + cc: /usr/bin/gcc-9 + cxx: /usr/bin/g++-9 + f77: /usr/bin/gfortran-9 + fc: /usr/bin/gfortran-9 + flags: {} + operating_system: ubuntu22.04 + target: x86_64 + modules: [] + environment: {} + extra_rpaths: [] +- compiler: + spec: gcc@=13.2.0 + paths: + cc: /share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-13.2.0-y5biuspnetqjxpbwgrulzk2lyncskm6c/bin/gcc + cxx: /share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-13.2.0-y5biuspnetqjxpbwgrulzk2lyncskm6c/bin/g++ + f77: /share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-13.2.0-y5biuspnetqjxpbwgrulzk2lyncskm6c/bin/gfortran + fc: /share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-13.2.0-y5biuspnetqjxpbwgrulzk2lyncskm6c/bin/gfortran + flags: {} + operating_system: ubuntu22.04 + target: x86_64 + modules: [] + environment: {} + extra_rpaths: [] +- compiler: + spec: gcc@=11.4.0 + paths: + cc: /share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-11.4.0-cxjhlgyxdo4ibtgmh2gwz3yfklafv7fb/bin/gcc + cxx: /share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-11.4.0-cxjhlgyxdo4ibtgmh2gwz3yfklafv7fb/bin/g++ + f77: /share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-11.4.0-cxjhlgyxdo4ibtgmh2gwz3yfklafv7fb/bin/gfortran + fc: /share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-11.4.0-cxjhlgyxdo4ibtgmh2gwz3yfklafv7fb/bin/gfortran + flags: {} + operating_system: ubuntu22.04 + target: x86_64 + modules: [] + environment: {} + extra_rpaths: [] +- compiler: + spec: dpcpp@=2023.2.0 + paths: + cc: /share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-compilers-2023.2.1-73sl4rcnnjvfa6p5b67n32w2xejl275l/compiler/latest/linux/bin/icx + cxx: /share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-compilers-2023.2.1-73sl4rcnnjvfa6p5b67n32w2xejl275l/compiler/latest/linux/bin/dpcpp + f77: /share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-compilers-2023.2.1-73sl4rcnnjvfa6p5b67n32w2xejl275l/compiler/latest/linux/bin/ifx + fc: /share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-compilers-2023.2.1-73sl4rcnnjvfa6p5b67n32w2xejl275l/compiler/latest/linux/bin/ifx + flags: {} + operating_system: ubuntu22.04 + target: x86_64 + modules: [] + environment: {} + extra_rpaths: [] +- compiler: + spec: oneapi@=2023.2.0 + paths: + cc: /share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-compilers-2023.2.1-73sl4rcnnjvfa6p5b67n32w2xejl275l/compiler/latest/linux/bin/icx + cxx: /share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-compilers-2023.2.1-73sl4rcnnjvfa6p5b67n32w2xejl275l/compiler/latest/linux/bin/icpx + f77: /share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-compilers-2023.2.1-73sl4rcnnjvfa6p5b67n32w2xejl275l/compiler/latest/linux/bin/ifx + fc: /share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-compilers-2023.2.1-73sl4rcnnjvfa6p5b67n32w2xejl275l/compiler/latest/linux/bin/ifx + flags: {} + operating_system: ubuntu22.04 + target: x86_64 + modules: [] + environment: {} + extra_rpaths: ['/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-compilers-2023.2.1-73sl4rcnnjvfa6p5b67n32w2xejl275l/compiler/2023.2.1/linux/compiler/lib/intel64_lin'] +- compiler: + spec: aocc@=4.1.0 + paths: + cc: /share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/aocc-4.1.0-4tyg3vta4lskiwned4ova5fa2ocmnikl/bin/clang + cxx: /share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/aocc-4.1.0-4tyg3vta4lskiwned4ova5fa2ocmnikl/bin/clang++ + f77: /share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/aocc-4.1.0-4tyg3vta4lskiwned4ova5fa2ocmnikl/bin/flang + fc: /share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/aocc-4.1.0-4tyg3vta4lskiwned4ova5fa2ocmnikl/bin/flang + flags: + cflags: null + cxxflags: null + fflags: null + operating_system: ubuntu22.04 + target: x86_64 + modules: [] + environment: {} + extra_rpaths: [] diff --git a/config/hpccf/franklin/v0.21/common/concretizer.yaml b/config/hpccf/franklin/v0.21/common/concretizer.yaml new file mode 100644 index 00000000..b4720ab7 --- /dev/null +++ b/config/hpccf/franklin/v0.21/common/concretizer.yaml @@ -0,0 +1,25 @@ +concretizer: + # Whether to consider installed packages or packages from buildcaches when + # concretizing specs. If `true`, we'll try to use as many installs/binaries + # as possible, rather than building. If `false`, we'll always give you a fresh + # concretization. + reuse: true + # Options that tune which targets are considered for concretization. The + # concretization process is very sensitive to the number targets, and the time + # needed to reach a solution increases noticeably with the number of targets + # considered. + targets: + # Determine whether we want to target specific or generic microarchitectures. + # An example of the first kind might be for instance "skylake" or "bulldozer", + # while generic microarchitectures are for instance "aarch64" or "x86_64_v4". + granularity: microarchitectures + # If "false" allow targets that are incompatible with the current host (for + # instance concretize with target "icelake" while running on "haswell"). + # If "true" only allow targets that are compatible with the host. + host_compatible: false + # When "true" concretize root specs of environments together, so that each unique + # package in an environment corresponds to one concrete spec. This ensures + # environments can always be activated. When "false" perform concretization separately + # on each root spec, allowing different versions and variants of the same package in + # an environment. + unify: when_possible diff --git a/config/hpccf/franklin/v0.21/common/config.yaml b/config/hpccf/franklin/v0.21/common/config.yaml new file mode 100644 index 00000000..3f22787b --- /dev/null +++ b/config/hpccf/franklin/v0.21/common/config.yaml @@ -0,0 +1,4 @@ +config: + template_dirs: + - /share/apps/22.04/spack/spack-ucdavis/templates/ + db_lock_timeout: 60 diff --git a/config/hpccf/franklin/v0.21/common/mirrors.yaml b/config/hpccf/franklin/v0.21/common/mirrors.yaml new file mode 100644 index 00000000..ead47619 --- /dev/null +++ b/config/hpccf/franklin/v0.21/common/mirrors.yaml @@ -0,0 +1,18 @@ +mirrors: + manual-mirror: + fetch: + url: file:///share/apps/22.04/spack/manual-mirror + access_pair: + - null + - null + access_token: null + profile: null + endpoint_url: null + push: + url: file:///share/apps/22.04/spack/manual-mirror + access_pair: + - null + - null + access_token: null + profile: null + endpoint_url: null diff --git a/config/hpccf/franklin/v0.21/common/modules.yaml b/config/hpccf/franklin/v0.21/common/modules.yaml new file mode 100644 index 00000000..2eaa7914 --- /dev/null +++ b/config/hpccf/franklin/v0.21/common/modules.yaml @@ -0,0 +1,32 @@ +modules: + prefix_inspections: + lib64: + - LD_LIBRARY_PATH + lib: + - LD_LIBRARY_PATH + include: + - CPATH + - C_INCLUDE_PATH + - CPLUS_INCLUDE_PATH + default: + arch_folder: false + enable:: + - tcl + tcl: + verbose: true + hash_length: 0 + exclude_implicits: true + projections: + all: '{name}/{version}' + target=skylake_avx512: '{name}/{version}+intel' + target=zen2: '{name}/{version}+amd' + all: + autoload: direct + template: hpccf/default.tcl + prerequisites: direct + conflict: + - '{name}' + environment: + set: + '{name}_ROOT': '{prefix}' + diff --git a/config/hpccf/franklin/v0.21/common/packages.yaml b/config/hpccf/franklin/v0.21/common/packages.yaml new file mode 100644 index 00000000..070dd3ee --- /dev/null +++ b/config/hpccf/franklin/v0.21/common/packages.yaml @@ -0,0 +1,268 @@ +packages: + + #### + # Externals: non-buildable + #### + + at-spi2-core: + externals: + - spec: at-spi2-core@2.44.0 %gcc + prefix: /usr + buildable: false + + at-spi2-atk: + externals: + - spec: at-spi2-atk@2.38.0 %gcc + prefix: /usr + buildable: false + + atk: + externals: + - spec: atk@2.36.0 %gcc + prefix: /usr + buildable: false + + bash: + externals: + - spec: bash@5.1.16 %gcc + prefix: /usr + buildable: false + + # Addresses krb5 oneapi issue: https://github.com/spack/spack/issues/37172 + bison: + buildable: false + externals: + - spec: bison@3.8.2 + prefix: /usr + + cvs: + buildable: false + externals: + - spec: cvs@1.12.13 %gcc + prefix: /usr + + + gtkplus: + buildable: false + externals: + - spec: gtkplus@3.24.33 %gcc + prefix: /usr + - spec: gtkplus@2.24.33 %gcc + prefix: /usr + + pkg-config: + externals: + - spec: pkg-config@0.29.2 %gcc + prefix: /usr + buildable: false + + linux-pam: + buildable: false + externals: + - spec: linux-pam@1.4.0 %gcc + prefix: /usr + + llvm: + buildable: false + externals: + - spec: llvm@14.0.0+clang~lld~lldb %gcc + prefix: /usr + extra_attributes: + compilers: + c: /usr/bin/clang-14 + cxx: /usr/bin/clang++-14 + + mariadb: + externals: + - spec: mariadb@10.8.2 %gcc + prefix: /usr + buildable: false + + mariadb-c-client: + externals: + - spec: mariadb-c-client@3 %gcc + prefix: /usr + + munge: + externals: + - spec: munge@0.5.14 %gcc + prefix: /usr + buildable: false + + opengl: + buildable: false + externals: + - spec: opengl@4.5.0 %gcc + prefix: /usr + + openssl: + buildable: false + externals: + - spec: openssl@3.0.2 %gcc + prefix: /usr + + subversion: + buildable: false + externals: + - spec: subversion@1.14.1 %gcc + prefix: /usr + + wxwidgets: + buildable: false + externals: + - spec: wxwidgets@3.0.2 + prefix: /usr + + #### + # Externals: buildable + #### + + curl: + externals: + - spec: curl@7.81.0+gssapi+ldap+nghttp2 %gcc + prefix: /usr + + + + rust: + externals: + - spec: rust@1.61.0 %gcc + prefix: /usr + + + #### + # + # Core stack and libraries + # + #### + # + + amdfftw: + require: '@4.1 +openmp' + version: + - 4.1 + variants: +openmp + + cuda: + require: + - any_of: + - '@11.7.1' + - '@11.2.2' + - '@8.0.61' + version: + - 11.7 + - 11.2.2 + - 8.0.61 + + fftw: + require: '@3.3.10 +openmp' + version: + - 3.3.10 + variants: +openmp + + slurm: + require: '@23-02-6-1 +pmix +mariadb +hwloc +restd sysconfdir=/share/apps/22.04/spack/environments/core/view/generic/slurm-23-02-6-1/etc' + version: + - 23-02-6-1 + variants: +pmix +mariadb +hwloc +restd sysconfdir=/share/apps/22.04/spack/environments/core/view/generic/slurm-23-02-6-1/etc + + pmix: + require: '@4.2.6' + version: + - 4.2.6 + + ucx: + require: '@1.14.1 +thread_multiple' + version: + - 1.14.1 + variants: +thread_multiple + + openmpi: + require: + - any_of: + - '@4.1.5 fabrics=ucx schedulers=slurm +legacylaunchers +cuda cuda_arch=75 target=x86_64_v3' + - '@4.1.5 fabrics=ucx schedulers=slurm +legacylaunchers +cuda cuda_arch=75 target=zen2' + - '@4.1.5 fabrics=ucx schedulers=slurm +legacylaunchers +cuda cuda_arch=75 target=skylake_avx512' + version: + - 4.1.5 + variants: fabrics=ucx schedulers=slurm +cuda +legacylaunchers + + # When mpi=openmpi, this introduces an unresolvable dependency. + # See https://github.com/spack/spack/issues/15836 for details + hwloc: + require: '@2.9.1 ~netloc +pci +libxml2 +libudev +nvml +cuda +cairo cuda_arch=75' + version: + - 2.9.1 + variants: ~netloc +pci +libxml2 +libudev +nvml +cuda +cairo + + libevent: + require: '@2.1.12' + version: + - 2.1.12 + + intel-mkl: + require: '@2017.0.098:' + + intel-oneapi-mkl: + require: '@2023.2.0' + version: + - 2023.2.0 + + mkl: + require: intel-oneapi-mkl + + mpi: + require: openmpi + + + #### + # + # Other package / build tree constraints + # + #### + + cairo: + require: +X +ft +fc +pdf +png +gobject + + dbus: + require: '@1.12.8 local_state_dir=/var/' + + gdal: + variants: +netcdf +sqlite3 +xml2 +grib +hdf5 +curl +geos +cfitsio +crypto +expat + +gif +jasper +pcre +png +zstd + + gdl: + version: [0.9.8] + variants: +graphicsmagick +python + + libxml2: + require: '@2.10.2: +python' + + python: + require: ~libxml2 + + sqlite: + variants: +rtree + + tbb: + require: intel-oneapi-tbb + + # xmlto does not build properly with OneAPI + xmlto: + require: "%gcc" + + #### + + all: + target: [x86_64_v3] + compiler: + - gcc @11.4.0 + providers: + tbb: + - intel-oneapi-tbb + fftw-api: + - fftw + variants: + - cuda_arch=75 + + diff --git a/config/hpccf/franklin/v0.21/common/repos.yaml b/config/hpccf/franklin/v0.21/common/repos.yaml new file mode 100644 index 00000000..08d6d371 --- /dev/null +++ b/config/hpccf/franklin/v0.21/common/repos.yaml @@ -0,0 +1,17 @@ +# ------------------------------------------------------------------------- +# This is the default spack repository configuration. It includes the +# builtin spack package repository. +# +# Users can override these settings by editing the following files. +# +# Per-spack-instance settings (overrides defaults): +# $SPACK_ROOT/etc/spack/repos.yaml +# +# Per-user settings (overrides default and site settings): +# ~/.spack/repos.yaml +# ------------------------------------------------------------------------- +repos: + - /share/apps/22.04/spack/spack-ucdavis/repos/hpccf/v0.20 + - /share/apps/22.04/spack/spack-ucdavis/repos/forked/ + #- /share/apps/22.04/spack/spack-ucdavis/repos/backports + - $spack/var/spack/repos/builtin diff --git a/config/hpccf/franklin/v0.21/core/compilers.yaml b/config/hpccf/franklin/v0.21/core/compilers.yaml new file mode 120000 index 00000000..d74fc4d2 --- /dev/null +++ b/config/hpccf/franklin/v0.21/core/compilers.yaml @@ -0,0 +1 @@ +../common/compilers.yaml \ No newline at end of file diff --git a/config/hpccf/franklin/v0.21/core/concretizer.yaml b/config/hpccf/franklin/v0.21/core/concretizer.yaml new file mode 120000 index 00000000..28c17673 --- /dev/null +++ b/config/hpccf/franklin/v0.21/core/concretizer.yaml @@ -0,0 +1 @@ +../common/concretizer.yaml \ No newline at end of file diff --git a/config/hpccf/franklin/v0.21/core/config.yaml b/config/hpccf/franklin/v0.21/core/config.yaml new file mode 100644 index 00000000..6905aa84 --- /dev/null +++ b/config/hpccf/franklin/v0.21/core/config.yaml @@ -0,0 +1,6 @@ +config: + install_tree: + root: /share/apps/22.04/spack/opt/core + template_dirs: + - /share/apps/22.04/spack/spack-ucdavis/templates/ + db_lock_timeout: 60 diff --git a/config/hpccf/franklin/v0.21/core/mirrors.yaml b/config/hpccf/franklin/v0.21/core/mirrors.yaml new file mode 120000 index 00000000..194a7266 --- /dev/null +++ b/config/hpccf/franklin/v0.21/core/mirrors.yaml @@ -0,0 +1 @@ +../common/mirrors.yaml \ No newline at end of file diff --git a/config/hpccf/franklin/v0.21/core/modules.yaml b/config/hpccf/franklin/v0.21/core/modules.yaml new file mode 120000 index 00000000..0da565a5 --- /dev/null +++ b/config/hpccf/franklin/v0.21/core/modules.yaml @@ -0,0 +1 @@ +../common/modules.yaml \ No newline at end of file diff --git a/config/hpccf/franklin/v0.21/core/packages.yaml b/config/hpccf/franklin/v0.21/core/packages.yaml new file mode 120000 index 00000000..cbd4908f --- /dev/null +++ b/config/hpccf/franklin/v0.21/core/packages.yaml @@ -0,0 +1 @@ +../common/packages.yaml \ No newline at end of file diff --git a/config/hpccf/franklin/v0.21/core/repos.yaml b/config/hpccf/franklin/v0.21/core/repos.yaml new file mode 120000 index 00000000..7f98e2a6 --- /dev/null +++ b/config/hpccf/franklin/v0.21/core/repos.yaml @@ -0,0 +1 @@ +../common/repos.yaml \ No newline at end of file diff --git a/config/hpccf/franklin/v0.21/software/compilers.yaml b/config/hpccf/franklin/v0.21/software/compilers.yaml new file mode 100644 index 00000000..62cae2d2 --- /dev/null +++ b/config/hpccf/franklin/v0.21/software/compilers.yaml @@ -0,0 +1,82 @@ +compilers: +- compiler: + spec: gcc@=13.2.0 + paths: + cc: /share/apps/22.04/spack/environments/core/view/compilers/gcc-13.2.0/bin/gcc + cxx: /share/apps/22.04/spack/environments/core/view/compilers/gcc-13.2.0/bin/g++ + f77: /share/apps/22.04/spack/environments/core/view/compilers/gcc-13.2.0/bin/gfortran + fc: /share/apps/22.04/spack/environments/core/view/compilers/gcc-13.2.0/bin/gfortran + flags: {} + operating_system: ubuntu22.04 + target: x86_64 + modules: [] + environment: {} + extra_rpaths: [] +- compiler: + spec: gcc@=11.4.0 + paths: + cc: /share/apps/22.04/spack/environments/core/view/compilers/gcc-11.4.0/bin/gcc + cxx: /share/apps/22.04/spack/environments/core/view/compilers/gcc-11.4.0/bin/g++ + f77: /share/apps/22.04/spack/environments/core/view/compilers/gcc-11.4.0/bin/gfortran + fc: /share/apps/22.04/spack/environments/core/view/compilers/gcc-11.4.0/bin/gfortran + flags: {} + operating_system: ubuntu22.04 + target: x86_64 + modules: [] + environment: {} + extra_rpaths: [] +- compiler: + spec: gcc@=7.5.0 + paths: + cc: /share/apps/22.04/spack/environments/core/view/compilers/gcc-7.5.0/bin/gcc + cxx: /share/apps/22.04/spack/environments/core/view/compilers/gcc-7.5.0/bin/g++ + f77: /share/apps/22.04/spack/environments/core/view/compilers/gcc-7.5.0/bin/gfortran + fc: /share/apps/22.04/spack/environments/core/view/compilers/gcc-7.5.0/bin/gfortran + flags: {} + operating_system: ubuntu22.04 + target: x86_64 + modules: [] + environment: {} + extra_rpaths: [] +- compiler: + spec: dpcpp@=2023.2.0 + paths: + cc: /share/apps/22.04/spack/environments/core/view/compilers/intel-oneapi-compilers-2023.2.1/compiler/latest/linux/bin/icx + cxx: /share/apps/22.04/spack/environments/core/view/compilers/intel-oneapi-compilers-2023.2.1/compiler/latest/linux/bin/dpcpp + f77: /share/apps/22.04/spack/environments/core/view/compilers/intel-oneapi-compilers-2023.2.1/compiler/latest/linux/bin/ifx + fc: /share/apps/22.04/spack/environments/core/view/compilers/intel-oneapi-compilers-2023.2.1/compiler/latest/linux/bin/ifx + flags: {} + operating_system: ubuntu22.04 + target: x86_64 + modules: [] + environment: {} + extra_rpaths: ['/share/apps/22.04/spack/environments/core/view/compilers/intel-oneapi-compilers-2023.2.1/compiler/2023.2.1/linux/compiler/lib/intel64_lin'] +- compiler: + spec: oneapi@=2023.2.0 + paths: + cc: /share/apps/22.04/spack/environments/core/view/compilers/intel-oneapi-compilers-2023.2.1/compiler/latest/linux/bin/icx + cxx: /share/apps/22.04/spack/environments/core/view/compilers/intel-oneapi-compilers-2023.2.1/compiler/latest/linux/bin/icpx + f77: /share/apps/22.04/spack/environments/core/view/compilers/intel-oneapi-compilers-2023.2.1/compiler/latest/linux/bin/ifx + fc: /share/apps/22.04/spack/environments/core/view/compilers/intel-oneapi-compilers-2023.2.1/compiler/latest/linux/bin/ifx + flags: {} + operating_system: ubuntu22.04 + target: x86_64 + modules: [] + environment: {} + extra_rpaths: ['/share/apps/22.04/spack/environments/core/view/compilers/intel-oneapi-compilers-2023.2.1/compiler/2023.2.1/linux/compiler/lib/intel64_lin'] +- compiler: + spec: aocc@=4.1.0 + paths: + cc: /share/apps/22.04/spack/environments/core/view/compilers/aocc-4.1.0/bin/clang + cxx: /share/apps/22.04/spack/environments/core/view/compilers/aocc-4.1.0/bin/clang++ + f77: /share/apps/22.04/spack/environments/core/view/compilers/aocc-4.1.0/bin/flang + fc: /share/apps/22.04/spack/environments/core/view/compilers/aocc-4.1.0/bin/flang + flags: + cflags: null + cxxflags: null + fflags: null + operating_system: ubuntu22.04 + target: x86_64 + modules: [] + environment: {} + extra_rpaths: [] diff --git a/config/hpccf/franklin/v0.21/software/concretizer.yaml b/config/hpccf/franklin/v0.21/software/concretizer.yaml new file mode 120000 index 00000000..28c17673 --- /dev/null +++ b/config/hpccf/franklin/v0.21/software/concretizer.yaml @@ -0,0 +1 @@ +../common/concretizer.yaml \ No newline at end of file diff --git a/config/hpccf/franklin/v0.21/software/config.yaml b/config/hpccf/franklin/v0.21/software/config.yaml new file mode 100644 index 00000000..b7eb36f4 --- /dev/null +++ b/config/hpccf/franklin/v0.21/software/config.yaml @@ -0,0 +1,6 @@ +config: + install_tree: + root: /share/apps/22.04/spack/opt/software + template_dirs: + - /share/apps/22.04/spack/spack-ucdavis/templates/ + db_lock_timeout: 60 diff --git a/config/hpccf/franklin/v0.21/software/mirrors.yaml b/config/hpccf/franklin/v0.21/software/mirrors.yaml new file mode 120000 index 00000000..194a7266 --- /dev/null +++ b/config/hpccf/franklin/v0.21/software/mirrors.yaml @@ -0,0 +1 @@ +../common/mirrors.yaml \ No newline at end of file diff --git a/config/hpccf/franklin/v0.21/software/modules.yaml b/config/hpccf/franklin/v0.21/software/modules.yaml new file mode 120000 index 00000000..0da565a5 --- /dev/null +++ b/config/hpccf/franklin/v0.21/software/modules.yaml @@ -0,0 +1 @@ +../common/modules.yaml \ No newline at end of file diff --git a/config/hpccf/franklin/v0.21/software/packages.in.yaml b/config/hpccf/franklin/v0.21/software/packages.in.yaml new file mode 100644 index 00000000..d94e77e8 --- /dev/null +++ b/config/hpccf/franklin/v0.21/software/packages.in.yaml @@ -0,0 +1,72 @@ +packages: + + hwloc: + buildable: false + externals: + - spec: hwloc@2.9.1 target=x86_64_v3 + prefix: /share/apps/22.04/spack/environments/core/view/generic/hwloc-2.9.1 + - spec: hwloc@2.9.1 target=skylake_avx512 + prefix: /share/apps/22.04/spack/environments/core/view/skylake_avx512/hwloc-2.9.1 + - spec: hwloc@2.9.1 target=zen2 + prefix: /share/apps/22.04/spack/environments/core/view/zen2/hwloc-2.9.1 + + libevent: + buildable: false + externals: + - spec: libevent@2.1.12 target=x86_64_v3 + prefix: /share/apps/22.04/spack/environments/core/view/generic/libevent-2.1.12 + - spec: libevent@2.1.12 target=skylake_avx512 + prefix: /share/apps/22.04/spack/environments/core/view/skylake_avx512/libevent-2.1.12 + - spec: libevent@2.1.12 target=zen2 + prefix: /share/apps/22.04/spack/environments/core/view/zen2/libevent-2.1.12 + + openmpi: + buildable: false + externals: + - spec: openmpi@4.1.5 fabrics=ucx schedulers=slurm +legacylaunchers +cuda cuda_arch=75 target=x86_64_v3 + prefix: /share/apps/22.04/spack/environments/core/view/generic/openmpi-4.1.5 + - spec: openmpi@4.1.5 fabrics=ucx schedulers=slurm +legacylaunchers +cuda cuda_arch=75 target=skylake_avx512 + prefix: /share/apps/22.04/spack/environments/core/view/skylake_avx512/openmpi-4.1.5 + - spec: openmpi@4.1.5 fabrics=ucx schedulers=slurm +legacylaunchers +cuda cuda_arch=75 target=zen2 + prefix: /share/apps/22.04/spack/environments/core/view/zen2/openmpi-4.1.5 + + pmix: + buildable: false + externals: + - spec: pmix@4.2.6 target=x86_64_v3 + prefix: /share/apps/22.04/spack/environments/core/view/generic/pmix-4.2.6 + - spec: pmix@4.2.6 target=skylake_avx512 + prefix: /share/apps/22.04/spack/environments/core/view/skylake_avx512/pmix-4.2.6 + - spec: pmix@4.2.6 target=zen2 + prefix: /share/apps/22.04/spack/environments/core/view/zen2/pmix-4.2.6 + + ucx: + buildable: false + externals: + - spec: ucx@1.14.1 +thread_multiple target=x86_64_v3 + prefix: /share/apps/22.04/spack/environments/core/view/generic/ucx-1.14.1 + - spec: ucx@1.14.1 +thread_multiple target=skylake_avx512 + prefix: /share/apps/22.04/spack/environments/core/view/skylake_avx512/ucx-1.14.1 + - spec: ucx@1.14.1 +thread_multiple target=zen2 + prefix: /share/apps/22.04/spack/environments/core/view/zen2/ucx-1.14.1 + + slurm: + buildable: false + externals: + - spec: slurm@23-02-6-1 target=x86_64_v3 + prefix: /share/apps/22.04/spack/environments/core/view/generic/slurm-23-02-6-1 + - spec: slurm@23-02-6-1 target=skylake_avx512 + prefix: /share/apps/22.04/spack/environments/core/view/skylake_avx512/slurm-23-02-6-1 + - spec: slurm@23-02-6-1 target=zen2 + prefix: /share/apps/22.04/spack/environments/core/view/zen2/slurm-23-02-6-1 + + cuda: + buildable: false + externals: + - spec: cuda@11.7.1 + prefix: /share/apps/22.04/spack/environments/core/view/generic/cuda-11.7.1 + - spec: cuda@11.2.2 + prefix: /share/apps/22.04/spack/environments/core/view/generic/cuda-11.2.2 + - spec: cuda@8.0.61 + prefix: /share/apps/22.04/spack/environments/core/view/generic/cuda-8.0.61 + diff --git a/config/hpccf/franklin/v0.21/software/packages.yaml b/config/hpccf/franklin/v0.21/software/packages.yaml new file mode 100644 index 00000000..cfb35355 --- /dev/null +++ b/config/hpccf/franklin/v0.21/software/packages.yaml @@ -0,0 +1,269 @@ +packages: + # When mpi=openmpi, this introduces an unresolvable dependency. + # See https://github.com/spack/spack/issues/15836 for details + hwloc: + buildable: false + externals: + - spec: hwloc@2.9.1 target=x86_64_v3 + prefix: /share/apps/22.04/spack/environments/core/view/generic/hwloc-2.9.1 + - spec: hwloc@2.9.1 target=skylake_avx512 + prefix: /share/apps/22.04/spack/environments/core/view/skylake_avx512/hwloc-2.9.1 + - spec: hwloc@2.9.1 target=zen2 + prefix: /share/apps/22.04/spack/environments/core/view/zen2/hwloc-2.9.1 + require: '@2.9.1 ~netloc +pci +libxml2 +libudev +nvml +cuda +cairo cuda_arch=75' + version: + - 2.9.1 + variants: ~netloc +pci +libxml2 +libudev +nvml +cuda +cairo + libevent: + buildable: false + externals: + - spec: libevent@2.1.12 target=x86_64_v3 + prefix: /share/apps/22.04/spack/environments/core/view/generic/libevent-2.1.12 + - spec: libevent@2.1.12 target=skylake_avx512 + prefix: /share/apps/22.04/spack/environments/core/view/skylake_avx512/libevent-2.1.12 + - spec: libevent@2.1.12 target=zen2 + prefix: /share/apps/22.04/spack/environments/core/view/zen2/libevent-2.1.12 + require: '@2.1.12' + version: + - 2.1.12 + openmpi: + buildable: false + externals: + - spec: openmpi@4.1.5 fabrics=ucx schedulers=slurm +legacylaunchers +cuda cuda_arch=75 target=x86_64_v3 + prefix: /share/apps/22.04/spack/environments/core/view/generic/openmpi-4.1.5 + - spec: openmpi@4.1.5 fabrics=ucx schedulers=slurm +legacylaunchers +cuda cuda_arch=75 target=skylake_avx512 + prefix: /share/apps/22.04/spack/environments/core/view/skylake_avx512/openmpi-4.1.5 + - spec: openmpi@4.1.5 fabrics=ucx schedulers=slurm +legacylaunchers +cuda cuda_arch=75 target=zen2 + prefix: /share/apps/22.04/spack/environments/core/view/zen2/openmpi-4.1.5 + require: + - any_of: + - '@4.1.5 fabrics=ucx schedulers=slurm +legacylaunchers +cuda cuda_arch=75 target=x86_64_v3' + - '@4.1.5 fabrics=ucx schedulers=slurm +legacylaunchers +cuda cuda_arch=75 target=zen2' + - '@4.1.5 fabrics=ucx schedulers=slurm +legacylaunchers +cuda cuda_arch=75 target=skylake_avx512' + version: + - 4.1.5 + variants: fabrics=ucx schedulers=slurm +cuda +legacylaunchers + pmix: + buildable: false + externals: + - spec: pmix@4.2.6 target=x86_64_v3 + prefix: /share/apps/22.04/spack/environments/core/view/generic/pmix-4.2.6 + - spec: pmix@4.2.6 target=skylake_avx512 + prefix: /share/apps/22.04/spack/environments/core/view/skylake_avx512/pmix-4.2.6 + - spec: pmix@4.2.6 target=zen2 + prefix: /share/apps/22.04/spack/environments/core/view/zen2/pmix-4.2.6 + require: '@4.2.6' + version: + - 4.2.6 + ucx: + buildable: false + externals: + - spec: ucx@1.14.1 +thread_multiple target=x86_64_v3 + prefix: /share/apps/22.04/spack/environments/core/view/generic/ucx-1.14.1 + - spec: ucx@1.14.1 +thread_multiple target=skylake_avx512 + prefix: /share/apps/22.04/spack/environments/core/view/skylake_avx512/ucx-1.14.1 + - spec: ucx@1.14.1 +thread_multiple target=zen2 + prefix: /share/apps/22.04/spack/environments/core/view/zen2/ucx-1.14.1 + require: '@1.14.1 +thread_multiple' + version: + - 1.14.1 + variants: +thread_multiple + slurm: + buildable: false + externals: + - spec: slurm@23-02-6-1 target=x86_64_v3 + prefix: /share/apps/22.04/spack/environments/core/view/generic/slurm-23-02-6-1 + - spec: slurm@23-02-6-1 target=skylake_avx512 + prefix: /share/apps/22.04/spack/environments/core/view/skylake_avx512/slurm-23-02-6-1 + - spec: slurm@23-02-6-1 target=zen2 + prefix: /share/apps/22.04/spack/environments/core/view/zen2/slurm-23-02-6-1 + require: '@23-02-6-1 +pmix +mariadb +hwloc +restd sysconfdir=/share/apps/22.04/spack/environments/core/view/generic/slurm-23-02-6-1/etc' + version: + - 23-02-6-1 + variants: +pmix +mariadb +hwloc +restd sysconfdir=/share/apps/22.04/spack/environments/core/view/generic/slurm-23-02-6-1/etc + cuda: + buildable: false + externals: + - spec: cuda@11.7.1 + prefix: /share/apps/22.04/spack/environments/core/view/generic/cuda-11.7.1 + - spec: cuda@11.2.2 + prefix: /share/apps/22.04/spack/environments/core/view/generic/cuda-11.2.2 + - spec: cuda@8.0.61 + prefix: /share/apps/22.04/spack/environments/core/view/generic/cuda-8.0.61 + require: + - any_of: + - '@11.7.1' + - '@11.2.2' + - '@8.0.61' + version: + - 11.7 + - 11.2.2 + - 8.0.61 + #### + # Externals: non-buildable + #### + at-spi2-core: + externals: + - spec: at-spi2-core@2.44.0 %gcc + prefix: /usr + buildable: false + at-spi2-atk: + externals: + - spec: at-spi2-atk@2.38.0 %gcc + prefix: /usr + buildable: false + atk: + externals: + - spec: atk@2.36.0 %gcc + prefix: /usr + buildable: false + bash: + externals: + - spec: bash@5.1.16 %gcc + prefix: /usr + buildable: false + # Addresses krb5 oneapi issue: https://github.com/spack/spack/issues/37172 + bison: + buildable: false + externals: + - spec: bison@3.8.2 + prefix: /usr + cvs: + buildable: false + externals: + - spec: cvs@1.12.13 %gcc + prefix: /usr + gtkplus: + buildable: false + externals: + - spec: gtkplus@3.24.33 %gcc + prefix: /usr + - spec: gtkplus@2.24.33 %gcc + prefix: /usr + pkg-config: + externals: + - spec: pkg-config@0.29.2 %gcc + prefix: /usr + buildable: false + linux-pam: + buildable: false + externals: + - spec: linux-pam@1.4.0 %gcc + prefix: /usr + llvm: + buildable: false + externals: + - spec: llvm@14.0.0+clang~lld~lldb %gcc + prefix: /usr + extra_attributes: + compilers: + c: /usr/bin/clang-14 + cxx: /usr/bin/clang++-14 + mariadb: + externals: + - spec: mariadb@10.8.2 %gcc + prefix: /usr + buildable: false + mariadb-c-client: + externals: + - spec: mariadb-c-client@3 %gcc + prefix: /usr + munge: + externals: + - spec: munge@0.5.14 %gcc + prefix: /usr + buildable: false + opengl: + buildable: false + externals: + - spec: opengl@4.5.0 %gcc + prefix: /usr + openssl: + buildable: false + externals: + - spec: openssl@3.0.2 %gcc + prefix: /usr + subversion: + buildable: false + externals: + - spec: subversion@1.14.1 %gcc + prefix: /usr + wxwidgets: + buildable: false + externals: + - spec: wxwidgets@3.0.2 + prefix: /usr + #### + # Externals: buildable + #### + curl: + externals: + - spec: curl@7.81.0+gssapi+ldap+nghttp2 %gcc + prefix: /usr + rust: + externals: + - spec: rust@1.61.0 %gcc + prefix: /usr + #### + # + # Core stack and libraries + # + #### + # + amdfftw: + require: '@4.1 +openmp' + version: + - 4.1 + variants: +openmp + fftw: + require: '@3.3.10 +openmp' + version: + - 3.3.10 + variants: +openmp + intel-mkl: + require: '@2017.0.098:' + intel-oneapi-mkl: + require: '@2023.2.0' + version: + - 2023.2.0 + mkl: + require: intel-oneapi-mkl + mpi: + require: openmpi + #### + # + # Other package / build tree constraints + # + #### + cairo: + require: +X +ft +fc +pdf +png +gobject + dbus: + require: '@1.12.8 local_state_dir=/var/' + gdal: + variants: +netcdf +sqlite3 +xml2 +grib +hdf5 +curl +geos +cfitsio +crypto +expat +gif +jasper +pcre +png +zstd + gdl: + version: [0.9.8] + variants: +graphicsmagick +python + libxml2: + require: '@2.10.2: +python' + python: + require: ~libxml2 + sqlite: + variants: +rtree + tbb: + require: intel-oneapi-tbb + # xmlto does not build properly with OneAPI + xmlto: + require: "%gcc" + #### + all: + target: [x86_64_v3] + compiler: + - gcc @11.4.0 + providers: + tbb: + - intel-oneapi-tbb + fftw-api: + - fftw + variants: + - cuda_arch=75 diff --git a/config/hpccf/franklin/v0.21/software/repos.yaml b/config/hpccf/franklin/v0.21/software/repos.yaml new file mode 120000 index 00000000..7f98e2a6 --- /dev/null +++ b/config/hpccf/franklin/v0.21/software/repos.yaml @@ -0,0 +1 @@ +../common/repos.yaml \ No newline at end of file diff --git a/config/hpccf/peloton/v0.20.0/compilers.yaml b/config/hpccf/peloton/v0.20.0/compilers.yaml new file mode 100644 index 00000000..36e391da --- /dev/null +++ b/config/hpccf/peloton/v0.20.0/compilers.yaml @@ -0,0 +1,122 @@ +compilers: +- compiler: + spec: gcc@11.3.0 + paths: + cc: /usr/bin/gcc + cxx: /usr/bin/g++ + f77: /usr/bin/gfortran + fc: /usr/bin/gfortran + flags: {} + operating_system: ubuntu22.04 + target: x86_64 + modules: [] + environment: {} + extra_rpaths: [] +- compiler: + spec: gcc@9.5.0 + paths: + cc: /usr/bin/gcc-9 + cxx: /usr/bin/g++-9 + f77: /usr/bin/gfortran-9 + fc: /usr/bin/gfortran-9 + flags: {} + operating_system: ubuntu22.04 + target: x86_64 + modules: [] + environment: {} + extra_rpaths: [] +- compiler: + spec: clang@14.0.0 + paths: + cc: /usr/bin/clang-14 + cxx: /usr/bin/clang++-14 + f77: null + fc: null + flags: {} + operating_system: ubuntu22.04 + target: x86_64 + modules: [] + environment: {} + extra_rpaths: [] +- compiler: + spec: gcc@=7.5.0 + paths: + cc: /share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gcc-7.5.0-arl2gs2ker5foure2u76jkouhq4zbgws/bin/gcc + cxx: /share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gcc-7.5.0-arl2gs2ker5foure2u76jkouhq4zbgws/bin/g++ + f77: /share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gcc-7.5.0-arl2gs2ker5foure2u76jkouhq4zbgws/bin/gfortran + fc: /share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gcc-7.5.0-arl2gs2ker5foure2u76jkouhq4zbgws/bin/gfortran + flags: {} + operating_system: ubuntu22.04 + target: x86_64 + modules: [] + environment: {} + extra_rpaths: [] +- compiler: + spec: gcc@=5.5.0 + paths: + cc: /share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-9.5.0/gcc-5.5.0-eypibrd56kuk3zpvezvvnn3qjpc5knwu/bin/gcc + cxx: /share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-9.5.0/gcc-5.5.0-eypibrd56kuk3zpvezvvnn3qjpc5knwu/bin/g++ + f77: /share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-9.5.0/gcc-5.5.0-eypibrd56kuk3zpvezvvnn3qjpc5knwu/bin/gfortran + fc: /share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-9.5.0/gcc-5.5.0-eypibrd56kuk3zpvezvvnn3qjpc5knwu/bin/gfortran + flags: {} + operating_system: ubuntu22.04 + target: x86_64 + modules: [] + environment: {} + extra_rpaths: [] +- compiler: + spec: gcc@=4.9.4 + paths: + cc: /share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-9.5.0/gcc-4.9.4-f7ftarvmg3uikemzefghlmu3q6sqkmv6/bin/gcc + cxx: /share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-9.5.0/gcc-4.9.4-f7ftarvmg3uikemzefghlmu3q6sqkmv6/bin/g++ + f77: /share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-9.5.0/gcc-4.9.4-f7ftarvmg3uikemzefghlmu3q6sqkmv6/bin/gfortran + fc: /share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-9.5.0/gcc-4.9.4-f7ftarvmg3uikemzefghlmu3q6sqkmv6/bin/gfortran + flags: {} + operating_system: ubuntu22.04 + target: x86_64 + modules: [] + environment: {} + extra_rpaths: [] +- compiler: + spec: dpcpp@=2022.2.1 + paths: + cc: /share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-ludgpxxgyrhramquhp7xxotgjm7xpq6n/compiler/latest/linux/bin/icx + cxx: /share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-ludgpxxgyrhramquhp7xxotgjm7xpq6n/compiler/latest/linux/bin/dpcpp + f77: /share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-ludgpxxgyrhramquhp7xxotgjm7xpq6n/compiler/latest/linux/bin/ifx + fc: /share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-ludgpxxgyrhramquhp7xxotgjm7xpq6n/compiler/latest/linux/bin/ifx + flags: {} + operating_system: ubuntu22.04 + target: x86_64 + modules: [] + environment: {} + extra_rpaths: [] +- compiler: + spec: oneapi@=2022.2.1 + paths: + cc: /share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-ludgpxxgyrhramquhp7xxotgjm7xpq6n/compiler/latest/linux/bin/icx + cxx: /share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-ludgpxxgyrhramquhp7xxotgjm7xpq6n/compiler/latest/linux/bin/icpx + f77: /share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-ludgpxxgyrhramquhp7xxotgjm7xpq6n/compiler/latest/linux/bin/ifx + fc: /share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-ludgpxxgyrhramquhp7xxotgjm7xpq6n/compiler/latest/linux/bin/ifx + flags: {} + operating_system: ubuntu22.04 + target: x86_64 + modules: [] + environment: {} + extra_rpaths: [] +- compiler: + spec: aocc@=3.2.0 + paths: + cc: /share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/aocc-3.2.0-rijlo2ezv4zkhjmm4gvqigdvye2cc72y/bin/clang + cxx: /share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/aocc-3.2.0-rijlo2ezv4zkhjmm4gvqigdvye2cc72y/bin/clang++ + f77: /share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/aocc-3.2.0-rijlo2ezv4zkhjmm4gvqigdvye2cc72y/bin/flang + fc: /share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/aocc-3.2.0-rijlo2ezv4zkhjmm4gvqigdvye2cc72y/bin/flang + flags: + cflags: null + cxxflags: null + fflags: null + operating_system: ubuntu22.04 + target: x86_64 + modules: [] + environment: {} + extra_rpaths: [] + diff --git a/config/hpccf/peloton/v0.20.0/concretizer.yaml b/config/hpccf/peloton/v0.20.0/concretizer.yaml new file mode 100644 index 00000000..b4720ab7 --- /dev/null +++ b/config/hpccf/peloton/v0.20.0/concretizer.yaml @@ -0,0 +1,25 @@ +concretizer: + # Whether to consider installed packages or packages from buildcaches when + # concretizing specs. If `true`, we'll try to use as many installs/binaries + # as possible, rather than building. If `false`, we'll always give you a fresh + # concretization. + reuse: true + # Options that tune which targets are considered for concretization. The + # concretization process is very sensitive to the number targets, and the time + # needed to reach a solution increases noticeably with the number of targets + # considered. + targets: + # Determine whether we want to target specific or generic microarchitectures. + # An example of the first kind might be for instance "skylake" or "bulldozer", + # while generic microarchitectures are for instance "aarch64" or "x86_64_v4". + granularity: microarchitectures + # If "false" allow targets that are incompatible with the current host (for + # instance concretize with target "icelake" while running on "haswell"). + # If "true" only allow targets that are compatible with the host. + host_compatible: false + # When "true" concretize root specs of environments together, so that each unique + # package in an environment corresponds to one concrete spec. This ensures + # environments can always be activated. When "false" perform concretization separately + # on each root spec, allowing different versions and variants of the same package in + # an environment. + unify: when_possible diff --git a/config/hpccf/peloton/v0.20.0/config.yaml b/config/hpccf/peloton/v0.20.0/config.yaml new file mode 100644 index 00000000..85ffa7b0 --- /dev/null +++ b/config/hpccf/peloton/v0.20.0/config.yaml @@ -0,0 +1,4 @@ +config: + template_dirs: + - $spack/../spack-ucdavis/templates/ + db_lock_timeout: 60 diff --git a/config/hpccf/peloton/v0.20.0/mirrors.yaml b/config/hpccf/peloton/v0.20.0/mirrors.yaml new file mode 100644 index 00000000..ead47619 --- /dev/null +++ b/config/hpccf/peloton/v0.20.0/mirrors.yaml @@ -0,0 +1,18 @@ +mirrors: + manual-mirror: + fetch: + url: file:///share/apps/22.04/spack/manual-mirror + access_pair: + - null + - null + access_token: null + profile: null + endpoint_url: null + push: + url: file:///share/apps/22.04/spack/manual-mirror + access_pair: + - null + - null + access_token: null + profile: null + endpoint_url: null diff --git a/config/hpccf/peloton/v0.20.0/modules.yaml b/config/hpccf/peloton/v0.20.0/modules.yaml new file mode 100644 index 00000000..dd620513 --- /dev/null +++ b/config/hpccf/peloton/v0.20.0/modules.yaml @@ -0,0 +1,30 @@ +modules: + + default: + enable:: + - tcl + roots: + tcl: $spack/../../modulefiles/spack/tcl + arch_folder: false + tcl: + verbose: true + hash_length: 0 + exclude_implicits: true + projections: + all: '{name}/{version}' + target=zen2: '{name}/{version}+amd' +# exclude: +# - slurm +# - pmix +# - ucx +# - openmpi + all: + template: hpccf/default.tcl + prerequisites: direct + conflict: + - '{name}' + environment: + set: + '{name}_ROOT': '{prefix}' +# circos: +# template: hpccf/circos-version-warning.tcl diff --git a/config/hpccf/peloton/v0.20.0/packages.yaml b/config/hpccf/peloton/v0.20.0/packages.yaml new file mode 100644 index 00000000..4ce9b804 --- /dev/null +++ b/config/hpccf/peloton/v0.20.0/packages.yaml @@ -0,0 +1,272 @@ +packages: + #### + # Externals: non-buildable + #### + + at-spi2-core: + externals: + - spec: at-spi2-core@2.44.0 %gcc@11.3.0 + prefix: /usr + buildable: false + + at-spi2-atk: + externals: + - spec: at-spi2-atk@2.38.0 %gcc@11.3.0 + prefix: /usr + buildable: false + + atk: + externals: + - spec: atk@2.36.0 + prefix: /usr + buildable: false + + bash: + externals: + - spec: bash@5.1.16 + prefix: /usr + buildable: false + + cvs: + buildable: false + externals: + - spec: cvs@1.12.13 + prefix: /usr + + gcc: + externals: + - spec: gcc@11.3.0 + prefix: /usr + extra_attributes: + compilers: + cc: /usr/bin/gcc + cxx: /usr/bin/g++ + f77: /usr/bin/gfortran + fc: /usr/bin/gfortran + - spec: gcc@9.5.0 + prefix: /usr + extra_attributes: + compilers: + cc: /usr/bin/gcc-9 + cxx: /usr/bin/g++-9 + f77: /usr/bin/gfortran-9 + fc: /usr/bin/gfortran-9 + + gtkplus: + buildable: false + externals: + - spec: gtkplus@3.24.33 + prefix: /usr + - spec: gtkplus@2.24.33 + prefix: /usr + + hwloc: + buildable: false + externals: + - spec: hwloc@2.9.0 target=x86_64_v2 + prefix: /share/apps/22.04/manual/hwloc/2.9.0 + - spec: hwloc@2.9.3 target=x86_64_v2 + prefix: /share/apps/22.04/manual/hwloc/2.9.3 + + matlab: + buildable: false + externals: + - spec: matlab@R2023a + prefix: /share/apps/22.04/manual/matlab/R2023a + + pkg-config: + externals: + - spec: pkg-config@0.29.2 + prefix: /usr + buildable: false + + #julia: + # buildable: false + # externals: + # - spec: julia@1.8.5 + # prefix: /share/apps/22.04/julia/1.8.5 + # - spec: julia@1.9.0 + # prefix: /share/apps/22.04/julia/1.9.0 + + libevent: + buildable: false + externals: + - spec: libevent@2.1.12 + prefix: /share/apps/22.04/manual/libevent/2.1.12-stable + + linux-pam: + buildable: false + externals: + - spec: linux-pam@1.4.0 %gcc@11.3.0 + prefix: /usr + + mariadb: + externals: + - spec: mariadb@10.8.2 %gcc@11.3.0 + prefix: /usr + buildable: false + + mariadb-c-client: + externals: + - spec: mariadb-c-client@3 %gcc@11.3.0 + prefix: /usr + + munge: + externals: + - spec: munge@0.5.14 %gcc@11.3.0 + prefix: /usr + buildable: false + + opengl: + buildable: false + externals: + - spec: opengl@4.5.0 %gcc@11.3.0 + prefix: /usr + + openmpi: + buildable: false + # NOTE: we are using the ROMIO variant here, but this is just a fudge for OMPIO, + # as the spack package does not include a variant for it and we do not want to have + # to maintain another package just to add this variant. + variants: ~romio + externals: + - spec: openmpi@4.1.5 fabrics=ucx schedulers=slurm +cuda ~romio + prefix: /share/apps/22.04/manual/openmpi/4.1.5 + - spec: openmpi@4.1.5 fabrics=ucx schedulers=slurm +cuda +romio + prefix: /share/apps/22.04/manual/openmpi/4.1.5-mpi-io + + pmix: + buildable: false + externals: + - spec: pmix@4.2.6 + prefix: /share/apps/22.04/manual/pmix/4.2.6 + + slurm: + buildable: false + externals: + - spec: slurm@23-02-7 +pmix +mariadb +hwloc +restd + prefix: /share/apps/22.04/manual/slurm/23.02.7 + + + subversion: + buildable: false + externals: + - spec: subversion@1.14.1 + prefix: /usr + + ucx: + buildable: false + externals: + - spec: ucx@1.13.1 +thread_multiple + prefix: /share/apps/22.04/manual/ucx/1.13.1 + - spec: ucx@1.14.1 +thread_multiple + prefix: /share/apps/22.04/manual/ucx/1.14.1 + + #### + # Externals: buildable + #### + # + + curl: + externals: + - spec: curl@7.81.0+gssapi+ldap+nghttp2 + prefix: /usr + + llvm: + externals: + - spec: llvm@14.0.0+clang~lld~lldb + prefix: /usr + extra_attributes: + compilers: + c: /usr/bin/clang-14 + cxx: /usr/bin/clang++-14 + + openssl: + externals: + - spec: openssl@3.0.2 + prefix: /usr + + rust: + externals: + - spec: rust@1.61.0 + prefix: /usr + + #### + # Package requirements and variants + #### + # + + amdfftw: + require: '@3.2 +openmp' + version: + - 3.2 + variants: +openmp + + cairo: + require: +X +ft +fc +pdf +png +gobject + + dbus: + require: '@1.12.8 local_state_dir=/var/' + + fftw: + require: '@3.3.10 +openmp' + version: + - 3.3.10 + variants: +openmp + + gdal: + variants: +netcdf +sqlite3 +xml2 +grib +hdf5 +curl +geos +cfitsio +crypto +expat + +gif +jasper +pcre +png +zstd + + gdl: + version: [0.9.8] + variants: +graphicsmagick +python + + intel-mkl: + require: '@2017.0.098:' + + intel-oneapi-mkl: + require: '@2022.2.1' + version: + - 2022.2.1 + + libxml2: + require: '@2.10.2: +python' + + lmod: + require: '@8.7.14 modulepath_root=/share/apps/spack/modulefiles/' + version: + - 8.7.14 + variants: modulepath_root=/share/apps/spack/modulefiles/ + + mkl: + require: intel-oneapi-mkl + + mpi: + require: openmpi + + python: + require: ~libxml2 + + sqlite: + variants: +rtree + + tbb: + require: intel-oneapi-tbb + + squashfs: + variants: +gzip +lz4 +lzo +xz +zstd + + #### + + all: + target: [x86_64_v2] + compiler: + - gcc@11.3.0 + providers: + tbb: + - intel-oneapi-tbb + fftw-api: + - fftw + variants: + - cuda_arch=75 diff --git a/config/hpccf/peloton/v0.20.0/repos.yaml b/config/hpccf/peloton/v0.20.0/repos.yaml new file mode 100644 index 00000000..9ff815b3 --- /dev/null +++ b/config/hpccf/peloton/v0.20.0/repos.yaml @@ -0,0 +1,17 @@ +# ------------------------------------------------------------------------- +# This is the default spack repository configuration. It includes the +# builtin spack package repository. +# +# Users can override these settings by editing the following files. +# +# Per-spack-instance settings (overrides defaults): +# $SPACK_ROOT/etc/spack/repos.yaml +# +# Per-user settings (overrides default and site settings): +# ~/.spack/repos.yaml +# ------------------------------------------------------------------------- +repos: + - $spack/../spack-ucdavis/repos/hpccf/v0.20 + - $spack/../spack-ucdavis/repos/forked + - $spack/../spack-ucdavis/repos/backports + - $spack/var/spack/repos/builtin diff --git a/config/hpccf/software.hpc/Makefile b/config/hpccf/software.hpc/Makefile new file mode 100644 index 00000000..2942dd5a --- /dev/null +++ b/config/hpccf/software.hpc/Makefile @@ -0,0 +1,7 @@ +all: main/packages.yaml + +main/packages.yaml: main/packages.in.yaml core/packages.yaml + @yq eval-all '. as $$item ireduce ({}; . * $$item)' $^ > $@ + +clean: + @rm -f main/packages.yaml diff --git a/config/hpccf/software.hpc/common/compilers.yaml b/config/hpccf/software.hpc/common/compilers.yaml new file mode 100644 index 00000000..593ddc4e --- /dev/null +++ b/config/hpccf/software.hpc/common/compilers.yaml @@ -0,0 +1,177 @@ +compilers: +- compiler: + spec: gcc@=9.5.0 + paths: + cc: /usr/bin/gcc-9 + cxx: /usr/bin/g++-9 + f77: /usr/bin/gfortran-9 + fc: /usr/bin/gfortran-9 + flags: {} + operating_system: ubuntu22.04 + target: x86_64 + modules: [] + environment: {} + extra_rpaths: [] +- compiler: + spec: gcc@=13.2.0 + paths: + cc: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-13.2.0/bin/gcc + cxx: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-13.2.0/bin/g++ + f77: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-13.2.0/bin/gfortran + fc: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-13.2.0/bin/gfortran + flags: {} + operating_system: ubuntu22.04 + target: x86_64 + modules: [] + environment: {} + extra_rpaths: [] +- compiler: + spec: gcc@=7.5.0 + paths: + cc: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-7.5.0/bin/gcc + cxx: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-7.5.0/bin/g++ + f77: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-7.5.0/bin/gfortran + fc: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-7.5.0/bin/gfortran + flags: {} + operating_system: ubuntu22.04 + target: x86_64 + modules: [] + environment: {} + extra_rpaths: [] +- compiler: + spec: gcc@=11.4.0 + paths: + cc: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-11.4.0/bin/gcc + cxx: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-11.4.0/bin/g++ + f77: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-11.4.0/bin/gfortran + fc: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-11.4.0/bin/gfortran + flags: {} + operating_system: ubuntu22.04 + target: x86_64 + modules: [] + environment: {} + extra_rpaths: [] +- compiler: + spec: clang@=14.0.6 + paths: + cc: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-14.0.6/bin/clang + cxx: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-14.0.6/bin/clang++ + f77: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-14.0.6/bin/flang + fc: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-14.0.6/bin/flang + flags: {} + operating_system: ubuntu22.04 + target: x86_64 + modules: [] + environment: {} + extra_rpaths: [] +- compiler: + spec: clang@=16.0.6 + paths: + cc: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-16.0.6/bin/clang + cxx: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-16.0.6/bin/clang++ + f77: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-16.0.6/bin/flang + fc: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-16.0.6/bin/flang + flags: {} + operating_system: ubuntu22.04 + target: x86_64 + modules: [] + environment: {} + extra_rpaths: [] +- compiler: + spec: clang@=19.1.3 + paths: + cc: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-19.1.3/bin/clang + cxx: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-19.1.3/bin/clang++ + f77: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-19.1.3/bin/flang + fc: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-19.1.3/bin/flang + flags: {} + operating_system: ubuntu22.04 + target: x86_64 + modules: [] + environment: {} + extra_rpaths: [] +- compiler: + spec: oneapi@=2023.2.0 + paths: + cc: /cvmfs/hpc.ucdavis.edu/sw/spack/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-compilers-2023.2.1-xurh4ceudg3gkozq727pv7oxuczkqbc2/compiler/latest/linux/bin/icx + cxx: /cvmfs/hpc.ucdavis.edu/sw/spack/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-compilers-2023.2.1-xurh4ceudg3gkozq727pv7oxuczkqbc2/compiler/latest/linux/bin/icpx + f77: /cvmfs/hpc.ucdavis.edu/sw/spack/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-compilers-2023.2.1-xurh4ceudg3gkozq727pv7oxuczkqbc2/compiler/latest/linux/bin/ifx + fc: /cvmfs/hpc.ucdavis.edu/sw/spack/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-compilers-2023.2.1-xurh4ceudg3gkozq727pv7oxuczkqbc2/compiler/latest/linux/bin/ifx + flags: {} + operating_system: ubuntu22.04 + target: x86_64 + modules: [] + environment: {} + extra_rpaths: [] +- compiler: + spec: oneapi@=2024.0.2 + paths: + cc: /cvmfs/hpc.ucdavis.edu/sw/spack/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-compilers-2024.0.2-cknpyng3n6wgcxfifilfrxgcsl4hntrp/compiler/latest/bin/icx + cxx: /cvmfs/hpc.ucdavis.edu/sw/spack/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-compilers-2024.0.2-cknpyng3n6wgcxfifilfrxgcsl4hntrp/compiler/latest/bin/icpx + f77: /cvmfs/hpc.ucdavis.edu/sw/spack/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-compilers-2024.0.2-cknpyng3n6wgcxfifilfrxgcsl4hntrp/compiler/latest/bin/ifx + fc: /cvmfs/hpc.ucdavis.edu/sw/spack/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-compilers-2024.0.2-cknpyng3n6wgcxfifilfrxgcsl4hntrp/compiler/latest/bin/ifx + flags: {} + operating_system: ubuntu22.04 + target: x86_64 + modules: [] + environment: {} + extra_rpaths: [] +- compiler: + spec: aocc@=3.2.0 + paths: + cc: /cvmfs/hpc.ucdavis.edu/sw/spack/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/aocc-3.2.0-fh6i2v6mt2l6xa34v4gskyoj77wq35fs/bin/clang + cxx: /cvmfs/hpc.ucdavis.edu/sw/spack/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/aocc-3.2.0-fh6i2v6mt2l6xa34v4gskyoj77wq35fs/bin/clang++ + f77: /cvmfs/hpc.ucdavis.edu/sw/spack/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/aocc-3.2.0-fh6i2v6mt2l6xa34v4gskyoj77wq35fs/bin/flang + fc: /cvmfs/hpc.ucdavis.edu/sw/spack/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/aocc-3.2.0-fh6i2v6mt2l6xa34v4gskyoj77wq35fs/bin/flang + flags: + cflags: null + cxxflags: null + fflags: null + operating_system: ubuntu22.04 + target: x86_64 + modules: [] + environment: {} + extra_rpaths: [] +- compiler: + spec: aocc@=4.2.0 + paths: + cc: /cvmfs/hpc.ucdavis.edu/sw/spack/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/aocc-4.2.0-g5sywp4fch723ndjdcwf6ngd3kvrxsi3/bin/clang + cxx: /cvmfs/hpc.ucdavis.edu/sw/spack/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/aocc-4.2.0-g5sywp4fch723ndjdcwf6ngd3kvrxsi3/bin/clang++ + f77: /cvmfs/hpc.ucdavis.edu/sw/spack/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/aocc-4.2.0-g5sywp4fch723ndjdcwf6ngd3kvrxsi3/bin/flang + fc: /cvmfs/hpc.ucdavis.edu/sw/spack/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/aocc-4.2.0-g5sywp4fch723ndjdcwf6ngd3kvrxsi3/bin/flang + flags: + cflags: null + cxxflags: null + fflags: null + operating_system: ubuntu22.04 + target: x86_64 + modules: [] + environment: {} + extra_rpaths: [] +- compiler: + spec: nvhpc@=24.1 + paths: + cc: /cvmfs/hpc.ucdavis.edu/sw/spack/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/nvhpc-24.1-qtthwpcavqbljxtyrusc33mhpi3h6xsi/Linux_x86_64/2024/compilers/bin/nvc + cxx: /cvmfs/hpc.ucdavis.edu/sw/spack/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/nvhpc-24.1-qtthwpcavqbljxtyrusc33mhpi3h6xsi/Linux_x86_64/2024/compilers/bin/nvc++ + f77: /cvmfs/hpc.ucdavis.edu/sw/spack/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/nvhpc-24.1-qtthwpcavqbljxtyrusc33mhpi3h6xsi/Linux_x86_64/2024/compilers/bin/nvfortran + fc: /cvmfs/hpc.ucdavis.edu/sw/spack/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/nvhpc-24.1-qtthwpcavqbljxtyrusc33mhpi3h6xsi/Linux_x86_64/2024/compilers/bin/nvfortran + flags: {} + operating_system: ubuntu22.04 + target: x86_64 + modules: [] + environment: {} + extra_rpaths: [] +- compiler: + spec: nvhpc@=22.9 + paths: + cc: /cvmfs/hpc.ucdavis.edu/sw/spack/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/nvhpc-22.9-plixznccrff4dzkwzbga43oysmmqdyjm/Linux_x86_64/2022/compilers/bin/nvc + cxx: /cvmfs/hpc.ucdavis.edu/sw/spack/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/nvhpc-22.9-plixznccrff4dzkwzbga43oysmmqdyjm/Linux_x86_64/2022/compilers/bin/nvc++ + f77: /cvmfs/hpc.ucdavis.edu/sw/spack/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/nvhpc-22.9-plixznccrff4dzkwzbga43oysmmqdyjm/Linux_x86_64/2022/compilers/bin/nvfortran + fc: /cvmfs/hpc.ucdavis.edu/sw/spack/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/nvhpc-22.9-plixznccrff4dzkwzbga43oysmmqdyjm/Linux_x86_64/2022/compilers/bin/nvfortran + flags: {} + operating_system: ubuntu22.04 + target: x86_64 + modules: [] + environment: {} + extra_rpaths: [] + diff --git a/config/hpccf/software.hpc/common/concretizer.yaml b/config/hpccf/software.hpc/common/concretizer.yaml new file mode 100644 index 00000000..b4720ab7 --- /dev/null +++ b/config/hpccf/software.hpc/common/concretizer.yaml @@ -0,0 +1,25 @@ +concretizer: + # Whether to consider installed packages or packages from buildcaches when + # concretizing specs. If `true`, we'll try to use as many installs/binaries + # as possible, rather than building. If `false`, we'll always give you a fresh + # concretization. + reuse: true + # Options that tune which targets are considered for concretization. The + # concretization process is very sensitive to the number targets, and the time + # needed to reach a solution increases noticeably with the number of targets + # considered. + targets: + # Determine whether we want to target specific or generic microarchitectures. + # An example of the first kind might be for instance "skylake" or "bulldozer", + # while generic microarchitectures are for instance "aarch64" or "x86_64_v4". + granularity: microarchitectures + # If "false" allow targets that are incompatible with the current host (for + # instance concretize with target "icelake" while running on "haswell"). + # If "true" only allow targets that are compatible with the host. + host_compatible: false + # When "true" concretize root specs of environments together, so that each unique + # package in an environment corresponds to one concrete spec. This ensures + # environments can always be activated. When "false" perform concretization separately + # on each root spec, allowing different versions and variants of the same package in + # an environment. + unify: when_possible diff --git a/config/hpccf/software.hpc/common/config.yaml b/config/hpccf/software.hpc/common/config.yaml new file mode 100644 index 00000000..5e227a1b --- /dev/null +++ b/config/hpccf/software.hpc/common/config.yaml @@ -0,0 +1,4 @@ +config: + template_dirs: + - /cvmfs/hpc.ucdavis.edu/sw/spack/spack-ucdavis/templates/ + db_lock_timeout: 60 diff --git a/config/hpccf/software.hpc/common/mirrors.yaml b/config/hpccf/software.hpc/common/mirrors.yaml new file mode 100644 index 00000000..ae5ca237 --- /dev/null +++ b/config/hpccf/software.hpc/common/mirrors.yaml @@ -0,0 +1,8 @@ +mirrors: + #v0.23.0: https://binaries.spack.io/v0.23.0 + manual: + url: file:///cvmfs/hpc.ucdavis.edu/sw/spack/manual-mirror + binary: false + source: true + signed: false + diff --git a/config/hpccf/software.hpc/common/modules.yaml b/config/hpccf/software.hpc/common/modules.yaml new file mode 100644 index 00000000..7b94de98 --- /dev/null +++ b/config/hpccf/software.hpc/common/modules.yaml @@ -0,0 +1,24 @@ +modules: + default: + arch_folder: true + enable:: + - tcl + tcl: + verbose: true + hash_length: 0 + hide_implicits: true + projections: + all: '{name}/{version}' + # target=x86_64_v3: 'generic/{name}/{version}' + # target=skylake_avx512: 'skylake_avx512/{name}/{version}' + # target=zen2: 'zen2/{name}/{version}' + # target=zen3: 'zen3/{name}/{version}' + all: + autoload: run + template: hpccf/default.tcl + conflict: + - '{name}' + environment: + set: + '{name}_ROOT': '{prefix}' + diff --git a/config/hpccf/software.hpc/common/packages.yaml b/config/hpccf/software.hpc/common/packages.yaml new file mode 100644 index 00000000..6c20e6c0 --- /dev/null +++ b/config/hpccf/software.hpc/common/packages.yaml @@ -0,0 +1,137 @@ +packages: + + #### + # Externals: non-buildable + #### + + mariadb: + externals: + - spec: mariadb@10.8.2 %gcc + prefix: /usr + buildable: false + + munge: + externals: + - spec: munge@0.5.14 %gcc + prefix: /usr + buildable: false + + #### + # Externals: buildable + #### + + + mariadb-c-client: + externals: + - spec: mariadb-c-client@3 %gcc + prefix: /usr + + #### + # + # Core stack and libraries + # + #### + # + + nvhpc: + require: '+blas +lapack +mpi' + + rust: + require: '+dev' + + slurm: + require: '+pmix +mariadb +hwloc +restd +nvml +cgroup +pam sysconfdir=/etc/slurm' + + ucx: + require: '+thread_multiple' + + openmpi: + require: + - spec: '+atomics fabrics=ucx schedulers=slurm +cuda cuda_arch=75,86' + message: 'openmpi: always enforce these variants' + when: '@:' + - spec: '+legacylaunchers' + message: 'openmpi: legacylaunchers for versions @:4' + when: '@:4' + - spec: 'romio-filesystem=nfs,quobytefs' + when: '@5:' + message: 'openmpi: romio-filesystem variants for @5:' + + mpich: + require: 'netmod=ucx pmi=pmix +cuda cuda_arch=75,86' + + environment-modules: + variants: etcdir=/etc/environment-modules + + # When mpi=openmpi, this introduces an unresolvable dependency. + # See https://github.com/spack/spack/issues/15836 for details + hwloc: + require: '+pci +libxml2 +libudev +nvml +cuda +cairo cuda_arch=75,86' + + mkl: + require: intel-oneapi-mkl + + mpi: + require: + - any_of: + - openmpi + - mpich + + #### + # + # Other package / build tree constraints + # + #### + + cairo: + require: +X +ft +fc +pdf +png +gobject + + dbus: + require: '@1.13.6 system-socket=/var/run/dbus/system_bus_socket' + + gettext: + require: +libxml2 + + #gdal: + # variants: +netcdf +sqlite3 +xml2 +grib +hdf5 +curl +geos +cfitsio +crypto +expat +gif +jasper +pcre +png +zstd + + #gdl: + # version: [0.9.9] + # variants: +graphicsmagick +python + + #libxml2: + # require: +python + #require: '@2.10.2: +python' + + #python: + #require: ~libxml2 + + sqlite: + variants: +rtree + + tbb: + require: intel-oneapi-tbb + + # xmlto does not build properly with OneAPI + xmlto: + require: "%gcc" + + squashfs: + variants: +gzip +lz4 +lzo +xz +zstd + + #### + + all: + target: [x86_64_v3] + compiler: + - gcc @13.2.0 + providers: + tbb: + - intel-oneapi-tbb + fftw-api: + - fftw + mpi: + - openmpi + variants: + - cuda_arch=75 + diff --git a/config/hpccf/software.hpc/common/repos.yaml b/config/hpccf/software.hpc/common/repos.yaml new file mode 100644 index 00000000..88a478c3 --- /dev/null +++ b/config/hpccf/software.hpc/common/repos.yaml @@ -0,0 +1,4 @@ +repos: + - /cvmfs/hpc.ucdavis.edu/sw/spack/spack-ucdavis/repos/hpccf + - /cvmfs/hpc.ucdavis.edu/sw/spack/spack-ucdavis/repos/forked + - $spack/var/spack/repos/builtin diff --git a/config/hpccf/software.hpc/core/compilers.yaml b/config/hpccf/software.hpc/core/compilers.yaml new file mode 120000 index 00000000..d74fc4d2 --- /dev/null +++ b/config/hpccf/software.hpc/core/compilers.yaml @@ -0,0 +1 @@ +../common/compilers.yaml \ No newline at end of file diff --git a/config/hpccf/software.hpc/core/concretizer.yaml b/config/hpccf/software.hpc/core/concretizer.yaml new file mode 120000 index 00000000..28c17673 --- /dev/null +++ b/config/hpccf/software.hpc/core/concretizer.yaml @@ -0,0 +1 @@ +../common/concretizer.yaml \ No newline at end of file diff --git a/config/hpccf/software.hpc/core/config.yaml b/config/hpccf/software.hpc/core/config.yaml new file mode 100644 index 00000000..e2cc2a3a --- /dev/null +++ b/config/hpccf/software.hpc/core/config.yaml @@ -0,0 +1,13 @@ +config: + install_tree: + root: /cvmfs/hpc.ucdavis.edu/sw/spack/core + build_stage: + - /dev/shm/spack-tmp/$user/spack-stage + - $user_cache_path/stage + source_cache: /dev/shm/spack-source/core + template_dirs: + - /cvmfs/hpc.ucdavis.edu/sw/spack/spack-ucdavis/templates + db_lock_timeout: 60 + deprecated: true + extensions: + - /cvmfs/hpc.ucdavis.edu/sw/spack/spack-manager diff --git a/config/hpccf/software.hpc/core/mirrors.yaml b/config/hpccf/software.hpc/core/mirrors.yaml new file mode 120000 index 00000000..194a7266 --- /dev/null +++ b/config/hpccf/software.hpc/core/mirrors.yaml @@ -0,0 +1 @@ +../common/mirrors.yaml \ No newline at end of file diff --git a/config/hpccf/software.hpc/core/modules.yaml b/config/hpccf/software.hpc/core/modules.yaml new file mode 100644 index 00000000..ac8ba855 --- /dev/null +++ b/config/hpccf/software.hpc/core/modules.yaml @@ -0,0 +1,4 @@ +modules: + default: + enable:: [] + diff --git a/config/hpccf/software.hpc/core/packages.yaml b/config/hpccf/software.hpc/core/packages.yaml new file mode 120000 index 00000000..cbd4908f --- /dev/null +++ b/config/hpccf/software.hpc/core/packages.yaml @@ -0,0 +1 @@ +../common/packages.yaml \ No newline at end of file diff --git a/config/hpccf/software.hpc/core/repos.yaml b/config/hpccf/software.hpc/core/repos.yaml new file mode 120000 index 00000000..7f98e2a6 --- /dev/null +++ b/config/hpccf/software.hpc/core/repos.yaml @@ -0,0 +1 @@ +../common/repos.yaml \ No newline at end of file diff --git a/config/hpccf/software.hpc/main/compilers.yaml b/config/hpccf/software.hpc/main/compilers.yaml new file mode 100644 index 00000000..66c64515 --- /dev/null +++ b/config/hpccf/software.hpc/main/compilers.yaml @@ -0,0 +1,137 @@ +compilers: +- compiler: + spec: gcc@=9.5.0 + paths: + cc: /usr/bin/gcc-9 + cxx: /usr/bin/g++-9 + f77: /usr/bin/gfortran-9 + fc: /usr/bin/gfortran-9 + flags: {} + operating_system: ubuntu22.04 + target: x86_64 + modules: [] + environment: {} + extra_rpaths: [] + #- compiler: + # spec: gcc@=13.2.0 + # paths: + # cc: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-13.2.0/bin/gcc + # cxx: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-13.2.0/bin/g++ + # f77: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-13.2.0/bin/gfortran + # fc: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-13.2.0/bin/gfortran + # flags: {} + # operating_system: ubuntu22.04 + # target: x86_64 + # modules: [] + # environment: {} + # extra_rpaths: [] + #- compiler: + # spec: gcc@=11.4.0 + # paths: + # cc: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-11.4.0/bin/gcc + # cxx: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-11.4.0/bin/g++ + # f77: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-11.4.0/bin/gfortran + # fc: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-11.4.0/bin/gfortran + # flags: {} + # operating_system: ubuntu22.04 + # target: x86_64 + # modules: [] + # environment: {} + # extra_rpaths: [] + #- compiler: + # spec: gcc@=7.5.0 + # paths: + # cc: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-7.5.0/bin/gcc + # cxx: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-7.5.0/bin/g++ + # f77: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-7.5.0/bin/gfortran + # fc: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-7.5.0/bin/gfortran + # flags: {} + # operating_system: ubuntu22.04 + # target: x86_64 + # modules: [] + # environment: {} + # extra_rpaths: [] + #- compiler: + # spec: oneapi@=2023.2.0 + # paths: + # cc: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/intel-oneapi-compilers-2023.2.1/compiler/latest/linux/bin/icx + # cxx: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/intel-oneapi-compilers-2023.2.1/compiler/latest/linux/bin/icpx + # f77: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/intel-oneapi-compilers-2023.2.1/compiler/latest/linux/bin/ifx + # fc: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/intel-oneapi-compilers-2023.2.1/compiler/latest/linux/bin/ifx + # flags: {} + # operating_system: ubuntu22.04 + # target: x86_64 + # modules: [] + # environment: {} + # extra_rpaths: [/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/intel-oneapi-compilers-2023.2.1/compiler/2023.2.1/linux/compiler/lib/intel64_lin] + #- compiler: + # spec: aocc@=4.1.0 + # paths: + # cc: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/aocc-4.1.0/bin/clang + # cxx: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/aocc-4.1.0/bin/clang++ + # f77: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/aocc-4.1.0/bin/flang + # fc: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/aocc-4.1.0/bin/flang + # flags: + # cflags: null + # cxxflags: null + # fflags: null + # operating_system: ubuntu22.04 + # target: x86_64 + # modules: [] + # environment: {} + # extra_rpaths: [] + #- compiler: + # spec: nvhpc@=22.9 + # paths: + # cc: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/nvhpc-22.9/Linux_x86_64/2022/compilers/bin/nvc + # cxx: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/nvhpc-22.9/Linux_x86_64/2022/compilers/bin/nvc++ + # f77: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/nvhpc-22.9/Linux_x86_64/2022/compilers/bin/nvfortran + # fc: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/nvhpc-22.9/Linux_x86_64/2022/compilers/bin/nvfortran + # flags: {} + # operating_system: ubuntu22.04 + # target: x86_64 + # modules: [] + # environment: {} + # extra_rpaths: [] + #- compiler: + # spec: intel@=2021.11.1 + # paths: + # cc: null + # cxx: null + # f77: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/intel-oneapi-compilers-2024.0.2/compiler/latest/bin/ifort + # fc: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/intel-oneapi-compilers-2024.0.2/compiler/latest/bin/ifort + # flags: {} + # operating_system: ubuntu22.04 + # target: x86_64 + # modules: [] + # environment: {} + # extra_rpaths: [] + #- compiler: + # spec: oneapi@=2024.0.2 + # paths: + # cc: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/intel-oneapi-compilers-2024.0.2/compiler/latest/bin/icx + # cxx: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/intel-oneapi-compilers-2024.0.2/compiler/latest/bin/icpx + # f77: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/intel-oneapi-compilers-2024.0.2/compiler/latest/bin/ifx + # fc: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/intel-oneapi-compilers-2024.0.2/compiler/latest/bin/ifx + # flags: {} + # operating_system: ubuntu22.04 + # target: x86_64 + # modules: [] + # environment: {} + # extra_rpaths: [] + #- compiler: + # spec: aocc@=3.2.0 + # paths: + # cc: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/aocc-3.2.0/bin/clang + # cxx: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/aocc-3.2.0/bin/clang++ + # f77: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/aocc-3.2.0/bin/flang + # fc: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/aocc-3.2.0/bin/flang + # flags: + # cflags: null + # cxxflags: null + # fflags: null + # operating_system: ubuntu22.04 + # target: x86_64 + # modules: [] + # environment: {} + # extra_rpaths: [] diff --git a/config/hpccf/software.hpc/main/concretizer.yaml b/config/hpccf/software.hpc/main/concretizer.yaml new file mode 120000 index 00000000..28c17673 --- /dev/null +++ b/config/hpccf/software.hpc/main/concretizer.yaml @@ -0,0 +1 @@ +../common/concretizer.yaml \ No newline at end of file diff --git a/config/hpccf/software.hpc/main/config.yaml b/config/hpccf/software.hpc/main/config.yaml new file mode 100644 index 00000000..3f171ab7 --- /dev/null +++ b/config/hpccf/software.hpc/main/config.yaml @@ -0,0 +1,13 @@ +config: + install_tree: + root: /cvmfs/hpc.ucdavis.edu/sw/spack/main + build_stage: + - /dev/shm/spack-tmp/$user/spack-stage + - $user_cache_path/stage + source_cache: /dev/shm/spack-source/main + template_dirs: + - /cvmfs/hpc.ucdavis.edu/sw/spack/spack-ucdavis/templates + db_lock_timeout: 60 + deprecated: true + extensions: + - /cvmfs/hpc.ucdavis.edu/sw/spack/spack-manager diff --git a/config/hpccf/software.hpc/main/mirrors.yaml b/config/hpccf/software.hpc/main/mirrors.yaml new file mode 120000 index 00000000..194a7266 --- /dev/null +++ b/config/hpccf/software.hpc/main/mirrors.yaml @@ -0,0 +1 @@ +../common/mirrors.yaml \ No newline at end of file diff --git a/config/hpccf/software.hpc/main/modules.yaml b/config/hpccf/software.hpc/main/modules.yaml new file mode 120000 index 00000000..0da565a5 --- /dev/null +++ b/config/hpccf/software.hpc/main/modules.yaml @@ -0,0 +1 @@ +../common/modules.yaml \ No newline at end of file diff --git a/config/hpccf/software.hpc/main/packages.in.yaml b/config/hpccf/software.hpc/main/packages.in.yaml new file mode 100644 index 00000000..83ae829e --- /dev/null +++ b/config/hpccf/software.hpc/main/packages.in.yaml @@ -0,0 +1,289 @@ +packages: + aocc: + externals: + - spec: aocc@3.2.0+license-agreed target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/aocc-3.2.0 + extra_attributes: + compilers: + c: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/aocc-3.2.0/bin/clang + cxx: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/aocc-3.2.0/bin/clang++ + fortran: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/aocc-3.2.0/bin/flang + - spec: aocc@4.2.0+license-agreed target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/aocc-4.2.0 + extra_attributes: + compilers: + c: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/aocc-4.1.0/bin/clang + cxx: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/aocc-4.1.0/bin/clang++ + fortran: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/aocc-4.1.0/bin/flang + buildable: false + openssl: + externals: + - spec: openssl@3.4.0~docs+shared certs=mozilla target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.4.0 + - spec: openssl@3.4.0~docs+shared certs=mozilla target=zen2 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-3.4.0 + - spec: openssl@3.4.0~docs+shared certs=mozilla target=zen3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-3.4.0 + - spec: openssl@3.2.3~docs+shared certs=mozilla target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.2.3 + - spec: openssl@3.2.3~docs+shared certs=mozilla target=zen2 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-3.2.3 + - spec: openssl@3.2.3~docs+shared certs=mozilla target=zen3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-3.2.3 + - spec: openssl@1.0.2u~docs+shared certs=mozilla target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-1.0.2u + - spec: openssl@1.0.2u~docs+shared certs=mozilla target=zen2 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-1.0.2u + - spec: openssl@1.0.2u~docs+shared certs=mozilla target=zen3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-1.0.2u + - spec: openssl@1.1.1w~docs+shared certs=mozilla target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-1.1.1w + - spec: openssl@1.1.1w~docs+shared certs=mozilla target=zen2 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-1.1.1w + - spec: openssl@1.1.1w~docs+shared certs=mozilla target=zen3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-1.1.1w + - spec: openssl@3.0.15~docs+shared certs=mozilla target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.0.15 + - spec: openssl@3.0.15~docs+shared certs=mozilla target=zen2 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-3.0.15 + - spec: openssl@3.0.15~docs+shared certs=mozilla target=zen3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-3.0.15 + - spec: openssl@3.1.7~docs+shared certs=mozilla target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.1.7 + - spec: openssl@3.1.7~docs+shared certs=mozilla target=zen2 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-3.1.7 + - spec: openssl@3.1.7~docs+shared certs=mozilla target=zen3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-3.1.7 + buildable: false + gcc: + externals: + - spec: gcc@13.2.0~binutils+bootstrap~graphite~nvptx~piclibs~profiled~strip + build_type=RelWithDebInfo languages='c,c++,fortran' target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-13.2.0 + extra_attributes: + compilers: + c: 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default_cuda=default install_type=single + target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/nvhpc-24.1 + extra_attributes: + compilers: + c: /cvmfs/hpc.ucdavis.edu/sw/spack/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/nvhpc-24.1-f7m6orivwro2uyskqhuqrz3aitygju7e/Linux_x86_64/2024/compilers/bin/nvc + cxx: /cvmfs/hpc.ucdavis.edu/sw/spack/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/nvhpc-24.1-f7m6orivwro2uyskqhuqrz3aitygju7e/Linux_x86_64/2024/compilers/bin/nvc++ + fortran: /cvmfs/hpc.ucdavis.edu/sw/spack/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/nvhpc-24.1-f7m6orivwro2uyskqhuqrz3aitygju7e/Linux_x86_64/2024/compilers/bin/nvfortran + - spec: nvhpc@22.9+blas+lapack+mpi default_cuda=default install_type=single + target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/nvhpc-22.9 + extra_attributes: + compilers: + c: /cvmfs/hpc.ucdavis.edu/sw/spack/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/nvhpc-22.9-vsgfdktyg7xf5fj346c7mv4djz3mq6vf/Linux_x86_64/2022/compilers/bin/nvc + cxx: /cvmfs/hpc.ucdavis.edu/sw/spack/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/nvhpc-22.9-vsgfdktyg7xf5fj346c7mv4djz3mq6vf/Linux_x86_64/2022/compilers/bin/nvc++ + fortran: /cvmfs/hpc.ucdavis.edu/sw/spack/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/nvhpc-22.9-vsgfdktyg7xf5fj346c7mv4djz3mq6vf/Linux_x86_64/2022/compilers/bin/nvfortran + buildable: false + environment-modules: + externals: + - spec: environment-modules@5.5.0+X etcdir=/etc/environment-modules target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/environment-modules + buildable: false + slurm: + externals: + - spec: slurm@24-05-5-1+cgroup~gtk~hdf5+hwloc+mariadb+nvml+pam+pmix+readline+restd~rsmi + sysconfdir=/etc/slurm target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/slurm + buildable: false + libevent: + externals: + - spec: libevent@2.1.12+openssl target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/libevent-2.1.12 + - spec: libevent@2.1.12+openssl target=zen2 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/libevent-2.1.12 + - spec: libevent@2.1.12+openssl target=zen3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/libevent-2.1.12 + buildable: false + go: + externals: + - spec: go@1.23.2 target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/go-1.23.2 + buildable: false + julia: + externals: + - spec: julia@1.11.0+openlibm+precompile target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/julia-1.11.0 + buildable: false + jdk: + externals: + - spec: jdk@23.0.1 target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/jdk-23.0.1 + buildable: false + openjdk: + externals: + - spec: 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/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-12.6.2 + - spec: cuda@12.3.0~allow-unsupported-compilers~dev target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-12.3.0 + - spec: cuda@11.7.1~allow-unsupported-compilers~dev target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-11.7.1 + - spec: cuda@11.2.2~allow-unsupported-compilers~dev target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-11.2.2 + - spec: cuda@10.2.89~allow-unsupported-compilers~dev target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-10.2.89 + - spec: cuda@9.2.88~allow-unsupported-compilers~dev target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-9.2.88 + - spec: cuda@8.0.61~allow-unsupported-compilers~dev target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-8.0.61 + buildable: false + mpich: + externals: + - spec: mpich@4.2.1 netmod=ucx pmi=pmix +cuda cuda_arch=75,86 target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/mpich-4.2.1 + - spec: mpich@4.2.1 netmod=ucx pmi=pmix +cuda cuda_arch=75,86 target=zen2 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/mpich-4.2.1 + - spec: mpich@4.2.1 netmod=ucx pmi=pmix +cuda cuda_arch=75,86 target=zen3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/mpich-4.2.1 + buildable: false + openmpi: + externals: + - spec: openmpi@4.1.5 cuda_arch=75,86 fabrics=ucx romio-filesystem=none schedulers=slurm target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openmpi-4.1.5 + - spec: openmpi@4.1.5 cuda_arch=75,86 fabrics=ucx romio-filesystem=none schedulers=slurm target=zen2 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openmpi-4.1.5 + - spec: openmpi@4.1.5 cuda_arch=75,86 fabrics=ucx romio-filesystem=none schedulers=slurm target=zen3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openmpi-4.1.5 + - spec: openmpi@4.1.7 cuda_arch=75,86 fabrics=ucx romio-filesystem=none schedulers=slurm target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openmpi-4.1.7 + - spec: openmpi@4.1.7 cuda_arch=75,86 fabrics=ucx romio-filesystem=none schedulers=slurm target=zen2 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openmpi-4.1.7 + - spec: openmpi@4.1.7 cuda_arch=75,86 fabrics=ucx romio-filesystem=none schedulers=slurm target=zen3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openmpi-4.1.7 + - spec: openmpi@5.0.5 cuda_arch=75,86 fabrics=ucx romio-filesystem=nfs,quobytefs schedulers=slurm target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openmpi-5.0.5 + - spec: openmpi@5.0.5 cuda_arch=75,86 fabrics=ucx romio-filesystem=nfs,quobytefs schedulers=slurm target=zen2 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openmpi-5.0.5 + - spec: openmpi@5.0.5 cuda_arch=75,86 fabrics=ucx romio-filesystem=nfs,quobytefs schedulers=slurm target=zen3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openmpi-5.0.5 + buildable: false + ucx: + externals: + - spec: ucx@1.17.0~assertions~backtrace_detail~cma~cuda~dc~debug~dm+examples~gdrcopy~gtest~ib_hw_tm~java~knem~logging~mlx5_dv+openmp+optimizations~parameter_checking+pic~rc~rdmacm~rocm+thread_multiple~ucg~ud~verbs~vfs~xpmem + libs=shared,static opt=3 simd=auto target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/ucx-1.17.0 + - spec: 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target=zen3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/pmix-4.2.9 + - spec: pmix@5.0.3 target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/pmix-5.0.3 + - spec: pmix@5.0.3 target=zen2 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/pmix-5.0.3 + - spec: pmix@5.0.3 target=zen3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/pmix-5.0.3 + buildable: false + #mpi: + # buildable: false diff --git a/config/hpccf/software.hpc/main/packages.yaml b/config/hpccf/software.hpc/main/packages.yaml new file mode 100644 index 00000000..3c5ad855 --- /dev/null +++ b/config/hpccf/software.hpc/main/packages.yaml @@ -0,0 +1,378 @@ +packages: + aocc: + externals: + - spec: aocc@3.2.0+license-agreed target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/aocc-3.2.0 + extra_attributes: + compilers: + c: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/aocc-3.2.0/bin/clang + cxx: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/aocc-3.2.0/bin/clang++ + fortran: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/aocc-3.2.0/bin/flang + - spec: aocc@4.2.0+license-agreed target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/aocc-4.2.0 + extra_attributes: + compilers: + c: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/aocc-4.1.0/bin/clang + cxx: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/aocc-4.1.0/bin/clang++ + fortran: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/aocc-4.1.0/bin/flang + buildable: false + openssl: + externals: + - spec: openssl@3.4.0~docs+shared certs=mozilla target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.4.0 + - spec: openssl@3.4.0~docs+shared certs=mozilla target=zen2 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-3.4.0 + - spec: openssl@3.4.0~docs+shared certs=mozilla target=zen3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-3.4.0 + - spec: openssl@3.2.3~docs+shared certs=mozilla target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.2.3 + - spec: openssl@3.2.3~docs+shared certs=mozilla target=zen2 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-3.2.3 + - spec: openssl@3.2.3~docs+shared certs=mozilla target=zen3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-3.2.3 + - spec: openssl@1.0.2u~docs+shared certs=mozilla target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-1.0.2u + - spec: openssl@1.0.2u~docs+shared certs=mozilla target=zen2 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-1.0.2u + - spec: openssl@1.0.2u~docs+shared certs=mozilla target=zen3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-1.0.2u + - spec: openssl@1.1.1w~docs+shared certs=mozilla target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-1.1.1w + - spec: openssl@1.1.1w~docs+shared certs=mozilla target=zen2 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-1.1.1w + - spec: openssl@1.1.1w~docs+shared certs=mozilla target=zen3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-1.1.1w + - spec: openssl@3.0.15~docs+shared certs=mozilla target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.0.15 + - spec: openssl@3.0.15~docs+shared certs=mozilla target=zen2 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-3.0.15 + - spec: openssl@3.0.15~docs+shared certs=mozilla target=zen3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-3.0.15 + - spec: openssl@3.1.7~docs+shared certs=mozilla target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.1.7 + - spec: openssl@3.1.7~docs+shared certs=mozilla target=zen2 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-3.1.7 + - spec: openssl@3.1.7~docs+shared certs=mozilla target=zen3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-3.1.7 + buildable: false + gcc: + externals: + - spec: gcc@13.2.0~binutils+bootstrap~graphite~nvptx~piclibs~profiled~strip build_type=RelWithDebInfo languages='c,c++,fortran' target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-13.2.0 + extra_attributes: + compilers: + c: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-13.2.0/bin/gcc + cxx: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-13.2.0/bin/g++ + fortran: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-13.2.0/bin/gfortran + - spec: gcc@11.4.0%gcc@=9.5.0~binutils+bootstrap~graphite~nvptx~piclibs~profiled~strip build_type=RelWithDebInfo languages='c,c++,fortran' target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-11.4.0 + extra_attributes: + compilers: + c: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-11.4.0/bin/gcc + cxx: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-11.4.0/bin/g++ + fortran: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-11.4.0/bin/gfortran + - spec: gcc@7.5.0~binutils+bootstrap~graphite~nvptx~piclibs~profiled~strip build_type=RelWithDebInfo languages='c,c++,fortran' target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-7.5.0 + extra_attributes: + compilers: + c: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-7.5.0/bin/gcc + cxx: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-7.5.0/bin/g++ + fortran: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-7.5.0/bin/gfortran + - spec: gcc@=9.5.0 + prefix: /usr + extra_attributes: + compilers: + c: /usr/bin/gcc-9 + cxx: /usr/bin/g++-9 + fortran: /usr/bin/gfortran-9 + buildable: false + llvm: + externals: + - spec: llvm@14.0.6+clang+flang target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-14.0.6 + extra_attributes: + compilers: + c: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-14.0.6/bin/clang + cxx: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-14.0.6/bin/clang++ + fortran: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-14.0.6/bin/flang + - spec: llvm@16.0.6 +clang+flang target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-16.0.6 + extra_attributes: + compilers: + c: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-16.0.6/bin/clang + cxx: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-16.0.6/bin/clang++ + fortran: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-16.0.6/bin/flang + - spec: llvm@19.1.3+clang+flang target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-19.1.3 + extra_attributes: + compilers: + c: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-19.1.3/bin/clang + cxx: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-19.1.3/bin/clang++ + fortran: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-19.1.3/bin/flang + buildable: False + intel-oneapi-compilers: + externals: + - spec: intel-oneapi-compilers@2024.0.2+envmods target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/intel-oneapi-compilers-2024.0.2 + extra_attributes: + compilers: + c: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/intel-oneapi-compilers-2024.0.2/compiler/latest/bin/icx + cxx: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/intel-oneapi-compilers-2024.0.2/compiler/latest/bin/icpx + fortran: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/intel-oneapi-compilers-2024.0.2/compiler/latest/bin/ifx + - spec: intel-oneapi-compilers@2023.2.1+envmods target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/intel-oneapi-compilers-2023.2.1 + extra_attributes: + compilers: + c: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/intel-oneapi-compilers-2023.2.1/compiler/latest/linux/bin/icx + cxx: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/intel-oneapi-compilers-2023.2.1/compiler/latest/linux/bin/icpx + fortran: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/intel-oneapi-compilers-2023.2.1/compiler/latest/linux/bin/ifx + buildable: false + # When mpi=openmpi, this introduces an unresolvable dependency. + # See https://github.com/spack/spack/issues/15836 for details + hwloc: + externals: + - spec: hwloc@2.11.1+cairo+cuda~gl+libudev+libxml2+nvml~oneapi-level-zero~opencl+pci~rocm cuda_arch=75,86 libs=shared,static target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/hwloc-2.11.1 + - spec: hwloc@2.11.1+cairo+cuda~gl+libudev+libxml2+nvml~oneapi-level-zero~opencl+pci~rocm cuda_arch=75,86 libs=shared,static target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/hwloc-2.11.1 + buildable: false + require: '+pci +libxml2 +libudev +nvml +cuda +cairo cuda_arch=75,86' + #### + # + # Core stack and libraries + # + #### + # + nvhpc: + externals: + - spec: nvhpc@24.1+blas+lapack+mpi default_cuda=default install_type=single target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/nvhpc-24.1 + extra_attributes: + compilers: + c: /cvmfs/hpc.ucdavis.edu/sw/spack/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/nvhpc-24.1-f7m6orivwro2uyskqhuqrz3aitygju7e/Linux_x86_64/2024/compilers/bin/nvc + cxx: /cvmfs/hpc.ucdavis.edu/sw/spack/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/nvhpc-24.1-f7m6orivwro2uyskqhuqrz3aitygju7e/Linux_x86_64/2024/compilers/bin/nvc++ + fortran: /cvmfs/hpc.ucdavis.edu/sw/spack/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/nvhpc-24.1-f7m6orivwro2uyskqhuqrz3aitygju7e/Linux_x86_64/2024/compilers/bin/nvfortran + - spec: nvhpc@22.9+blas+lapack+mpi default_cuda=default install_type=single target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/nvhpc-22.9 + extra_attributes: + compilers: + c: /cvmfs/hpc.ucdavis.edu/sw/spack/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/nvhpc-22.9-vsgfdktyg7xf5fj346c7mv4djz3mq6vf/Linux_x86_64/2022/compilers/bin/nvc + cxx: /cvmfs/hpc.ucdavis.edu/sw/spack/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/nvhpc-22.9-vsgfdktyg7xf5fj346c7mv4djz3mq6vf/Linux_x86_64/2022/compilers/bin/nvc++ + fortran: /cvmfs/hpc.ucdavis.edu/sw/spack/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/nvhpc-22.9-vsgfdktyg7xf5fj346c7mv4djz3mq6vf/Linux_x86_64/2022/compilers/bin/nvfortran + buildable: false + require: '+blas +lapack +mpi' + environment-modules: + externals: + - spec: environment-modules@5.5.0+X etcdir=/etc/environment-modules target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/environment-modules + buildable: false + variants: etcdir=/etc/environment-modules + slurm: + externals: + - spec: slurm@24-05-5-1+cgroup~gtk~hdf5+hwloc+mariadb+nvml+pam+pmix+readline+restd~rsmi sysconfdir=/etc/slurm target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/slurm + buildable: false + require: '+pmix +mariadb +hwloc +restd +nvml +cgroup +pam sysconfdir=/etc/slurm' + libevent: + externals: + - spec: libevent@2.1.12+openssl target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/libevent-2.1.12 + - spec: libevent@2.1.12+openssl target=zen2 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/libevent-2.1.12 + - spec: libevent@2.1.12+openssl target=zen3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/libevent-2.1.12 + buildable: false + go: + externals: + - spec: go@1.23.2 target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/go-1.23.2 + buildable: false + julia: + externals: + - spec: julia@1.11.0+openlibm+precompile target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/julia-1.11.0 + buildable: false + jdk: + externals: + - spec: jdk@23.0.1 target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/jdk-23.0.1 + buildable: false + openjdk: + externals: + - spec: openjdk@11.0.17_8 target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openjdk-11.0.17_8 + - spec: openjdk@16.0.2 target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openjdk-16.0.2 + - spec: openjdk@17.0.11_9 target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openjdk-17.0.11_9 + buildable: false + rust: + externals: + - spec: rust@1.81.0+dev~docs+src target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/rust-1.81.0 + - spec: rust@1.78.0+dev~docs+src target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/rust-1.78.0 + #- spec: rust@1.65.0+dev~docs+src target=x86_64_v3 + # prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/rust-1.65.0 + buildable: false + require: '+dev' + cuda: + externals: + - spec: cuda@12.6.2~allow-unsupported-compilers~dev target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-12.6.2 + - spec: cuda@12.3.0~allow-unsupported-compilers~dev target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-12.3.0 + - spec: cuda@11.7.1~allow-unsupported-compilers~dev target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-11.7.1 + - spec: cuda@11.2.2~allow-unsupported-compilers~dev target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-11.2.2 + - spec: cuda@10.2.89~allow-unsupported-compilers~dev target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-10.2.89 + - spec: cuda@9.2.88~allow-unsupported-compilers~dev target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-9.2.88 + - spec: cuda@8.0.61~allow-unsupported-compilers~dev target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-8.0.61 + buildable: false + mpich: + externals: + - spec: mpich@4.2.1 netmod=ucx pmi=pmix +cuda cuda_arch=75,86 target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/mpich-4.2.1 + - spec: mpich@4.2.1 netmod=ucx pmi=pmix +cuda cuda_arch=75,86 target=zen2 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/mpich-4.2.1 + - spec: mpich@4.2.1 netmod=ucx pmi=pmix +cuda cuda_arch=75,86 target=zen3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/mpich-4.2.1 + buildable: false + require: 'netmod=ucx pmi=pmix +cuda cuda_arch=75,86' + openmpi: + externals: + - spec: openmpi@4.1.5 cuda_arch=75,86 fabrics=ucx romio-filesystem=none schedulers=slurm target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openmpi-4.1.5 + - spec: openmpi@4.1.5 cuda_arch=75,86 fabrics=ucx romio-filesystem=none schedulers=slurm target=zen2 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openmpi-4.1.5 + - spec: openmpi@4.1.5 cuda_arch=75,86 fabrics=ucx romio-filesystem=none schedulers=slurm target=zen3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openmpi-4.1.5 + - spec: openmpi@4.1.7 cuda_arch=75,86 fabrics=ucx romio-filesystem=none schedulers=slurm target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openmpi-4.1.7 + - spec: openmpi@4.1.7 cuda_arch=75,86 fabrics=ucx romio-filesystem=none schedulers=slurm target=zen2 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openmpi-4.1.7 + - spec: openmpi@4.1.7 cuda_arch=75,86 fabrics=ucx romio-filesystem=none schedulers=slurm target=zen3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openmpi-4.1.7 + - spec: openmpi@5.0.5 cuda_arch=75,86 fabrics=ucx romio-filesystem=nfs,quobytefs schedulers=slurm target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openmpi-5.0.5 + - spec: openmpi@5.0.5 cuda_arch=75,86 fabrics=ucx romio-filesystem=nfs,quobytefs schedulers=slurm target=zen2 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openmpi-5.0.5 + - spec: openmpi@5.0.5 cuda_arch=75,86 fabrics=ucx romio-filesystem=nfs,quobytefs schedulers=slurm target=zen3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openmpi-5.0.5 + buildable: false + require: + - spec: '+atomics fabrics=ucx schedulers=slurm +cuda cuda_arch=75,86' + message: 'openmpi: always enforce these variants' + when: '@:' + - spec: '+legacylaunchers' + message: 'openmpi: legacylaunchers for versions @:4' + when: '@:4' + - spec: 'romio-filesystem=nfs,quobytefs' + when: '@5:' + message: 'openmpi: romio-filesystem variants for @5:' + ucx: + externals: + - spec: ucx@1.17.0~assertions~backtrace_detail~cma~cuda~dc~debug~dm+examples~gdrcopy~gtest~ib_hw_tm~java~knem~logging~mlx5_dv+openmp+optimizations~parameter_checking+pic~rc~rdmacm~rocm+thread_multiple~ucg~ud~verbs~vfs~xpmem libs=shared,static opt=3 simd=auto target=x86_64_v3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/ucx-1.17.0 + - spec: ucx@1.17.0~assertions~backtrace_detail~cma~cuda~dc~debug~dm+examples~gdrcopy~gtest~ib_hw_tm~java~knem~logging~mlx5_dv+openmp+optimizations~parameter_checking+pic~rc~rdmacm~rocm+thread_multiple~ucg~ud~verbs~vfs~xpmem libs=shared,static opt=3 simd=auto target=zen2 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/ucx-1.17.0 + - spec: 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+ - spec: pmix@5.0.3 target=zen3 + prefix: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/pmix-5.0.3 + buildable: false + #mpi: + # buildable: false + + #### + # Externals: non-buildable + #### + mariadb: + externals: + - spec: mariadb@10.8.2 %gcc + prefix: /usr + buildable: false + munge: + externals: + - spec: munge@0.5.14 %gcc + prefix: /usr + buildable: false + #### + # Externals: buildable + #### + mariadb-c-client: + externals: + - spec: mariadb-c-client@3 %gcc + prefix: /usr + mkl: + require: intel-oneapi-mkl + mpi: + require: + - any_of: + - openmpi + - mpich + #### + # + # Other package / build tree constraints + # + #### + cairo: + require: +X +ft +fc +pdf +png +gobject + dbus: + require: '@1.13.6 system-socket=/var/run/dbus/system_bus_socket' + gettext: + require: +libxml2 + #gdal: + # variants: +netcdf +sqlite3 +xml2 +grib +hdf5 +curl +geos +cfitsio +crypto +expat +gif +jasper +pcre +png +zstd + + #gdl: + # version: [0.9.9] + # variants: +graphicsmagick +python 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\ No newline at end of file diff --git a/environments/hpccf/franklin/software/spack.yaml b/environments/hpccf/franklin/software/spack.yaml new file mode 100644 index 00000000..35264306 --- /dev/null +++ b/environments/hpccf/franklin/software/spack.yaml @@ -0,0 +1,316 @@ +spack: + definitions: + - relion-cuda: + - relion @5.0-beta +gui +cuda cuda_arch=75 purpose=cluster torch_home=/share/databases/relion/torch conda_python=/share/apps/conda/environments/relion-5.0/bin/python + - relion @4.0.1 +gui +cuda cuda_arch=75 purpose=cluster + - relion @3.1.3 +gui +cuda cuda_arch=75 purpose=cluster + - relion-cpu: + - relion @5.0-beta +gui ~cuda +altcpu purpose=cluster torch_home=/share/databases/relion/torch conda_python=/share/apps/conda/environments/relion-5.0/bin/python + - relion @4.0.1 +gui ~cuda +altcpu purpose=cluster + - relion @3.1.3 +gui ~cuda +altcpu purpose=cluster + - libs-specs: + - amdfftw @4.1 target=zen2 + - blas @0.4.3 + - boost @1.82 + - bzip2 @1.0.8 +shared + - cgal @5.4.1 + - eigen @3.4.0 + - fftw @3.3.10 + - fsl @6.0.5 + - gmp @6.2.1 + - gsl @2.7.1 + - hdf5 @1.14.1-2 + - intel-oneapi-mkl @2023.2.0 %oneapi target=skylake_avx512 + - intel-oneapi-tbb @2021.10.0 %oneapi target=skylake_avx512 + - intel-oneapi-tbb @2021.10.0 %gcc@11.4.0 target=zen2 + - librsvg @2.51.0 + - libsvm @323 + - libszip @2.1.1 + - libxc @6.1.0 + - mpfr @4.2.0 + - netcdf-c @4.9.2 + - netcdf-cxx4 @4.3.1 + - netcdf-fortran @4.6.0 + - netlib-lapack @3.11.0 + - netlib-xblas @1.0.248 + - nlohmann-json @3.11.2 + - openblas @0.3.23 + - plumed @2.8.2 + - voropp @0.4.6 + - xerces-c @3.2.4 + - zlib @1.2.13 + - general-specs: + # misc + - aria2 + - aspera-cli + - awscli + - cmake + - doxygen @1.9.6 + - elk @8.3.22 + - feh @3.10 + - freesurfer @7.2.0 + - gnuplot @5.4.3 + - imagemagick @7.0.8-7 + - jags + - jdk @17.0.1 + - lcov @1.16 + #- matlab @R2018a + - nco + - numactl @2.0.14 + - openjdk @16.0.2 + - openjdk @11.0.17_8 + - openldap@2.4.49 + - parallel + - paraview @5.11.1 + - pigz + - rclone + #- rstudio @2022.12.0+server ^curl@7.85.0 + - turbovnc + - valgrind @3.20.0 + - virtualgl + - yasm + + # omics + - abyss + - angsd + - aragorn + - augustus + - bayenv2 + - bbmap + - bcftools +libgsl +perl-filters + - beagle + - bedops + - bedtools2 + - blast-plus @2.13.0 + - blast2go + #- blat # relies on openssl 1.1 + - bowtie + - bowtie2 + - braker + - busco + - bwa + - bwa-mem2 @2.2.1 %oneapi target=x86_64_v3 + - bwtool + - canu + - cap3 + - cdhit + - circos + - clustal-omega + - clustalw + - coverm %gcc@11.4.0 ^bwa-mem2%oneapi + - corset + - cufflinks + - dashing @0.4.0 %gcc@7.5.0 # used by coverm + - dashing @1.0.3 + - deml + - diamond + - dssp + - ea-utils + - emboss @6.6.0 + - exonerate + - exonerate-gff3 + - fastani @1.33 + - fastme + - fastq-screen + - fastqc + - fasttree + - fastx-toolkit + - freebayes + - gatk@3.8.1 + - gatk@4.2.6.1 + - gemma + - genometools + - genrich + - gffcompare + - gffread + - glimmer + - hisat2 + - hh-suite + - hmmer + - homer + - htslib + - igv + - infernal + - interproscan + - iq-tree + - iqtree2 + - jellyfish @1.1.11 + - jellyfish @2.3.0 + - kaiju @1.6.2 + - kalign + - kallisto + - kmergenie + - kraken + - kraken2 + - krakenuniq + - last + - mafft + - maker + - mash + - masurca + - maven + - mcl + - meme @5.3.0 + - megahit @1.1.4 %gcc@7.5.0 + - metabat @2.15 + - metaeuk + - minced + - miniasm + - minimap2 @2.26 + - mirdeep2 + - mmseqs2 + - mothur + - mummer + - mummer4 + - muscle + - muscle5 + - ncbi-rmblastn + - ncbi-toolkit + - ncbi-vdb + - nextflow + - ngsadmix + - ngstools + - ont-guppy + - orthofinder + - orthomcl + - phylip + - phyluce + - picard + - pilon + - plink + - plink-ng + - pplacer @1.1.alpha19 + - prodigal @2.6.3 + - prokka + - py-alphafold @2.3.2 + - py-biopython + - py-checkm-genome + - py-cutadapt + - py-deeptools + - py-htseq + - py-ipython + - py-metaphlan @4.0.2 + - py-multiqc + - py-quast @4.6.3 + - py-vcf-kit + - qualimap + - raxml + - raxml-ng + - ray + - recon + - repeatmasker + - repeatmodeler ^repeatmasker@4.0.9 + - repeatscout + - rnaquast + - rsem + - sabre + - salmon @1.10.1 + - samtools @1.16.1 + - satsuma2 + - scallop + - seqprep + - seqtk + - shoremap + - sickle + - slim + - smartdenovo + - snap-korf + - sortmerna + - spades + - sratoolkit + - star + - stringtie + - subread @2.0.2 + - tabix + - tassel + - tophat @2.1.2 + - trimgalore + - trimmomatic + - trinity + - usearch @11.0.667 + - vcftools + - velvet + - velvetoptimiser + - vsearch + + specs: + # Cryo-EM + - gctf + - motioncor2 @1.5.0 + - ghostscript + - ctffind+openmp %oneapi target=skylake_avx512 ^intel-oneapi-mkl + - ctffind+openmp %gcc target=zen2 ^amdfftw target=zen2 + + # Ongoing issue with OneAPI and CUDA: https://github.com/spack/spack/issues/40374 + - matrix: + - [$relion-cuda] + - ['%gcc@11.4.0 target=zen2 ^cuda@11.7.1+allow-unsupported-compilers ^amdfftw target=zen2 ^ctffind+openmp target=zen2', + '%gcc@11.4.0 +mklfft +gpu_delay target=skylake_avx512 ^cuda@11.7.1+allow-unsupported-compilers ^intel-oneapi-mkl ^ctffind+openmp^intel-oneapi-mkl'] + + - matrix: + - [$relion-cpu] + - ['%gcc@11.4.0 target=zen2 ^amdfftw target=zen2'] + + - relion-bbr @3.1.2 %gcc@7.5.0 +gui +cuda +mklfft cuda_arch=75 purpose=cluster target=skylake_avx512 + ^intel-oneapi-mkl ^ctffind+openmp^intel-oneapi-mkl ^cuda@11.2.2+allow-unsupported-compilers + - py-relion-helper @0.3 + - unblur@1.0.2 target=x86_64_v3 ^cuda@11.7.1 + #- cistem@1.0.0-beta target=x86_64_v3 ^cuda@11.7.1 + + # splatted specs, see definitions + - $libs-specs + - $general-specs + + view: false + modules: + default: + roots: + tcl: /share/apps/22.04/modulefiles/spack/software + tcl: + projections: + relion+cuda target=zen2: relion/gpu/{version}+amd + relion+cuda target=skylake_avx512: relion/gpu/{version}+intel + relion-bbr+cuda target=skylake_avx512: relion-bbr/gpu/{version}+intel + relion~cuda target=zen2: relion/cpu/{version}+amd + ctffind target=skylake_avx512: ctffind/{version}+intel + ctffind target=zen2: ctffind/{version}+amd + py-relion-helper: relion-helper/{version} + py-alphafold: alphafold/{version} + include: + - intel-oneapi-mkl + - intel-oneapi-tbb + defaults: + - target=zen2 + all: + conflict: + - '{name}' + py-alphafold: + environment: + set: + ALPHAFOLD_DB_ROOT: /share/databases/alphafold + relion: + environment: + set: + RELION_TOPAZ_EXECUTABLE: /share/apps/22.04/spack/spack-ucdavis/bin/wrappers/topaz + #RELION_MOTIONCOR2_EXECUTABLE: '{^motioncor2.prefix}/bin/MotionCor2' + RELION_CTFFIND_EXECUTABLE: '{^ctffind.prefix}/bin/ctffind' + relion+cuda: + template: hpccf/franklin/relion.gpu.tcl + environment: + set: + RELION_QSUB_TEMPLATE: /share/apps/22.04/spack/spack-ucdavis/templates/hpccf/franklin/relion.{version}.gpu.{target}.slurm.template.sh + relion~cuda: + template: hpccf/franklin/relion.cpu.tcl + environment: + set: + RELION_QSUB_TEMPLATE: /share/apps/22.04/spack/spack-ucdavis/templates/hpccf/franklin/relion.{version}.cpu.slurm.template.sh + relion target=zen2: + environment: + set: + 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julia@1.9.0 + - libs_specs: &libs_specs + - amdfftw @3.2 target=zen2 + - blas @0.4.3 + - boost @1.82 + - bzip2 @1.0.8 +shared + - ccfits @2.6 + - cfitsio @4.2.0 + - cgal @5.4.1 + - dealii @9.4.2 ^openmpi+romio + - eigen @3.4.0 + - fftw @3.3.10 + - fsl @6.0.5 + - gmp @6.2.1 + - gsl @2.7.1 + - hdf5 @1.14.1-2 + - intel-oneapi-mkl @2022.2.1 + - intel-oneapi-tbb @2021.9.0 + - librsvg @2.51.0 + - libsvm @323 + - libszip @2.1.1 + - libxc @6.1.0 + - mpfr + - nlopt @2.7.0 + - netcdf-c @4.9.2 + - netcdf-cxx4 @4.3.1 + - netcdf-fortran @4.6.0 + - netlib-lapack @3.11.0 + - netlib-xblas @1.0.248 + - nlohmann-json @3.11.2 + - ntirpc @3.2 + - openblas @0.3.23 + - parmetis @4.0.3 + - plumed @2.8.2 + - spglib @2.0.2 + - voropp @0.4.6 + - xerces-c @3.2.4 + - yaml-cpp + - zlib @1.2.13 + - general_specs: &general_specs + # misc + - abinit @9.8.3 + - amber @20 + - apptainer @1.1.9 + - aria2 + - aspera-cli + - atlas @3.10.3 + - awscli + - cdo + - cp2k @2023.1 + - cplex @12.8.0 + - cmake + - doxygen @1.9.6 + - elk @8.3.22 + - exciting @oxygen +mpi + - feh @3.10 + - fpart @1.5.1 + - fplo @22.00-62 + - freesurfer @7.2.0 + - gaussian @16-B.01 + - geant4 @11.1.1 + - genie @3.0.6 + - gmt @6.2.0 + - gnuplot @5.4.3 + - gromacs @2019.6 + - gromacs @2023.1 + - hypre + - idl @8.7.3 + - imagemagick @7.0.8-7 + - jags + - lammps @20230208 + - lcov @1.16 + - matlab @R2023a + - mark + - nco + - nwchem @7.2.0 + - octave @8.2.0 + - octopus @7.3 ^fftw + #- octopus @12.2 + #- orca @5.0.3-f.1 + - parallel + - paraview @5.11.1 + - pigz + - planck-likelihood @2.00 + - pythia6 @6.4.28 + - pythia8 @8.309 + - quantum-espresso @7.1 + - rclone + - root @6.28.04 +pythia6 +pythia8 +python +fortran +fftw + - rstudio @2022.12.0+server ^curl@7.85.0 + - stata + - shengbte @1.1.1-8a63749 %gcc@7.5.0 + - trilinos @13.0.1 # +cuda +uvm +wrapper + - turbovnc + - valgrind @3.20.0 + - virtualgl + - yasm + + # genomics + - abyss + #- allpaths-lg %gcc@4.9.4 + - angsd + - aragorn + - augustus + - bayenv2 + - bbmap + - bcftools +libgsl +perl-filters + - beagle + - bedops + - bedtools2 + - blast-plus @2.13.0 + - blast2go + - blat + - bowtie + - bowtie2 + - braker + - busco + - bwa + - bwa-mem2 @2.2.1 %oneapi target=x86_64 + - bwtool + - canu + - cap3 + - cdhit + - circos + - clustal-omega + - clustalw + - coverm %gcc@11.3.0 ^bwa-mem2%oneapi ^minimap2@2.26 + - corset + - cufflinks + - dashing @0.4.0 %gcc@7.5.0 # used by coverm + - dashing @1.0.3 + - deml + - diamond + - dssp + - ea-utils + - emboss @6.6.0 + - exonerate + - exonerate-gff3 + - fastani @1.33 + - fastme + - fastq-screen + - fastqc + - fasttree + - fastx-toolkit + - freebayes + - gatk@3.8.1 + - gatk@4.2.6.1 %gcc@11.3.0 + - gemma + - genometools + - genrich + - gffcompare + - gffread + - glimmer + - hisat2 + - hh-suite + - hmmer + - homer + - htslib + - igv + - infernal + - interproscan + - iq-tree + - iqtree2 + - jellyfish @1.1.11 + - jellyfish @2.3.0 + - kaiju @1.6.2 + - kalign + - kallisto + - kmergenie + - kraken + - kraken2 + - krakenuniq + - last + - mafft + - maker + - mash + - masurca + - maven + - mcl + - meme @5.3.0 + - megahit @1.1.4 %gcc@7.5.0 + - metabat @2.15 + - metaeuk + - minced + - miniasm + - minimap2 @2.26 + - mirdeep2 + - mmseqs2 + - mothur + - mummer + - mummer4 + - muscle + - muscle5 + - ncbi-rmblastn + - ncbi-toolkit + - ncbi-vdb + - nextflow + - ngsadmix + - ngstools + - ont-guppy + - orthofinder + - orthomcl + - phylip + - phyluce + - picard + - pilon + - plink + - plink-ng + - pplacer @1.1.alpha19 + - prodigal @2.6.3 + - prokka + - py-biopython + - py-checkm-genome + - py-cutadapt + - py-deeptools + - py-htseq + - py-ipython + - py-metaphlan @4.0.2 + - py-multiqc + - py-quast @4.6.3 + - py-vcf-kit + - qualimap + - raxml + - raxml-ng + - ray + - recon + - repeatmasker + - repeatmodeler ^repeatmasker@4.0.9 + - repeatscout + - rnaquast + - rsem + - sabre + - salmon @1.9.0 + - salmon @1.10.1 + - samtools @1.16.1 + - satsuma2 + - scallop + - seqprep + - seqtk + - shoremap %gcc@11.3.0 + - sickle + - slim + - smartdenovo + - snap-korf + - sortmerna + - spades + - sratoolkit + - star + #- strelka + - stringtie + - subread @2.0.2 + - tabix + - tassel + - tophat @2.1.2 + - trimgalore + - trimmomatic + - trinity + - usearch @11.0.667 + - vcftools + - velvet + - velvetoptimiser + - vsearch + + specs: + - environment-modules@5.2.0 + - $core_specs + - $libs_specs + - $general_specs + + view: + generic: + root: /share/apps/22.04/spack/environments/main/view + select: + - environment-modules + exclude: + - gcc + link_type: symlink + + modules: + common: + tcl: &tcl_common_opts + verbose: true + hash_length: 0 + exclude_implicits: true + all: + template: hpccf/default.tcl + autoload: none + prerequisites: none + conflict: + - '{name}' + environment: + set: + '{name}_ROOT': '{prefix}' + ^python: + autoload: direct + prerequisites: direct + + default: + roots: + tcl: $spack/../../modulefiles/spack/tcl/ + prefix_inspections: + include: + - CPATH + - C_INCLUDE_PATH + - CPLUS_INCLUDE_PATH + lib64: + - LD_LIBRARY_PATH + - LIBRARY_PATH + lib: + - LD_LIBRARY_PATH + - LIBRARY_PATH + arch_folder: false + tcl: + <<: *tcl_common_opts + defaults: + - openmpi~romio + projections: + all: '{name}/{version}' + target=zen2: '{name}/{version}+amd' + slurm: slurm/23.02.7 + openmpi~romio: openmpi/{version} + openmpi+romio: openmpi/{version}-mpi-io + gcc@9.5: + template: hpccf/gcc.tcl + gcc: + filter: + # Software compiled with system compilers (as of writing, gcc 11.3.0) + # does NOT get RPATH for libstdc++; so if you updated LD_LIBRARY_PATH for gcc modules, + # it breaks module-loaded software that was compiled with a system gcc of a newer version + # than the module-loaded gcc. + exclude_env_vars: + - LD_LIBRARY_PATH + slurm: + template: hpccf/slurm.tcl + apptainer: + load: + - squashfs + core: + roots: + tcl: $spack/../../modulefiles/spack/core/ + prefix_inspections: + include: + - CPATH + - C_INCLUDE_PATH + - CPLUS_INCLUDE_PATH + lib64: + - LD_LIBRARY_PATH + - LIBRARY_PATH + lib: + - LD_LIBRARY_PATH + - LIBRARY_PATH + arch_folder: false + tcl: + <<: *tcl_common_opts + include: *core_specs + exclude: ['@:'] + defaults: + - openmpi~romio + projections: + all: '{name}/{version}' + target=zen2: '{name}/{version}+amd' + slurm: slurm/23.02.7 + openmpi~romio: openmpi/{version} + openmpi+romio: openmpi/{version}-mpi-io + gcc@9.5: + template: hpccf/gcc.tcl + slurm: + template: hpccf/slurm.tcl + + libs: + roots: + tcl: $spack/../../modulefiles/spack/libs/ + prefix_inspections: + include: + - CPATH + - C_INCLUDE_PATH + - CPLUS_INCLUDE_PATH + lib64: + - LD_LIBRARY_PATH + - LIBRARY_PATH + lib: + - LD_LIBRARY_PATH + - LIBRARY_PATH + arch_folder: false + tcl: + <<: *tcl_common_opts + include: *libs_specs + exclude: ['@:'] + projections: + all: '{name}/{version}' + target=zen2: '{name}/{version}+amd' + + general: + roots: + tcl: $spack/../../modulefiles/spack/general/ + arch_folder: false + tcl: + <<: *tcl_common_opts + include: *general_specs + exclude: ['@:'] + projections: + all: '{name}/{version}' + target=zen2: '{name}/{version}+amd' + rstudio: rstudio-server/{version} + circos: + template: hpccf/circos-version-warning.tcl + rstudio: + template: hpccf/farm/rstudio-server.tcl + turbovnc: + template: hpccf/farm/turbovnc.tcl + + concretizer: + unify: false diff --git a/environments/hpccf/software.hpc/core/definitions.yaml b/environments/hpccf/software.hpc/core/definitions.yaml new file mode 100644 index 00000000..f03b17cf --- /dev/null +++ b/environments/hpccf/software.hpc/core/definitions.yaml @@ -0,0 +1,76 @@ + definitions: + - compilers: + - aocc @3.2.0 +license-agreed %gcc@=11.4.0 + - aocc @4.2.0 +license-agreed %gcc@=11.4.0 + - gcc @13.2.0 %gcc@=11.4.0 + - gcc @11.4.0 %gcc@=9.5.0 + - gcc @7.5.0 %gcc@=11.4.0 + - intel-oneapi-compilers @2024.0.2 %gcc@=11.4.0 + - intel-oneapi-compilers @2023.2.1 %gcc@=11.4.0 + - llvm +clang +flang @19.1.3 %gcc@=11.4.0 + - llvm +clang +flang @16.0.6 %gcc@=11.4.0 + - llvm +clang +flang @14.0.6 %gcc@=11.4.0 + - nvhpc @24.1 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+ - ['%gcc@=13.2.0 arch=linux-ubuntu22.04-x86_64_v3'] + - messaging-specs: + - matrix: + - [$messaging-pkgs] + - [$targets] + - ['%gcc@=13.2.0'] + - openssl-specs: + - matrix: + - [openssl] + - [$openssl-versions] + - [$targets] + - ['%gcc@=13.2.0'] diff --git a/environments/hpccf/software.hpc/core/spack.lock b/environments/hpccf/software.hpc/core/spack.lock new file mode 100644 index 00000000..c92f2260 --- /dev/null +++ b/environments/hpccf/software.hpc/core/spack.lock @@ -0,0 +1 @@ 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\ No newline at end of file diff --git a/environments/hpccf/software.hpc/core/spack.yaml b/environments/hpccf/software.hpc/core/spack.yaml new file mode 100644 index 00000000..32d73e71 --- /dev/null +++ b/environments/hpccf/software.hpc/core/spack.yaml @@ -0,0 +1,30 @@ +spack: + include: + - definitions.yaml + specs: + - $compilers + - $generic-specs + - $cuda-specs + - $messaging-specs + - $openssl-specs + view: + default: + root: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view + projections: + gcc: compilers/{name}-{version} + aocc: compilers/{name}-{version} + intel-oneapi-compilers: compilers/{name}-{version} + nvhpc: compilers/{name}-{version} + llvm: compilers/clang-{version} + slurm: generic/slurm + tcl: generic/{name}-{version} + environment-modules: generic/environment-modules + target=x86_64_v3: generic/{name}-{version} + target=zen2: zen2/{name}-{version} + target=zen3: zen3/{name}-{version} + link: roots + link_type: hardlink + concretizer: + unify: false + reuse: false + diff --git a/environments/hpccf/software.hpc/main/cryoem.yaml b/environments/hpccf/software.hpc/main/cryoem.yaml new file mode 100644 index 00000000..f7f875c9 --- /dev/null +++ b/environments/hpccf/software.hpc/main/cryoem.yaml @@ -0,0 +1,32 @@ +spack: + definitions: + - relion-cuda: + - relion @5.0-beta +gui +cuda cuda_arch=75 purpose=cluster torch_home=/share/databases/relion/torch conda_python=/share/apps/conda/environments/relion-5.0/bin/python + - relion @4.0.1 +gui +cuda cuda_arch=75 purpose=cluster + - relion @3.1.3 +gui +cuda cuda_arch=75 purpose=cluster + - relion-cpu: + - relion @5.0-beta +gui ~cuda +altcpu purpose=cluster torch_home=/share/databases/relion/torch conda_python=/share/apps/conda/environments/relion-5.0/bin/python + - relion @4.0.1 +gui ~cuda +altcpu purpose=cluster + - relion @3.1.3 +gui ~cuda +altcpu purpose=cluster + # Cryo-EM + - gctf + - motioncor2 @1.5.0 + - ghostscript + - ctffind+openmp %oneapi target=skylake_avx512 ^intel-oneapi-mkl + - ctffind+openmp %gcc target=zen2 ^amdfftw target=zen2 + + # Ongoing issue with OneAPI and CUDA: https://github.com/spack/spack/issues/40374 + - matrix: + - [$relion-cuda] + - ['%gcc@11.4.0 target=zen2 ^cuda@11.7.1+allow-unsupported-compilers ^amdfftw target=zen2 ^ctffind+openmp target=zen2', + '%gcc@11.4.0 +mklfft +gpu_delay target=skylake_avx512 ^cuda@11.7.1+allow-unsupported-compilers ^intel-oneapi-mkl ^ctffind+openmp^intel-oneapi-mkl'] + + - matrix: + - [$relion-cpu] + - ['%gcc@11.4.0 target=zen2 ^amdfftw target=zen2'] + + - relion-bbr @3.1.2 %gcc@7.5.0 +gui +cuda +mklfft cuda_arch=75 purpose=cluster target=skylake_avx512 + ^intel-oneapi-mkl ^ctffind+openmp^intel-oneapi-mkl ^cuda@11.2.2+allow-unsupported-compilers + - py-relion-helper @0.3 + - unblur@1.0.2 target=x86_64_v3 ^cuda@11.7.1 + #- cistem@1.0.0-beta target=x86_64_v3 ^cuda@11.7.1 diff --git a/environments/hpccf/software.hpc/main/general.yaml b/environments/hpccf/software.hpc/main/general.yaml new file mode 100644 index 00000000..479b0620 --- /dev/null +++ b/environments/hpccf/software.hpc/main/general.yaml @@ -0,0 +1,250 @@ + definitions: + - general-specs: + #- abyss @2.3.7 ^openmpi@4 #'concretizer internal error: abyss@2.3.7 arch=linux-ubuntu22.04-x86_64_v3 is unsatisfiable' + #- amber @20 +cuda cuda_arch=75 ^openmpi@4 + - angsd @0.935 + - apptainer @1.3.4 ~suid + - aragorn @1.2.41 + - aria2 @1.37 + - aspera-cli @3.7.7 + - atlas @3.11.41 threads=pthreads + - augustus @3.5.0 + - awscli @1.29.41 + - awscli-v2 @2.15.53 ^openssl@3.2.3 + - bamtools @2.5.2 + - bayenv2 @2.0 + - bbmap @39.01 + - bcftools @1.19 +libgsl +perl-filters + - beagle @5.4 + - bedops @2.4.41 + - bedtools2 @2.31.1 + - blast-plus @2.16.0 ^python@3.11.9 + - blast2go @5.2.5 + - blat @37 + - bowtie @1.3.1 + - bowtie2 @2.5.2 + - braker @2.1.6 + - busco @5.4.3 + - bwa @0.7.17 + - bwa-mem2 @2.2.1 %oneapi target=x86_64_v3 + - bwtool @1.0 + - canu @2.2 + - cap3 @2015-02-11 + - ccfits @2.6 + - cdhit @4.8.1 + - cdo @2.4.0 ^fftw + - censor-norb @4.2.30 + - circos @0.69-9 + - cfitsio @4.4.0 + - clustal-omega @1.2.4 + - clustalw @2.1 + - cmake @3.10.3 + - cmake @3.16.9 + - cmake @3.28.1 + - cmake @3.3.1 + - code-server @4.12.0 + - corset @1.09 + - coverm @0.6.1 %gcc@11.4.0 ^bwa-mem2%oneapi + - cp2k @2024.1 +cuda cuda_arch=70 ^fftw + - cplex @12.10.0 + - cufflinks @2.2.1 + - dashing @0.4.0 %gcc@7.5.0 # used by coverm + - dashing @1.0.3 + - distangsd @main + - dealii @9.5.1 +cuda ^fftw + - deml @1.1.4 + - diamond @2.1.7 + - dotnet-core-sdk @8.0.4 + - doxygen @1.9.8 + - dssp @3.1.4 + - ea-utils @2021-10-20 + - elk @8.3.22 + - emboss @6.6.0 + #- exciting @oxygen +mpi + - exonerate @2.4.0 + - exonerate-gff3 @2.3.0 + - expect @5.45.4 + - fastani @1.33 + - fastme @2.1.5.1 + - fastq-screen @0.15.3 + - fastqc @0.12.1 + - fasttree @2.1.11 + - fastx-toolkit @0.0.14 + - feh @3.10 + - fpart @1.6.0 + - fplo @22.00-62 + - freebayes @1.3.6 + - freesurfer @7.4.1 + - gatk @4.5.0.0 + - gaussian @16-B.01 + - gdl @1.0.3 + - geant4 @11.2.1 + - gemma @0.98.5 + - genemark-et @4.71 + - genie @3.0.6 + - genometools @1.6.5 + - genrich @0.6.1 + - gffcompare @0.12.6 + - gffread @0.12.7 + - glimmer @3.02b + - glimpse @1.1.1 + - glimpse2 @2.0.0 + - gmt @6.4.0 +blas +ffmpeg +fftw +geos +glib +graphicsmagick +lapack +pcre + - gnuplot @6.0.0 + - gromacs @2019.6 +cuda ^fftw + - gromacs @2023.4 +cp2k +cuda ^fftw + - hh-suite @3.3.0 + - hisat2 @2.2.1 + - hmmer @3.4 + - homer @4.11.1 + - htslib @1.19.1 + - hypre @2.31.0 +cuda +openmp + - idl @8.7.3 + - igv @2.16.2 + - imagemagick @7.1.1-29 + - infernal @1.1.4 + - interproscan @5.63-95.0 + - iq-tree @2.3.1 + - jags @4.3.2 + - jellyfish @1.1.11 + - jellyfish @2.3.0 + - kaiju @1.6.2 + - kalign @3.4.0 + - kallisto @0.48.0 + - kmergenie @1.7051 + - kraken @1.1.1 + - kraken2 @2.1.2 + - krakenuniq @1.0.4 + - lammps @20240829.1 +cuda ^fftw + - last @1499 + - lcov @2.0 + - ltr-retriever @2.8.7 + - mafft @7.505 + - maker @3.01.04 + - mark @1.0 + - mash @2.3 + - masurca @4.1.0 + - maven @3.8.4 + - mcl @14-137 + - megahit @1.2.9 %gcc@7.5.0 + - meme @5.3.0 + - metabat @2.15 + - metaeuk @6-a5d39d9 + - minced @0.4.2 + - miniasm @2018-3-30 + - minimap2 @2.26 + - mirdeep2 @0.0.8 + - mlxup @4.30.0 + - mmseqs2 @14-7e284 + - mothur @1.48.0 + - mummer @3.23 + - mummer4 @4.0.0rc1 + - muscle @3.8.1551 + - muscle5 @5.1.0 + - nanoporetech-dorado @0.3.4 + - ncbi-rmblastn @2.14.0 + - ncbi-toolkit @26_0_1 + - ncbi-vdb @3.0.2 + - nco @5.1.9 + - nextflow @23.10.1 + - ngsadmix @2018-03-19 + - ngsrelate @2.0 + - ngstools @2023-04-05 + - ninja-phylogeny @0.98 + - numactl @2.0.14 + #- nwchem @7.2.3 +fftw3 +openmp ^fftw ^openblas ^openmpi + - octave @8.2.0 +fftw ^fftw + - octopus @7.3 +cuda ^fftw + - ont-guppy @6.1.7 + - openldap@2.4.49 + - orthofinder @2.5.5 + - orthomcl @2.0.9 + - paml @4.10.7 + - parallel @20220522 + - paraview @5.11.2 +cuda +tbb +hdf5 + #- parmetis @4.0.3 + - phydrus-fortran @0.2.0 + - phylip @3.697 + #- phyluce @1.6.7 [require python 2] + - picard @3.1.1 + - pigz @2.8 + - pilon @1.22 + - planck-likelihood @2.00 + - plink @1.07 + - plink-ng @2.00a3.7 + - pplacer @1.1.alpha19 + - prodigal @2.6.3 + - prokka @1.14.6 + - python @3.11.9 + - py-alphafold @2.3.2 + - py-basevar @0.8.0 + - py-biopython @1.81 + - py-checkm-genome @1.2.1 + - py-cutadapt @4.7 + - py-deeptools @3.5.3 + - py-htseq @2.0.3 + - py-ipython @8.14.0 + - py-metaphlan @4.0.2 + - py-multiqc @1.23 + - py-quast @4.6.3 + - py-vcf-kit @0.1.6 + - pythia6 @6.4.28 + - pythia8 @8.310 + - qualimap @2.3 + - quantum-espresso @7.3.1 ^fftw + - racon @1.4.3 + - raxml @8.2.12 + - raxml-ng @1.1.0 + #- ray @2.3.1 + - rclone @1.65.1 + - recon @1.05 + - repeatmasker @4.1.5 + - repeatmodeler @2.0.4 ^repeatmasker@4.0.9 + - repeatscout @1.0.5 + - rnaquast @2.2.0 + - root @6.28.04 +pythia6 +pythia8 +python +fortran +fftw + - rsem @1.3.3 + - rstudio@2024.09.0-375 +server %gcc@13.2 + - sabre @2013-09-27 + - salmon @1.10.2 + - samtools @1.16.1 + - satsuma2 @2021-03-04 + - scallop @0.10.5 + - seqprep @1.3.2 + - seqtk @1.4 + #- shengbte @1.1.1-8a63749 + - shoremap @3.6 + - sickle @1.33 + - slim @4.0.1 + - smartdenovo @master + - snap-korf @2021-11-04 + - snpeff @2017-11-24 + - sortmerna @2017-07-13 + - spades @3.15.5 + - squashfs @4.6.1 + - squashfuse @0.5.2 + - sratoolkit @3.0.0 + - star @2.7.11a + #- strelka @2.9.10 # depends on python 2: deprecate + - stringtie @2.2.1 + - subread @2.0.2 + - tabix @2013-12-16 + - tassel @5.2.86 + - tophat @2.1.2 + - trilinos @15.0.0 # +cuda +uvm +wrapper + - trimgalore @0.6.10 + - trimmomatic @0.39 + - trinity @2.15.1.FULL + - turbovnc @3.0.3 + - turbovnc @3.1.2 + - usearch @11.0.667 + - valgrind @3.20.0 + - vcftools @0.1.16 + - velvet @1.2.10 + - velvetoptimiser + - velvetoptimiser @2.2.6 + - virtualgl @2.5.2 + - virtualgl @3.1.1 + - vsearch @2.22.1 + - yasm @1.3.0 + - yq @4.44.3 diff --git a/environments/hpccf/software.hpc/main/libs.yaml b/environments/hpccf/software.hpc/main/libs.yaml new file mode 100644 index 00000000..9ba9f6bb --- /dev/null +++ b/environments/hpccf/software.hpc/main/libs.yaml @@ -0,0 +1,39 @@ + definitions: + - libs-specs: + - amdfftw @4.2 +openmp + - boost @1.84 +atomic +chrono +context +coroutine +date_time +exception +filesystem +graph +graph_parallel +iostreams +json +locale +log +math +program_options +random +regex +serialization +signals +stacktrace +system +test +thread +timer +wave + - bzip2 @1.0.8 +shared + - cgal @5.4.1 + - eigen @3.4.0 + - fftw @3.3.10 +openmp + - fsl @6.0.5 ^libtool@2.4.6 ^vtk@8.1.2 + - gmp @6.2.1 + - gsl @2.7.1 + - h5cpp @1.10.4-6 + - h5z-zfp @1.1.1 + - hdf5 @1.14.3 + - intel-oneapi-mkl @2024.0.0 + - intel-oneapi-mkl @2023.2.0 + - intel-oneapi-mkl @2022.2.1 + - intel-oneapi-tbb @2021.11.0 + - librsvg @2.56.2 + - libsvm @323 + - libszip @2.1.1 + - libxc @6.1.0 + - mpfr @4.2.0 + - netcdf-c @4.9.2 +dap +fsync + - netcdf-cxx4 @4.3.1 + - netcdf-fortran @4.6.0 + - netlib-lapack @3.11.0 + - netlib-xblas @1.0.248 + - nlohmann-json @3.11.2 + - nlopt @2.7.0 + - ntirpc @3.2 + - openblas 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\ No newline at end of file diff --git a/environments/hpccf/software.hpc/main/spack.yaml b/environments/hpccf/software.hpc/main/spack.yaml new file mode 100644 index 00000000..6c5f5c55 --- /dev/null +++ b/environments/hpccf/software.hpc/main/spack.yaml @@ -0,0 +1,71 @@ +spack: + include: + - ../core/definitions.yaml + - libs.yaml + - utils.yaml + - general.yaml + specs: + # splatted specs, see definitions + - $compilers + - $generic-specs + - $cuda-specs + - $messaging-specs + - $openssl-specs + - matrix: + - [$utils-specs] + - [arch=linux-ubuntu22.04-x86_64_v3] + - matrix: + - [$general-specs] + - [arch=linux-ubuntu22.04-x86_64_v3] + - matrix: + - [$libs-specs] + - [$targets] + view: + default: + root: /cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view + exclude: + - llvm + - repeatmasker # short term fix: repeatmasker is downloading giant DB files + projections: + target=x86_64_v3: generic/{name}-{version} + target=zen2: zen2/{name}-{version} + target=zen3: zen3/{name}-{version} + #target=skylake_avx512: 'skylake_avx512/{name}-{version}' + link: roots + link_type: hardlink + modules: + prefix_inspections: + lib64: + - LD_LIBRARY_PATH + lib: + - LD_LIBRARY_PATH + include: + - CPATH + - C_INCLUDE_PATH + - CPLUS_INCLUDE_PATH + view_relative_modules: + use_view: true + default: + use_view: true + roots: + tcl: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main + tcl: + all: + autoload: run + #hide_implicits: false + defaults: + - cuda @12.3 + #include: + #- $generic-specs + exclude: + - mariadb + - environment-modules + projections: + intel-oneapi-compilers: oneapi/{version} + llvm: clang/{version} + py-quast: quast/{version} + py-alphafold: alphafold/{version} + py-htseq: htseq/{version} + py-multiqc: multiqc/{version} + concretizer: + unify: false diff --git a/environments/hpccf/software.hpc/main/utils.yaml b/environments/hpccf/software.hpc/main/utils.yaml new file mode 100644 index 00000000..452d664d --- /dev/null +++ b/environments/hpccf/software.hpc/main/utils.yaml @@ -0,0 +1,3 @@ + definitions: + - utils-specs: + - m4 @1.4.19 diff --git a/modulefiles/hpccf/franklin/v0.21/core/aocc/4.1.0 b/modulefiles/hpccf/franklin/v0.21/core/aocc/4.1.0 new file mode 100644 index 00000000..f06aabb0 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/core/aocc/4.1.0 @@ -0,0 +1,56 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-13 18:13:32.511266 +## +## aocc@4.1.0%gcc@11.4.0+license-agreed build_system=generic arch=linux-ubuntu22.04-x86_64_v3/eifp3gy +## + + +module-whatis { The AOCC compiler system is a high performance, production quality code generation tool. The AOCC environment provides various options to developers when building and optimizing C, C++, and Fortran applications targeting 32-bit and 64-bit Linux platforms. The AOCC compiler system offers a high level of advanced optimizations, multi-threading and processor support that includes global optimization, vectorization, inter-procedural analyses, loop transformations, and code generation. AMD also provides highly optimized libraries, which extract the optimal performance from each x86 processor core when utilized. The AOCC Compiler Suite simplifies and accelerates development and tuning for x86 applications.} + +proc ModulesHelp { } { + puts stderr {Name : aocc} + puts stderr {Version: 4.1.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr { The AOCC compiler system is a high performance, production quality code} + puts stderr {generation tool. The AOCC environment provides various options to} + puts stderr {developers when building and optimizing C, C++, and Fortran applications} + puts stderr {targeting 32-bit and 64-bit Linux platforms. The AOCC compiler system} + puts stderr {offers a high level of advanced optimizations, multi-threading and} + puts stderr {processor support that includes global optimization, vectorization,} + puts stderr {inter-procedural analyses, loop transformations, and code generation.} + puts stderr {AMD also provides highly optimized libraries, which extract the optimal} + puts stderr {performance from each x86 processor core when utilized. The AOCC} + puts stderr {Compiler Suite simplifies and accelerates development and tuning for x86} + puts stderr {applications. Installation requires acceptance of the EULA by setting} + puts stderr {the +license-agreed variant. https://www.amd.com/en/developer/aocc/aocc-} + puts stderr {compiler/eula.html Example for installation: 'spack install aocc} + puts stderr {+license-agreed'} +} + +conflict aocc + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/aocc-4.1.0-eifp3gy4vc3sda2ywgng2idqqbfbhw5i/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/aocc-4.1.0-eifp3gy4vc3sda2ywgng2idqqbfbhw5i/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/aocc-4.1.0-eifp3gy4vc3sda2ywgng2idqqbfbhw5i/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/aocc-4.1.0-eifp3gy4vc3sda2ywgng2idqqbfbhw5i/include} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/aocc-4.1.0-eifp3gy4vc3sda2ywgng2idqqbfbhw5i/bin} +prepend-path --delim {:} MANPATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/aocc-4.1.0-eifp3gy4vc3sda2ywgng2idqqbfbhw5i/share/man} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/aocc-4.1.0-eifp3gy4vc3sda2ywgng2idqqbfbhw5i/.} +setenv AOCC_ROOT {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/aocc-4.1.0-eifp3gy4vc3sda2ywgng2idqqbfbhw5i} +append-path --delim {:} MANPATH {} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/core/cuda/11.2.2 b/modulefiles/hpccf/franklin/v0.21/core/cuda/11.2.2 new file mode 100644 index 00000000..5d7404b0 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/core/cuda/11.2.2 @@ -0,0 +1,47 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-13 18:13:32.818091 +## +## cuda@11.2.2%gcc@11.4.0~allow-unsupported-compilers~dev build_system=generic arch=linux-ubuntu22.04-x86_64_v3/auwu4pp +## + + +module-whatis {CUDA is a parallel computing platform and programming model invented by NVIDIA. It enables dramatic increases in computing performance by harnessing the power of the graphics processing unit (GPU).} + +proc ModulesHelp { } { + puts stderr {Name : cuda} + puts stderr {Version: 11.2.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {CUDA is a parallel computing platform and programming model invented by} + puts stderr {NVIDIA. It enables dramatic increases in computing performance by} + puts stderr {harnessing the power of the graphics processing unit (GPU). Note: This} + puts stderr {package does not currently install the drivers necessary to run CUDA.} + puts stderr {These will need to be installed manually. See:} + puts stderr {https://docs.nvidia.com/cuda/ for details.} +} + +conflict cuda + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/cuda-11.2.2-auwu4ppa4xif4mva35k62vwtu2jqyl6h/lib64} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/cuda-11.2.2-auwu4ppa4xif4mva35k62vwtu2jqyl6h/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/cuda-11.2.2-auwu4ppa4xif4mva35k62vwtu2jqyl6h/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/cuda-11.2.2-auwu4ppa4xif4mva35k62vwtu2jqyl6h/include} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/cuda-11.2.2-auwu4ppa4xif4mva35k62vwtu2jqyl6h/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/cuda-11.2.2-auwu4ppa4xif4mva35k62vwtu2jqyl6h/.} +setenv CUDA_HOME {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/cuda-11.2.2-auwu4ppa4xif4mva35k62vwtu2jqyl6h} +setenv CUDA_ROOT {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/cuda-11.2.2-auwu4ppa4xif4mva35k62vwtu2jqyl6h} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/core/cuda/11.7.1 b/modulefiles/hpccf/franklin/v0.21/core/cuda/11.7.1 new file mode 100644 index 00000000..69af4bd4 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/core/cuda/11.7.1 @@ -0,0 +1,47 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-13 18:13:32.900362 +## +## cuda@11.7.1%gcc@11.4.0~allow-unsupported-compilers~dev build_system=generic arch=linux-ubuntu22.04-x86_64_v3/k3ifxn3 +## + + +module-whatis {CUDA is a parallel computing platform and programming model invented by NVIDIA. It enables dramatic increases in computing performance by harnessing the power of the graphics processing unit (GPU).} + +proc ModulesHelp { } { + puts stderr {Name : cuda} + puts stderr {Version: 11.7.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {CUDA is a parallel computing platform and programming model invented by} + puts stderr {NVIDIA. It enables dramatic increases in computing performance by} + puts stderr {harnessing the power of the graphics processing unit (GPU). Note: This} + puts stderr {package does not currently install the drivers necessary to run CUDA.} + puts stderr {These will need to be installed manually. See:} + puts stderr {https://docs.nvidia.com/cuda/ for details.} +} + +conflict cuda + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/cuda-11.7.1-k3ifxn3xwvgmmryyaohznanautltd4mr/lib64} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/cuda-11.7.1-k3ifxn3xwvgmmryyaohznanautltd4mr/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/cuda-11.7.1-k3ifxn3xwvgmmryyaohznanautltd4mr/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/cuda-11.7.1-k3ifxn3xwvgmmryyaohznanautltd4mr/include} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/cuda-11.7.1-k3ifxn3xwvgmmryyaohznanautltd4mr/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/cuda-11.7.1-k3ifxn3xwvgmmryyaohznanautltd4mr/.} +setenv CUDA_HOME {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/cuda-11.7.1-k3ifxn3xwvgmmryyaohznanautltd4mr} +setenv CUDA_ROOT {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/cuda-11.7.1-k3ifxn3xwvgmmryyaohznanautltd4mr} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/core/cuda/8.0.61 b/modulefiles/hpccf/franklin/v0.21/core/cuda/8.0.61 new file mode 100644 index 00000000..3af44f18 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/core/cuda/8.0.61 @@ -0,0 +1,47 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-13 18:13:32.806509 +## +## cuda@8.0.61%gcc@11.4.0~allow-unsupported-compilers~dev build_system=generic arch=linux-ubuntu22.04-x86_64_v3/oqyeipp +## + + +module-whatis {CUDA is a parallel computing platform and programming model invented by NVIDIA. It enables dramatic increases in computing performance by harnessing the power of the graphics processing unit (GPU).} + +proc ModulesHelp { } { + puts stderr {Name : cuda} + puts stderr {Version: 8.0.61} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {CUDA is a parallel computing platform and programming model invented by} + puts stderr {NVIDIA. It enables dramatic increases in computing performance by} + puts stderr {harnessing the power of the graphics processing unit (GPU). Note: This} + puts stderr {package does not currently install the drivers necessary to run CUDA.} + puts stderr {These will need to be installed manually. See:} + puts stderr {https://docs.nvidia.com/cuda/ for details.} +} + +conflict cuda + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/cuda-8.0.61-oqyeippuxfi2w6wmmg3p3upj4lnbehvh/lib64} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/cuda-8.0.61-oqyeippuxfi2w6wmmg3p3upj4lnbehvh/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/cuda-8.0.61-oqyeippuxfi2w6wmmg3p3upj4lnbehvh/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/cuda-8.0.61-oqyeippuxfi2w6wmmg3p3upj4lnbehvh/include} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/cuda-8.0.61-oqyeippuxfi2w6wmmg3p3upj4lnbehvh/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/cuda-8.0.61-oqyeippuxfi2w6wmmg3p3upj4lnbehvh/.} +setenv CUDA_HOME {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/cuda-8.0.61-oqyeippuxfi2w6wmmg3p3upj4lnbehvh} +setenv CUDA_ROOT {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/cuda-8.0.61-oqyeippuxfi2w6wmmg3p3upj4lnbehvh} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/core/cuda/default b/modulefiles/hpccf/franklin/v0.21/core/cuda/default new file mode 120000 index 00000000..254790bd --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/core/cuda/default @@ -0,0 +1 @@ +/share/apps/22.04/modulefiles/spack/core/cuda/11.7.1 \ No newline at end of file diff --git a/modulefiles/hpccf/franklin/v0.21/core/environment-modules/5.2.0 b/modulefiles/hpccf/franklin/v0.21/core/environment-modules/5.2.0 new file mode 100644 index 00000000..961a5391 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/core/environment-modules/5.2.0 @@ -0,0 +1,41 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-13 18:13:32.938226 +## +## environment-modules@5.2.0%gcc@11.4.0+X build_system=generic arch=linux-ubuntu22.04-x86_64_v3/srlc7vh +## + + +module-whatis {The Environment Modules package provides for the dynamic modification of a user's environment via module files. } + +proc ModulesHelp { } { + puts stderr {Name : environment-modules} + puts stderr {Version: 5.2.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The Environment Modules package provides for the dynamic modification of} + puts stderr {a user's environment via module files.} +} + +conflict environment-modules + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/environment-modules-5.2.0-srlc7vh43363a3gdz4ffuw3u3ygbj7yv/lib} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/environment-modules-5.2.0-srlc7vh43363a3gdz4ffuw3u3ygbj7yv/bin} +prepend-path --delim {:} MANPATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/environment-modules-5.2.0-srlc7vh43363a3gdz4ffuw3u3ygbj7yv/share/man} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/environment-modules-5.2.0-srlc7vh43363a3gdz4ffuw3u3ygbj7yv/.} +setenv ENVIRONMENT_MODULES_ROOT {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/environment-modules-5.2.0-srlc7vh43363a3gdz4ffuw3u3ygbj7yv} +append-path --delim {:} MANPATH {} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/core/gcc/11.4.0 b/modulefiles/hpccf/franklin/v0.21/core/gcc/11.4.0 new file mode 100644 index 00000000..211e38d1 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/core/gcc/11.4.0 @@ -0,0 +1,51 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-13 18:13:33.082692 +## +## gcc@11.4.0%gcc@11.4.0~binutils+bootstrap~graphite~nvptx~piclibs~profiled~strip build_system=autotools build_type=RelWithDebInfo languages=c,c++,fortran arch=linux-ubuntu22.04-x86_64_v3/evrz2ia +## +## Configure options: --with-pkgversion=Spack GCC --with-bugurl=https://github.com/spack/spack/issues --disable-multilib --enable-languages=c,c++,fortran --disable-nls --disable-canonical-system-headers --with-system-zlib --with-zstd-include=/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/zstd-1.5.5-ty7czvom3k225wd5nnuqvvxflbh2lnif/include --with-zstd-lib=/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/zstd-1.5.5-ty7czvom3k225wd5nnuqvvxflbh2lnif/lib --enable-bootstrap --with-mpfr-include=/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mpfr-4.2.0-ixzwbvh42mmndfth3fr6kojptuxnpktc/include --with-mpfr-lib=/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mpfr-4.2.0-ixzwbvh42mmndfth3fr6kojptuxnpktc/lib --with-gmp-include=/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gmp-6.2.1-6vzcan3wt43o7khwtvbakwwv4mib6ilv/include --with-gmp-lib=/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gmp-6.2.1-6vzcan3wt43o7khwtvbakwwv4mib6ilv/lib --with-mpc-include=/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mpc-1.3.1-5mfijtxkmbndddnowakfls5mjx2ix6eu/include --with-mpc-lib=/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mpc-1.3.1-5mfijtxkmbndddnowakfls5mjx2ix6eu/lib --without-isl --with-stage1-ldflags=-Wl,-rpath,/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-11.4.0-evrz2iaatpna4lvzwh5sjujgfrlqprx5/lib -Wl,-rpath,/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-11.4.0-evrz2iaatpna4lvzwh5sjujgfrlqprx5/lib64 -Wl,-rpath,/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gmp-6.2.1-6vzcan3wt43o7khwtvbakwwv4mib6ilv/lib -Wl,-rpath,/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mpc-1.3.1-5mfijtxkmbndddnowakfls5mjx2ix6eu/lib -Wl,-rpath,/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mpfr-4.2.0-ixzwbvh42mmndfth3fr6kojptuxnpktc/lib -Wl,-rpath,/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/zlib-ng-2.1.3-6bawsidwttj6jecmtk6u24gmu6wypvbp/lib -Wl,-rpath,/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/zstd-1.5.5-ty7czvom3k225wd5nnuqvvxflbh2lnif/lib --with-boot-ldflags=-Wl,-rpath,/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-11.4.0-evrz2iaatpna4lvzwh5sjujgfrlqprx5/lib -Wl,-rpath,/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-11.4.0-evrz2iaatpna4lvzwh5sjujgfrlqprx5/lib64 -Wl,-rpath,/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gmp-6.2.1-6vzcan3wt43o7khwtvbakwwv4mib6ilv/lib -Wl,-rpath,/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mpc-1.3.1-5mfijtxkmbndddnowakfls5mjx2ix6eu/lib -Wl,-rpath,/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mpfr-4.2.0-ixzwbvh42mmndfth3fr6kojptuxnpktc/lib -Wl,-rpath,/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/zlib-ng-2.1.3-6bawsidwttj6jecmtk6u24gmu6wypvbp/lib -Wl,-rpath,/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/zstd-1.5.5-ty7czvom3k225wd5nnuqvvxflbh2lnif/lib -static-libstdc++ -static-libgcc --with-build-config=spack +## + + +module-whatis {The GNU Compiler Collection includes front ends for C, C++, Objective-C, Fortran, Ada, and Go, as well as libraries for these languages.} + +proc ModulesHelp { } { + puts stderr {Name : gcc} + puts stderr {Version: 11.4.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The GNU Compiler Collection includes front ends for C, C++, Objective-C,} + puts stderr {Fortran, Ada, and Go, as well as libraries for these languages.} +} + +conflict gcc + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-11.4.0-evrz2iaatpna4lvzwh5sjujgfrlqprx5/lib64} +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-11.4.0-evrz2iaatpna4lvzwh5sjujgfrlqprx5/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-11.4.0-evrz2iaatpna4lvzwh5sjujgfrlqprx5/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-11.4.0-evrz2iaatpna4lvzwh5sjujgfrlqprx5/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-11.4.0-evrz2iaatpna4lvzwh5sjujgfrlqprx5/include} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-11.4.0-evrz2iaatpna4lvzwh5sjujgfrlqprx5/bin} +prepend-path --delim {:} MANPATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-11.4.0-evrz2iaatpna4lvzwh5sjujgfrlqprx5/share/man} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-11.4.0-evrz2iaatpna4lvzwh5sjujgfrlqprx5/.} +setenv CC {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-11.4.0-evrz2iaatpna4lvzwh5sjujgfrlqprx5/bin/gcc} +setenv CXX {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-11.4.0-evrz2iaatpna4lvzwh5sjujgfrlqprx5/bin/g++} +setenv FC {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-11.4.0-evrz2iaatpna4lvzwh5sjujgfrlqprx5/bin/gfortran} +setenv F77 {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-11.4.0-evrz2iaatpna4lvzwh5sjujgfrlqprx5/bin/gfortran} +setenv GCC_ROOT {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-11.4.0-evrz2iaatpna4lvzwh5sjujgfrlqprx5} +append-path --delim {:} MANPATH {} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/core/gcc/13.2.0 b/modulefiles/hpccf/franklin/v0.21/core/gcc/13.2.0 new file mode 100644 index 00000000..92dbe561 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/core/gcc/13.2.0 @@ -0,0 +1,51 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-13 18:13:33.128558 +## +## gcc@13.2.0%gcc@11.4.0~binutils+bootstrap~graphite~nvptx~piclibs~profiled~strip build_system=autotools build_type=RelWithDebInfo languages=c,c++,fortran arch=linux-ubuntu22.04-x86_64_v3/jgnkbyf +## +## Configure options: --with-pkgversion=Spack GCC --with-bugurl=https://github.com/spack/spack/issues --disable-multilib --enable-languages=c,c++,fortran --disable-nls --disable-canonical-system-headers --with-system-zlib --with-zstd-include=/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/zstd-1.5.5-ty7czvom3k225wd5nnuqvvxflbh2lnif/include --with-zstd-lib=/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/zstd-1.5.5-ty7czvom3k225wd5nnuqvvxflbh2lnif/lib --enable-bootstrap --with-mpfr-include=/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mpfr-4.2.0-ixzwbvh42mmndfth3fr6kojptuxnpktc/include --with-mpfr-lib=/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mpfr-4.2.0-ixzwbvh42mmndfth3fr6kojptuxnpktc/lib --with-gmp-include=/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gmp-6.2.1-6vzcan3wt43o7khwtvbakwwv4mib6ilv/include --with-gmp-lib=/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gmp-6.2.1-6vzcan3wt43o7khwtvbakwwv4mib6ilv/lib --with-mpc-include=/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mpc-1.3.1-5mfijtxkmbndddnowakfls5mjx2ix6eu/include --with-mpc-lib=/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mpc-1.3.1-5mfijtxkmbndddnowakfls5mjx2ix6eu/lib --without-isl --with-stage1-ldflags=-Wl,-rpath,/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-13.2.0-jgnkbyfwxvxneaufyftvbjuxbxdl5ulm/lib -Wl,-rpath,/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-13.2.0-jgnkbyfwxvxneaufyftvbjuxbxdl5ulm/lib64 -Wl,-rpath,/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gmp-6.2.1-6vzcan3wt43o7khwtvbakwwv4mib6ilv/lib -Wl,-rpath,/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mpc-1.3.1-5mfijtxkmbndddnowakfls5mjx2ix6eu/lib -Wl,-rpath,/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mpfr-4.2.0-ixzwbvh42mmndfth3fr6kojptuxnpktc/lib -Wl,-rpath,/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/zlib-ng-2.1.3-6bawsidwttj6jecmtk6u24gmu6wypvbp/lib -Wl,-rpath,/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/zstd-1.5.5-ty7czvom3k225wd5nnuqvvxflbh2lnif/lib --with-boot-ldflags=-Wl,-rpath,/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-13.2.0-jgnkbyfwxvxneaufyftvbjuxbxdl5ulm/lib -Wl,-rpath,/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-13.2.0-jgnkbyfwxvxneaufyftvbjuxbxdl5ulm/lib64 -Wl,-rpath,/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gmp-6.2.1-6vzcan3wt43o7khwtvbakwwv4mib6ilv/lib -Wl,-rpath,/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mpc-1.3.1-5mfijtxkmbndddnowakfls5mjx2ix6eu/lib -Wl,-rpath,/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mpfr-4.2.0-ixzwbvh42mmndfth3fr6kojptuxnpktc/lib -Wl,-rpath,/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/zlib-ng-2.1.3-6bawsidwttj6jecmtk6u24gmu6wypvbp/lib -Wl,-rpath,/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/zstd-1.5.5-ty7czvom3k225wd5nnuqvvxflbh2lnif/lib -static-libstdc++ -static-libgcc --with-build-config=spack +## + + +module-whatis {The GNU Compiler Collection includes front ends for C, C++, Objective-C, Fortran, Ada, and Go, as well as libraries for these languages.} + +proc ModulesHelp { } { + puts stderr {Name : gcc} + puts stderr {Version: 13.2.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The GNU Compiler Collection includes front ends for C, C++, Objective-C,} + puts stderr {Fortran, Ada, and Go, as well as libraries for these languages.} +} + +conflict gcc + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-13.2.0-jgnkbyfwxvxneaufyftvbjuxbxdl5ulm/lib64} +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-13.2.0-jgnkbyfwxvxneaufyftvbjuxbxdl5ulm/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-13.2.0-jgnkbyfwxvxneaufyftvbjuxbxdl5ulm/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-13.2.0-jgnkbyfwxvxneaufyftvbjuxbxdl5ulm/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-13.2.0-jgnkbyfwxvxneaufyftvbjuxbxdl5ulm/include} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-13.2.0-jgnkbyfwxvxneaufyftvbjuxbxdl5ulm/bin} +prepend-path --delim {:} MANPATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-13.2.0-jgnkbyfwxvxneaufyftvbjuxbxdl5ulm/share/man} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-13.2.0-jgnkbyfwxvxneaufyftvbjuxbxdl5ulm/.} +setenv CC {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-13.2.0-jgnkbyfwxvxneaufyftvbjuxbxdl5ulm/bin/gcc} +setenv CXX {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-13.2.0-jgnkbyfwxvxneaufyftvbjuxbxdl5ulm/bin/g++} +setenv FC {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-13.2.0-jgnkbyfwxvxneaufyftvbjuxbxdl5ulm/bin/gfortran} +setenv F77 {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-13.2.0-jgnkbyfwxvxneaufyftvbjuxbxdl5ulm/bin/gfortran} +setenv GCC_ROOT {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-13.2.0-jgnkbyfwxvxneaufyftvbjuxbxdl5ulm} +append-path --delim {:} MANPATH {} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/core/gcc/7.5.0 b/modulefiles/hpccf/franklin/v0.21/core/gcc/7.5.0 new file mode 100644 index 00000000..b95dc6f0 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/core/gcc/7.5.0 @@ -0,0 +1,51 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-13 18:13:33.007131 +## +## gcc@7.5.0%gcc@11.4.0~binutils+bootstrap~graphite~nvptx~piclibs~profiled~strip build_system=autotools build_type=RelWithDebInfo languages=c,c++,fortran patches=98a9c96,b620e92,d4919d6,dc1ca24 arch=linux-ubuntu22.04-x86_64_v3/piebnx4 +## +## Configure options: --with-pkgversion=Spack GCC --with-bugurl=https://github.com/spack/spack/issues --disable-multilib --enable-languages=c,c++,fortran --disable-nls --disable-canonical-system-headers --with-system-zlib --with-zstd-include=/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/zstd-1.5.5-ty7czvom3k225wd5nnuqvvxflbh2lnif/include --with-zstd-lib=/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/zstd-1.5.5-ty7czvom3k225wd5nnuqvvxflbh2lnif/lib --enable-bootstrap --with-mpfr-include=/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mpfr-3.1.6-sp3ttllgo7exzw3vlkx3t2dkxh2lx2bl/include --with-mpfr-lib=/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mpfr-3.1.6-sp3ttllgo7exzw3vlkx3t2dkxh2lx2bl/lib --with-gmp-include=/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gmp-6.2.1-6vzcan3wt43o7khwtvbakwwv4mib6ilv/include --with-gmp-lib=/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gmp-6.2.1-6vzcan3wt43o7khwtvbakwwv4mib6ilv/lib --with-mpc-include=/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mpc-1.1.0-km3q4trw2ihnkfvksurdgq2fylvrme2a/include --with-mpc-lib=/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mpc-1.1.0-km3q4trw2ihnkfvksurdgq2fylvrme2a/lib --without-isl --with-stage1-ldflags=-Wl,-rpath,/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-7.5.0-piebnx4u5zpb5ggu5udpzk7zvmvybsg4/lib -Wl,-rpath,/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-7.5.0-piebnx4u5zpb5ggu5udpzk7zvmvybsg4/lib64 -Wl,-rpath,/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gmp-6.2.1-6vzcan3wt43o7khwtvbakwwv4mib6ilv/lib -Wl,-rpath,/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mpc-1.1.0-km3q4trw2ihnkfvksurdgq2fylvrme2a/lib -Wl,-rpath,/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mpfr-3.1.6-sp3ttllgo7exzw3vlkx3t2dkxh2lx2bl/lib -Wl,-rpath,/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/zlib-ng-2.1.3-6bawsidwttj6jecmtk6u24gmu6wypvbp/lib --with-boot-ldflags=-Wl,-rpath,/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-7.5.0-piebnx4u5zpb5ggu5udpzk7zvmvybsg4/lib -Wl,-rpath,/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-7.5.0-piebnx4u5zpb5ggu5udpzk7zvmvybsg4/lib64 -Wl,-rpath,/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gmp-6.2.1-6vzcan3wt43o7khwtvbakwwv4mib6ilv/lib -Wl,-rpath,/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mpc-1.1.0-km3q4trw2ihnkfvksurdgq2fylvrme2a/lib -Wl,-rpath,/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mpfr-3.1.6-sp3ttllgo7exzw3vlkx3t2dkxh2lx2bl/lib -Wl,-rpath,/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/zlib-ng-2.1.3-6bawsidwttj6jecmtk6u24gmu6wypvbp/lib -static-libstdc++ -static-libgcc --with-build-config=spack +## + + +module-whatis {The GNU Compiler Collection includes front ends for C, C++, Objective-C, Fortran, Ada, and Go, as well as libraries for these languages.} + +proc ModulesHelp { } { + puts stderr {Name : gcc} + puts stderr {Version: 7.5.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The GNU Compiler Collection includes front ends for C, C++, Objective-C,} + puts stderr {Fortran, Ada, and Go, as well as libraries for these languages.} +} + +conflict gcc + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-7.5.0-piebnx4u5zpb5ggu5udpzk7zvmvybsg4/lib64} +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-7.5.0-piebnx4u5zpb5ggu5udpzk7zvmvybsg4/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-7.5.0-piebnx4u5zpb5ggu5udpzk7zvmvybsg4/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-7.5.0-piebnx4u5zpb5ggu5udpzk7zvmvybsg4/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-7.5.0-piebnx4u5zpb5ggu5udpzk7zvmvybsg4/include} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-7.5.0-piebnx4u5zpb5ggu5udpzk7zvmvybsg4/bin} +prepend-path --delim {:} MANPATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-7.5.0-piebnx4u5zpb5ggu5udpzk7zvmvybsg4/share/man} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-7.5.0-piebnx4u5zpb5ggu5udpzk7zvmvybsg4/.} +setenv CC {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-7.5.0-piebnx4u5zpb5ggu5udpzk7zvmvybsg4/bin/gcc} +setenv CXX {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-7.5.0-piebnx4u5zpb5ggu5udpzk7zvmvybsg4/bin/g++} +setenv FC {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-7.5.0-piebnx4u5zpb5ggu5udpzk7zvmvybsg4/bin/gfortran} +setenv F77 {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-7.5.0-piebnx4u5zpb5ggu5udpzk7zvmvybsg4/bin/gfortran} +setenv GCC_ROOT {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-7.5.0-piebnx4u5zpb5ggu5udpzk7zvmvybsg4} +append-path --delim {:} MANPATH {} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/core/hwloc/2.9.1 b/modulefiles/hpccf/franklin/v0.21/core/hwloc/2.9.1 new file mode 100644 index 00000000..fcb25d57 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/core/hwloc/2.9.1 @@ -0,0 +1,62 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-13 18:13:33.188986 +## +## hwloc@2.9.1%gcc@11.4.0+cairo+cuda~gl+libudev+libxml2~netloc+nvml~oneapi-level-zero~opencl+pci~rocm build_system=autotools cuda_arch=75 libs=shared,static arch=linux-ubuntu22.04-x86_64_v3/hnhrdgp +## +## Configure options: --disable-opencl --disable-rsmi --disable-netloc --enable-cairo --enable-nvml --disable-gl --enable-cuda --enable-libxml2 --enable-libudev --enable-pci --enable-shared --enable-static --with-cuda=/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/cuda-11.7.1-k3ifxn3xwvgmmryyaohznanautltd4mr --with-cuda-version=11.7.1 +## + + +module-whatis {The Hardware Locality (hwloc) software project.} + +proc ModulesHelp { } { + puts stderr {Name : hwloc} + puts stderr {Version: 2.9.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The Hardware Locality (hwloc) software project. The Portable Hardware} + puts stderr {Locality (hwloc) software package provides a portable abstraction} + puts stderr {(across OS, versions, architectures, ...) of the hierarchical topology} + puts stderr {of modern architectures, including NUMA memory nodes, sockets, shared} + puts stderr {caches, cores and simultaneous multithreading. It also gathers various} + puts stderr {system attributes such as cache and memory information as well as the} + puts stderr {locality of I/O devices such as network interfaces, InfiniBand HCAs or} + puts stderr {GPUs. It primarily aims at helping applications with gathering} + puts stderr {information about modern computing hardware so as to exploit it} + puts stderr {accordingly and efficiently.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load cuda/11.7.1 +} else { + depends-on cuda/11.7.1 +} +prereq cuda/11.7.1 +conflict hwloc + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/hwloc-2.9.1-hnhrdgpezvhkaemhtaei3hm5y4dktiuo/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/hwloc-2.9.1-hnhrdgpezvhkaemhtaei3hm5y4dktiuo/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/hwloc-2.9.1-hnhrdgpezvhkaemhtaei3hm5y4dktiuo/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/hwloc-2.9.1-hnhrdgpezvhkaemhtaei3hm5y4dktiuo/include} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/hwloc-2.9.1-hnhrdgpezvhkaemhtaei3hm5y4dktiuo/bin} +prepend-path --delim {:} MANPATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/hwloc-2.9.1-hnhrdgpezvhkaemhtaei3hm5y4dktiuo/share/man} +prepend-path --delim {:} PKG_CONFIG_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/hwloc-2.9.1-hnhrdgpezvhkaemhtaei3hm5y4dktiuo/lib/pkgconfig} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/hwloc-2.9.1-hnhrdgpezvhkaemhtaei3hm5y4dktiuo/.} +prepend-path --delim {:} XLOCALEDIR {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libx11-1.8.4-fqatafo2vvy4kb4sdsbcknswlwxras4a/share/X11/locale} +setenv HWLOC_ROOT {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/hwloc-2.9.1-hnhrdgpezvhkaemhtaei3hm5y4dktiuo} +append-path --delim {:} MANPATH {} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/core/intel-oneapi-compilers/2023.2.1 b/modulefiles/hpccf/franklin/v0.21/core/intel-oneapi-compilers/2023.2.1 new file mode 100644 index 00000000..b25a2b0b --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/core/intel-oneapi-compilers/2023.2.1 @@ -0,0 +1,60 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-13 18:13:33.476096 +## +## intel-oneapi-compilers@2023.2.1%gcc@11.4.0+envmods build_system=generic arch=linux-ubuntu22.04-x86_64_v3/73sl4rc +## + + +module-whatis {Intel oneAPI Compilers. Includes: icc, icpc, ifort, icx, icpx, ifx, and dpcpp.} + +proc ModulesHelp { } { + puts stderr {Name : intel-oneapi-compilers} + puts stderr {Version: 2023.2.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Intel oneAPI Compilers. Includes: icc, icpc, ifort, icx, icpx, ifx, and} + puts stderr {dpcpp. LICENSE INFORMATION: By downloading and using this software, you} + puts stderr {agree to the terms and conditions of the software license agreements at} + puts stderr {https://intel.ly/393CijO.} +} + +conflict intel-oneapi-compilers + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-compilers-2023.2.1-73sl4rcnnjvfa6p5b67n32w2xejl275l/lib} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-compilers-2023.2.1-73sl4rcnnjvfa6p5b67n32w2xejl275l/.} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-compilers-2023.2.1-73sl4rcnnjvfa6p5b67n32w2xejl275l/compiler/2023.2.1/linux/IntelDPCPP} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-compilers-2023.2.1-73sl4rcnnjvfa6p5b67n32w2xejl275l/compiler/2023.2.1/linux/lib/oclfpga/include} +append-path --delim {:} DIAGUTIL_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-compilers-2023.2.1-73sl4rcnnjvfa6p5b67n32w2xejl275l/compiler/2023.2.1/sys_check/sys_check.sh} +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-compilers-2023.2.1-73sl4rcnnjvfa6p5b67n32w2xejl275l/compiler/2023.2.1/linux/compiler/lib/intel64_lin} +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-compilers-2023.2.1-73sl4rcnnjvfa6p5b67n32w2xejl275l/compiler/2023.2.1/linux/lib/oclfpga/host/linux64/lib} +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-compilers-2023.2.1-73sl4rcnnjvfa6p5b67n32w2xejl275l/compiler/2023.2.1/linux/lib/x64} +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-compilers-2023.2.1-73sl4rcnnjvfa6p5b67n32w2xejl275l/compiler/2023.2.1/linux/lib} +append-path --delim {:} LIBRARY_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-compilers-2023.2.1-73sl4rcnnjvfa6p5b67n32w2xejl275l/compiler/2023.2.1/linux/compiler/lib/intel64_lin} +append-path --delim {:} LIBRARY_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-compilers-2023.2.1-73sl4rcnnjvfa6p5b67n32w2xejl275l/compiler/2023.2.1/linux/lib} +prepend-path --delim {:} MANPATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-compilers-2023.2.1-73sl4rcnnjvfa6p5b67n32w2xejl275l/compiler/2023.2.1/documentation/en/man/common} +append-path --delim {:} NLSPATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-compilers-2023.2.1-73sl4rcnnjvfa6p5b67n32w2xejl275l/compiler/2023.2.1/linux/compiler/lib/intel64_lin/locale/%l_%t/%N} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-compilers-2023.2.1-73sl4rcnnjvfa6p5b67n32w2xejl275l/compiler/2023.2.1/linux/bin} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-compilers-2023.2.1-73sl4rcnnjvfa6p5b67n32w2xejl275l/compiler/2023.2.1/linux/bin/intel64} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-compilers-2023.2.1-73sl4rcnnjvfa6p5b67n32w2xejl275l/compiler/2023.2.1/linux/lib/oclfpga/bin} +prepend-path --delim {:} PKG_CONFIG_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-compilers-2023.2.1-73sl4rcnnjvfa6p5b67n32w2xejl275l/compiler/2023.2.1/lib/pkgconfig} +setenv CC {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-compilers-2023.2.1-73sl4rcnnjvfa6p5b67n32w2xejl275l/compiler/2023.2.1/linux/bin/icx} +setenv CXX {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-compilers-2023.2.1-73sl4rcnnjvfa6p5b67n32w2xejl275l/compiler/2023.2.1/linux/bin/icpx} +setenv F77 {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-compilers-2023.2.1-73sl4rcnnjvfa6p5b67n32w2xejl275l/compiler/2023.2.1/linux/bin/ifx} +setenv FC {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-compilers-2023.2.1-73sl4rcnnjvfa6p5b67n32w2xejl275l/compiler/2023.2.1/linux/bin/ifx} +setenv INTEL_ONEAPI_COMPILERS_ROOT {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-compilers-2023.2.1-73sl4rcnnjvfa6p5b67n32w2xejl275l} +append-path --delim {:} MANPATH {} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/core/libevent/2.1.12 b/modulefiles/hpccf/franklin/v0.21/core/libevent/2.1.12 new file mode 100644 index 00000000..5c6d15e4 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/core/libevent/2.1.12 @@ -0,0 +1,47 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-13 18:13:33.770492 +## +## libevent@2.1.12%gcc@11.4.0~openssl build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/nkqufkh +## +## Configure options: --disable-openssl +## + + +module-whatis {The libevent API provides a mechanism to execute a callback function when a specific event occurs on a file descriptor or after a timeout has been reached. Furthermore, libevent also support callbacks due to signals or regular timeouts.} + +proc ModulesHelp { } { + puts stderr {Name : libevent} + puts stderr {Version: 2.1.12} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The libevent API provides a mechanism to execute a callback function} + puts stderr {when a specific event occurs on a file descriptor or after a timeout has} + puts stderr {been reached. Furthermore, libevent also support callbacks due to} + puts stderr {signals or regular timeouts.} +} + +conflict libevent + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libevent-2.1.12-nkqufkh3vxqfcp37o3rnbrinxbpqje2u/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libevent-2.1.12-nkqufkh3vxqfcp37o3rnbrinxbpqje2u/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libevent-2.1.12-nkqufkh3vxqfcp37o3rnbrinxbpqje2u/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libevent-2.1.12-nkqufkh3vxqfcp37o3rnbrinxbpqje2u/include} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libevent-2.1.12-nkqufkh3vxqfcp37o3rnbrinxbpqje2u/bin} +prepend-path --delim {:} PKG_CONFIG_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libevent-2.1.12-nkqufkh3vxqfcp37o3rnbrinxbpqje2u/lib/pkgconfig} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libevent-2.1.12-nkqufkh3vxqfcp37o3rnbrinxbpqje2u/.} +setenv LIBEVENT_ROOT {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libevent-2.1.12-nkqufkh3vxqfcp37o3rnbrinxbpqje2u} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/core/libevent/2.1.12+amd b/modulefiles/hpccf/franklin/v0.21/core/libevent/2.1.12+amd new file mode 100644 index 00000000..9e41f885 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/core/libevent/2.1.12+amd @@ -0,0 +1,47 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-13 18:13:33.789899 +## +## libevent@2.1.12%gcc@11.4.0~openssl build_system=autotools arch=linux-ubuntu22.04-zen2/z76nevy +## +## Configure options: --disable-openssl +## + + +module-whatis {The libevent API provides a mechanism to execute a callback function when a specific event occurs on a file descriptor or after a timeout has been reached. Furthermore, libevent also support callbacks due to signals or regular timeouts.} + +proc ModulesHelp { } { + puts stderr {Name : libevent} + puts stderr {Version: 2.1.12} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {The libevent API provides a mechanism to execute a callback function} + puts stderr {when a specific event occurs on a file descriptor or after a timeout has} + puts stderr {been reached. Furthermore, libevent also support callbacks due to} + puts stderr {signals or regular timeouts.} +} + +conflict libevent + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-zen2/gcc-11.4.0/libevent-2.1.12-z76nevy2pl4uf6qa62i3ttacdxe3ba44/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-zen2/gcc-11.4.0/libevent-2.1.12-z76nevy2pl4uf6qa62i3ttacdxe3ba44/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-zen2/gcc-11.4.0/libevent-2.1.12-z76nevy2pl4uf6qa62i3ttacdxe3ba44/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-zen2/gcc-11.4.0/libevent-2.1.12-z76nevy2pl4uf6qa62i3ttacdxe3ba44/include} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-zen2/gcc-11.4.0/libevent-2.1.12-z76nevy2pl4uf6qa62i3ttacdxe3ba44/bin} +prepend-path --delim {:} PKG_CONFIG_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-zen2/gcc-11.4.0/libevent-2.1.12-z76nevy2pl4uf6qa62i3ttacdxe3ba44/lib/pkgconfig} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-zen2/gcc-11.4.0/libevent-2.1.12-z76nevy2pl4uf6qa62i3ttacdxe3ba44/.} +setenv LIBEVENT_ROOT {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-zen2/gcc-11.4.0/libevent-2.1.12-z76nevy2pl4uf6qa62i3ttacdxe3ba44} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/core/libevent/2.1.12+intel b/modulefiles/hpccf/franklin/v0.21/core/libevent/2.1.12+intel new file mode 100644 index 00000000..053108e2 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/core/libevent/2.1.12+intel @@ -0,0 +1,47 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-13 18:13:33.804765 +## +## libevent@2.1.12%oneapi@2023.2.0~openssl build_system=autotools arch=linux-ubuntu22.04-skylake_avx512/hxwszog +## +## Configure options: --disable-openssl +## + + +module-whatis {The libevent API provides a mechanism to execute a callback function when a specific event occurs on a file descriptor or after a timeout has been reached. Furthermore, libevent also support callbacks due to signals or regular timeouts.} + +proc ModulesHelp { } { + puts stderr {Name : libevent} + puts stderr {Version: 2.1.12} + puts stderr {Target : skylake_avx512} + puts stderr {} + puts stderr {The libevent API provides a mechanism to execute a callback function} + puts stderr {when a specific event occurs on a file descriptor or after a timeout has} + puts stderr {been reached. Furthermore, libevent also support callbacks due to} + puts stderr {signals or regular timeouts.} +} + +conflict libevent + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/libevent-2.1.12-hxwszogt27r3a2ptigkmqb7unfg2rszb/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/libevent-2.1.12-hxwszogt27r3a2ptigkmqb7unfg2rszb/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/libevent-2.1.12-hxwszogt27r3a2ptigkmqb7unfg2rszb/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/libevent-2.1.12-hxwszogt27r3a2ptigkmqb7unfg2rszb/include} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/libevent-2.1.12-hxwszogt27r3a2ptigkmqb7unfg2rszb/bin} +prepend-path --delim {:} PKG_CONFIG_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/libevent-2.1.12-hxwszogt27r3a2ptigkmqb7unfg2rszb/lib/pkgconfig} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/libevent-2.1.12-hxwszogt27r3a2ptigkmqb7unfg2rszb/.} +setenv LIBEVENT_ROOT {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/libevent-2.1.12-hxwszogt27r3a2ptigkmqb7unfg2rszb} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/core/libevent/default b/modulefiles/hpccf/franklin/v0.21/core/libevent/default new file mode 120000 index 00000000..31f93753 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/core/libevent/default @@ -0,0 +1 @@ +/share/apps/22.04/modulefiles/spack/core/libevent/2.1.12 \ No newline at end of file diff --git a/modulefiles/hpccf/franklin/v0.21/core/module-index.yaml b/modulefiles/hpccf/franklin/v0.21/core/module-index.yaml new file mode 100644 index 00000000..1c17ebf7 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/core/module-index.yaml @@ -0,0 +1,70 @@ +module_index: + eifp3gy4vc3sda2ywgng2idqqbfbhw5i: + path: /share/apps/22.04/modulefiles/spack/core/aocc/4.1.0 + use_name: aocc/4.1.0 + oqyeippuxfi2w6wmmg3p3upj4lnbehvh: + path: /share/apps/22.04/modulefiles/spack/core/cuda/8.0.61 + use_name: cuda/8.0.61 + auwu4ppa4xif4mva35k62vwtu2jqyl6h: + path: /share/apps/22.04/modulefiles/spack/core/cuda/11.2.2 + use_name: cuda/11.2.2 + k3ifxn3xwvgmmryyaohznanautltd4mr: + path: /share/apps/22.04/modulefiles/spack/core/cuda/11.7.1 + use_name: cuda/11.7.1 + srlc7vh43363a3gdz4ffuw3u3ygbj7yv: + path: /share/apps/22.04/modulefiles/spack/core/environment-modules/5.2.0 + use_name: environment-modules/5.2.0 + piebnx4u5zpb5ggu5udpzk7zvmvybsg4: + path: /share/apps/22.04/modulefiles/spack/core/gcc/7.5.0 + use_name: gcc/7.5.0 + evrz2iaatpna4lvzwh5sjujgfrlqprx5: + path: /share/apps/22.04/modulefiles/spack/core/gcc/11.4.0 + use_name: gcc/11.4.0 + jgnkbyfwxvxneaufyftvbjuxbxdl5ulm: + path: /share/apps/22.04/modulefiles/spack/core/gcc/13.2.0 + use_name: gcc/13.2.0 + hnhrdgpezvhkaemhtaei3hm5y4dktiuo: + path: /share/apps/22.04/modulefiles/spack/core/hwloc/2.9.1 + use_name: hwloc/2.9.1 + 73sl4rcnnjvfa6p5b67n32w2xejl275l: + path: /share/apps/22.04/modulefiles/spack/core/intel-oneapi-compilers/2023.2.1 + use_name: intel-oneapi-compilers/2023.2.1 + nkqufkh3vxqfcp37o3rnbrinxbpqje2u: + path: /share/apps/22.04/modulefiles/spack/core/libevent/2.1.12 + use_name: libevent/2.1.12 + z76nevy2pl4uf6qa62i3ttacdxe3ba44: + path: /share/apps/22.04/modulefiles/spack/core/libevent/2.1.12+amd + use_name: libevent/2.1.12+amd + hxwszogt27r3a2ptigkmqb7unfg2rszb: + path: /share/apps/22.04/modulefiles/spack/core/libevent/2.1.12+intel + use_name: libevent/2.1.12+intel + lp3lkplpqqnaodsatjmujnsnufnb6st5: + path: /share/apps/22.04/modulefiles/spack/core/openmpi/4.1.5 + use_name: openmpi/4.1.5 + mfveuuf2djgq7aqqkigvtn6ounp52m5k: + path: /share/apps/22.04/modulefiles/spack/core/openmpi/4.1.5+amd + use_name: openmpi/4.1.5+amd + r35gvo2mxbkjgczcqkua6n6txm7hvzd4: + path: /share/apps/22.04/modulefiles/spack/core/openmpi/4.1.5+intel + use_name: openmpi/4.1.5+intel + gesd3fwvj3dkvmzsn6vg4ltkoadsmqzx: + path: /share/apps/22.04/modulefiles/spack/core/pmix/4.2.6 + use_name: pmix/4.2.6 + osu2gfoy3kmmybtac3yvvmyyfrp5hyct: + path: /share/apps/22.04/modulefiles/spack/core/pmix/4.2.6+amd + use_name: pmix/4.2.6+amd + ms53xtrd3h3yhq4upbxc4qzl6po6v4wo: + path: /share/apps/22.04/modulefiles/spack/core/pmix/4.2.6+intel + use_name: pmix/4.2.6+intel + qgky6o2jrixqb76rq63guwynhv2v2os4: + path: /share/apps/22.04/modulefiles/spack/core/slurm/23-02-6-1 + use_name: slurm/23-02-6-1 + 5dulpdsnm3hap6cd4kszsvhqz564po7m: + path: /share/apps/22.04/modulefiles/spack/core/ucx/1.14.1 + use_name: ucx/1.14.1 + eldjz4kz4re5axw2cyusrzkasym3rtob: + path: /share/apps/22.04/modulefiles/spack/core/ucx/1.14.1+amd + use_name: ucx/1.14.1+amd + 24xu7dqfo4d3jribbliwpinq4x6hxyxc: + path: /share/apps/22.04/modulefiles/spack/core/ucx/1.14.1+intel + use_name: ucx/1.14.1+intel diff --git a/modulefiles/hpccf/franklin/v0.21/core/openmpi/4.1.5 b/modulefiles/hpccf/franklin/v0.21/core/openmpi/4.1.5 new file mode 100644 index 00000000..ac515171 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/core/openmpi/4.1.5 @@ -0,0 +1,67 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-13 19:49:35.062939 +## +## openmpi@4.1.5%gcc@11.4.0~atomics+cuda~cxx~cxx_exceptions~gpfs~internal-hwloc~internal-pmix~java+legacylaunchers~lustre~memchecker~openshmem~orterunprefix~pmi+romio+rsh~singularity+static+vt+wrapper-rpath build_system=autotools cuda_arch=75 fabrics=ucx schedulers=slurm arch=linux-ubuntu22.04-x86_64_v3/joyc7do +## +## Configure options: --enable-shared --disable-silent-rules --disable-sphinx --disable-builtin-atomics --without-pmi --enable-static --enable-mpi1-compatibility --without-verbs --without-knem --without-mxm --without-fca --without-psm2 --without-psm --without-ofi --without-xpmem --with-ucx=/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ucx-1.14.1-5dulpdsnm3hap6cd4kszsvhqz564po7m --without-hcoll --without-cma --without-cray-xpmem --without-alps --without-loadleveler --with-slurm --without-lsf --without-tm --without-sge --disable-memchecker --with-libevent=/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libevent-2.1.12-jotb5dtfyh26bdvlzbgdjbgtapkzlkat --with-pmix=/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/pmix-4.2.6-h4q7qusquires7z4nxkmar3sb7nu6lns --with-zlib=/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/zlib-ng-2.1.3-6bawsidwttj6jecmtk6u24gmu6wypvbp --with-hwloc=/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/hwloc-2.9.1-kzjon55vscyblcf46v7zbwsu2kpenrl3 --disable-java --disable-mpi-java --with-gpfs=no --enable-dlopen --with-cuda=/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/cuda-11.7.1-v6vepp7zal5ujmzsxi6vnjzhtllxbl42 --enable-wrapper-rpath --disable-wrapper-runpath --disable-mpi-cxx --disable-cxx-exceptions --with-wrapper-ldflags=-Wl,-rpath,/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-11.4.0-cxjhlgyxdo4ibtgmh2gwz3yfklafv7fb/lib/gcc/x86_64-pc-linux-gnu/11.4.0 -Wl,-rpath,/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-11.4.0-cxjhlgyxdo4ibtgmh2gwz3yfklafv7fb/lib64 +## + + +module-whatis {An open source Message Passing Interface implementation.} + +proc ModulesHelp { } { + puts stderr {Name : openmpi} + puts stderr {Version: 4.1.5} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {An open source Message Passing Interface implementation. The Open MPI} + puts stderr {Project is an open source Message Passing Interface implementation that} + puts stderr {is developed and maintained by a consortium of academic, research, and} + puts stderr {industry partners. Open MPI is therefore able to combine the expertise,} + puts stderr {technologies, and resources from all across the High Performance} + puts stderr {Computing community in order to build the best MPI library available.} + puts stderr {Open MPI offers advantages for system and software vendors, application} + puts stderr {developers and computer science researchers.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load slurm/23-02-6-1 + module load ucx/1.14.1 +} else { + depends-on slurm/23-02-6-1 + depends-on ucx/1.14.1 +} +prereq slurm/23-02-6-1 +prereq ucx/1.14.1 +conflict openmpi + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/openmpi-4.1.5-joyc7douqjxwc6rga37uhhrbh34tsod5/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/openmpi-4.1.5-joyc7douqjxwc6rga37uhhrbh34tsod5/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/openmpi-4.1.5-joyc7douqjxwc6rga37uhhrbh34tsod5/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/openmpi-4.1.5-joyc7douqjxwc6rga37uhhrbh34tsod5/include} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/openmpi-4.1.5-joyc7douqjxwc6rga37uhhrbh34tsod5/bin} +prepend-path --delim {:} MANPATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/openmpi-4.1.5-joyc7douqjxwc6rga37uhhrbh34tsod5/share/man} +prepend-path --delim {:} PKG_CONFIG_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/openmpi-4.1.5-joyc7douqjxwc6rga37uhhrbh34tsod5/lib/pkgconfig} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/openmpi-4.1.5-joyc7douqjxwc6rga37uhhrbh34tsod5/.} +prepend-path --delim {:} XLOCALEDIR {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libx11-1.8.4-zaqf7dicjkl3i2sg2ciot74vsehx7k47/share/X11/locale} +setenv MPICC {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/openmpi-4.1.5-joyc7douqjxwc6rga37uhhrbh34tsod5/bin/mpicc} +setenv MPICXX {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/openmpi-4.1.5-joyc7douqjxwc6rga37uhhrbh34tsod5/bin/mpic++} +setenv MPIF77 {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/openmpi-4.1.5-joyc7douqjxwc6rga37uhhrbh34tsod5/bin/mpif77} +setenv MPIF90 {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/openmpi-4.1.5-joyc7douqjxwc6rga37uhhrbh34tsod5/bin/mpif90} +setenv OPENMPI_ROOT {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/openmpi-4.1.5-joyc7douqjxwc6rga37uhhrbh34tsod5} +append-path --delim {:} MANPATH {} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/core/openmpi/4.1.5+amd b/modulefiles/hpccf/franklin/v0.21/core/openmpi/4.1.5+amd new file mode 100644 index 00000000..d22c7316 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/core/openmpi/4.1.5+amd @@ -0,0 +1,58 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-13 18:13:34.256970 +## +## openmpi@4.1.5%gcc@11.4.0~atomics+cuda~cxx~cxx_exceptions~gpfs~internal-hwloc~internal-pmix~java+legacylaunchers~lustre~memchecker~openshmem~orterunprefix~pmi+romio+rsh~singularity+static+vt+wrapper-rpath build_system=autotools cuda_arch=75 fabrics=ucx schedulers=slurm arch=linux-ubuntu22.04-zen2/mfveuuf +## +## Configure options: --enable-shared --disable-silent-rules --disable-sphinx --disable-builtin-atomics --without-pmi --enable-static --enable-mpi1-compatibility --without-cma --without-xpmem --without-hcoll --without-knem --with-ucx=/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-zen2/gcc-11.4.0/ucx-1.14.1-mjl3ljdgybr2f4tnkhh6o4m6tl4kyj35 --without-fca --without-mxm --without-psm2 --without-psm --without-ofi --without-verbs --without-cray-xpmem --without-lsf --without-alps --without-tm --without-sge --with-slurm --without-loadleveler --disable-memchecker --with-libevent=/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-zen2/gcc-11.4.0/libevent-2.1.12-7gt7wl22g4obdh3rk3gveuymamctskos --with-pmix=/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-zen2/gcc-11.4.0/pmix-4.2.6-ricohk44htcoksrqukoqeypw6pflas2l --with-zlib=/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-zen2/gcc-11.4.0/zlib-ng-2.1.3-oalqlfqpanofnr773346yszuu3q3mtc4 --with-hwloc=/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-zen2/gcc-11.4.0/hwloc-2.9.1-rwrsqyx6j6uv5na6kaxr3nms6kypguss --disable-java --disable-mpi-java --with-gpfs=no --enable-dlopen --with-cuda=/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-zen2/gcc-11.4.0/cuda-11.7.1-epdx26prjsd6b6ek7sdbmz5zqpzr2ktl --enable-wrapper-rpath --disable-wrapper-runpath --disable-mpi-cxx --disable-cxx-exceptions --with-wrapper-ldflags=-Wl,-rpath,/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-11.4.0-cxjhlgyxdo4ibtgmh2gwz3yfklafv7fb/lib/gcc/x86_64-pc-linux-gnu/11.4.0 -Wl,-rpath,/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-11.4.0-cxjhlgyxdo4ibtgmh2gwz3yfklafv7fb/lib64 +## + + +module-whatis {An open source Message Passing Interface implementation.} + +proc ModulesHelp { } { + puts stderr {Name : openmpi} + puts stderr {Version: 4.1.5} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {An open source Message Passing Interface implementation. The Open MPI} + puts stderr {Project is an open source Message Passing Interface implementation that} + puts stderr {is developed and maintained by a consortium of academic, research, and} + puts stderr {industry partners. Open MPI is therefore able to combine the expertise,} + puts stderr {technologies, and resources from all across the High Performance} + puts stderr {Computing community in order to build the best MPI library available.} + puts stderr {Open MPI offers advantages for system and software vendors, application} + puts stderr {developers and computer science researchers.} +} + +conflict openmpi + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-zen2/gcc-11.4.0/openmpi-4.1.5-mfveuuf2djgq7aqqkigvtn6ounp52m5k/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-zen2/gcc-11.4.0/openmpi-4.1.5-mfveuuf2djgq7aqqkigvtn6ounp52m5k/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-zen2/gcc-11.4.0/openmpi-4.1.5-mfveuuf2djgq7aqqkigvtn6ounp52m5k/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-zen2/gcc-11.4.0/openmpi-4.1.5-mfveuuf2djgq7aqqkigvtn6ounp52m5k/include} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-zen2/gcc-11.4.0/openmpi-4.1.5-mfveuuf2djgq7aqqkigvtn6ounp52m5k/bin} +prepend-path --delim {:} MANPATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-zen2/gcc-11.4.0/openmpi-4.1.5-mfveuuf2djgq7aqqkigvtn6ounp52m5k/share/man} +prepend-path --delim {:} PKG_CONFIG_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-zen2/gcc-11.4.0/openmpi-4.1.5-mfveuuf2djgq7aqqkigvtn6ounp52m5k/lib/pkgconfig} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-zen2/gcc-11.4.0/openmpi-4.1.5-mfveuuf2djgq7aqqkigvtn6ounp52m5k/.} +prepend-path --delim {:} XLOCALEDIR {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-zen2/gcc-11.4.0/libx11-1.8.4-yh3ojdomwbwkky34bgo4fjxkbrhqwy7v/share/X11/locale} +setenv MPICC {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-zen2/gcc-11.4.0/openmpi-4.1.5-mfveuuf2djgq7aqqkigvtn6ounp52m5k/bin/mpicc} +setenv MPICXX {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-zen2/gcc-11.4.0/openmpi-4.1.5-mfveuuf2djgq7aqqkigvtn6ounp52m5k/bin/mpic++} +setenv MPIF77 {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-zen2/gcc-11.4.0/openmpi-4.1.5-mfveuuf2djgq7aqqkigvtn6ounp52m5k/bin/mpif77} +setenv MPIF90 {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-zen2/gcc-11.4.0/openmpi-4.1.5-mfveuuf2djgq7aqqkigvtn6ounp52m5k/bin/mpif90} +setenv OPENMPI_ROOT {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-zen2/gcc-11.4.0/openmpi-4.1.5-mfveuuf2djgq7aqqkigvtn6ounp52m5k} +append-path --delim {:} MANPATH {} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/core/openmpi/4.1.5+intel b/modulefiles/hpccf/franklin/v0.21/core/openmpi/4.1.5+intel new file mode 100644 index 00000000..2699a15e --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/core/openmpi/4.1.5+intel @@ -0,0 +1,58 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-13 18:13:34.424968 +## +## openmpi@4.1.5%oneapi@2023.2.0~atomics+cuda~cxx~cxx_exceptions~gpfs~internal-hwloc~internal-pmix~java+legacylaunchers~lustre~memchecker~openshmem~orterunprefix~pmi+romio+rsh~singularity+static+vt+wrapper-rpath build_system=autotools cuda_arch=75 fabrics=ucx schedulers=slurm arch=linux-ubuntu22.04-skylake_avx512/r35gvo2 +## +## Configure options: --enable-shared --disable-silent-rules --disable-sphinx --disable-builtin-atomics --without-pmi --enable-static --enable-mpi1-compatibility --without-fca --without-psm2 --without-cma --without-knem --without-xpmem --without-psm --without-hcoll --without-mxm --without-verbs --without-ofi --with-ucx=/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/ucx-1.14.1-zka5s5dr35x6mbzqtpmxy6x56z54huvy --without-cray-xpmem --without-loadleveler --without-tm --without-sge --without-alps --without-lsf --with-slurm --disable-memchecker --with-libevent=/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-skylake_avx512/gcc-11.4.0/libevent-2.1.12-rdwraj54w6uhe3n5hzkooscbzhma5rpg --with-pmix=/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/pmix-4.2.6-ugibbn2ncrhs7wgbukwk6bwtmbfh23kz --with-zlib=/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/zlib-ng-2.1.3-pb2y6xnqm3hn7ili36xpeeoibb7ubyzc --with-hwloc=/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/hwloc-2.9.1-cy5tcvypo7odszhpdzfukvygar2owfib --disable-java --disable-mpi-java --with-gpfs=no --enable-dlopen --with-cuda=/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/cuda-11.7.1-nviwgxhw6fdw22nrzkchtgciegji5xmb --enable-wrapper-rpath --disable-wrapper-runpath --disable-mpi-cxx --disable-cxx-exceptions --with-wrapper-ldflags=-Wl,-rpath,/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-compilers-2023.2.1-73sl4rcnnjvfa6p5b67n32w2xejl275l/compiler/2023.2.1/linux/compiler/lib/intel64_lin -Wl,-rpath,/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-compilers-2023.2.1-73sl4rcnnjvfa6p5b67n32w2xejl275l/compiler/2023.2.1/linux/compiler/lib/intel64_lin -Wl,-rpath,/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-compilers-2023.2.1-73sl4rcnnjvfa6p5b67n32w2xejl275l/compiler/2023.2.1/linux/lib -Wl,-rpath,/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-11.4.0-cxjhlgyxdo4ibtgmh2gwz3yfklafv7fb/lib64 +## + + +module-whatis {An open source Message Passing Interface implementation.} + +proc ModulesHelp { } { + puts stderr {Name : openmpi} + puts stderr {Version: 4.1.5} + puts stderr {Target : skylake_avx512} + puts stderr {} + puts stderr {An open source Message Passing Interface implementation. The Open MPI} + puts stderr {Project is an open source Message Passing Interface implementation that} + puts stderr {is developed and maintained by a consortium of academic, research, and} + puts stderr {industry partners. Open MPI is therefore able to combine the expertise,} + puts stderr {technologies, and resources from all across the High Performance} + puts stderr {Computing community in order to build the best MPI library available.} + puts stderr {Open MPI offers advantages for system and software vendors, application} + puts stderr {developers and computer science researchers.} +} + +conflict openmpi + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/openmpi-4.1.5-r35gvo2mxbkjgczcqkua6n6txm7hvzd4/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/openmpi-4.1.5-r35gvo2mxbkjgczcqkua6n6txm7hvzd4/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/openmpi-4.1.5-r35gvo2mxbkjgczcqkua6n6txm7hvzd4/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/openmpi-4.1.5-r35gvo2mxbkjgczcqkua6n6txm7hvzd4/include} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/openmpi-4.1.5-r35gvo2mxbkjgczcqkua6n6txm7hvzd4/bin} +prepend-path --delim {:} MANPATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/openmpi-4.1.5-r35gvo2mxbkjgczcqkua6n6txm7hvzd4/share/man} +prepend-path --delim {:} PKG_CONFIG_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/openmpi-4.1.5-r35gvo2mxbkjgczcqkua6n6txm7hvzd4/lib/pkgconfig} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/openmpi-4.1.5-r35gvo2mxbkjgczcqkua6n6txm7hvzd4/.} +prepend-path --delim {:} XLOCALEDIR {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/libx11-1.8.4-s5zoulhylmvlsyohoyhv7vg62j46phws/share/X11/locale} +setenv MPICC {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/openmpi-4.1.5-r35gvo2mxbkjgczcqkua6n6txm7hvzd4/bin/mpicc} +setenv MPICXX {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/openmpi-4.1.5-r35gvo2mxbkjgczcqkua6n6txm7hvzd4/bin/mpic++} +setenv MPIF77 {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/openmpi-4.1.5-r35gvo2mxbkjgczcqkua6n6txm7hvzd4/bin/mpif77} +setenv MPIF90 {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/openmpi-4.1.5-r35gvo2mxbkjgczcqkua6n6txm7hvzd4/bin/mpif90} +setenv OPENMPI_ROOT {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/openmpi-4.1.5-r35gvo2mxbkjgczcqkua6n6txm7hvzd4} +append-path --delim {:} MANPATH {} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/core/openmpi/default b/modulefiles/hpccf/franklin/v0.21/core/openmpi/default new file mode 120000 index 00000000..54b79b45 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/core/openmpi/default @@ -0,0 +1 @@ +/share/apps/22.04/modulefiles/spack/core/openmpi/4.1.5 \ No newline at end of file diff --git a/modulefiles/hpccf/franklin/v0.21/core/pmix/4.2.6 b/modulefiles/hpccf/franklin/v0.21/core/pmix/4.2.6 new file mode 100644 index 00000000..687620a4 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/core/pmix/4.2.6 @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-13 18:13:34.633380 +## +## pmix@4.2.6%gcc@11.4.0~docs+pmi_backwards_compatibility~python~restful build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/gesd3fw +## +## Configure options: --enable-shared --enable-static --disable-sphinx --without-munge --with-libevent=/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libevent-2.1.12-nkqufkh3vxqfcp37o3rnbrinxbpqje2u --with-hwloc=/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/hwloc-2.9.1-hnhrdgpezvhkaemhtaei3hm5y4dktiuo --disable-python-bindings --enable-pmi-backward-compatibility --disable-man-pages +## + + +module-whatis {The Process Management Interface (PMI) has been used for quite some time as a means of exchanging wireup information needed for interprocess communication. However, meeting the significant orchestration challenges presented by exascale systems requires that the process-to-system interface evolve to permit a tighter integration between the different components of the parallel application and existing and future SMS solutions.} + +proc ModulesHelp { } { + puts stderr {Name : pmix} + puts stderr {Version: 4.2.6} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The Process Management Interface (PMI) has been used for quite some time} + puts stderr {as a means of exchanging wireup information needed for interprocess} + puts stderr {communication. However, meeting the significant orchestration challenges} + puts stderr {presented by exascale systems requires that the process-to-system} + puts stderr {interface evolve to permit a tighter integration between the different} + puts stderr {components of the parallel application and existing and future SMS} + puts stderr {solutions. PMI Exascale (PMIx) addresses these needs by providing an} + puts stderr {extended version of the PMI definitions specifically designed to support} + puts stderr {exascale and beyond environments by: (a) adding flexibility to the} + puts stderr {functionality expressed in the existing APIs, (b) augmenting the} + puts stderr {interfaces with new APIs that provide extended capabilities, (c) forging} + puts stderr {a collaboration between subsystem providers including resource manager,} + puts stderr {fabric, file system, and programming library developers, (d)} + puts stderr {establishing a standards-like body for maintaining the definitions, and} + puts stderr {(e) providing a reference implementation of the PMIx standard that} + puts stderr {demonstrates the desired level of scalability while maintaining strict} + puts stderr {separation between it and the standard itself.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load hwloc/2.9.1 + module load libevent/2.1.12 +} else { + depends-on hwloc/2.9.1 + depends-on libevent/2.1.12 +} +prereq hwloc/2.9.1 +prereq libevent/2.1.12 +conflict pmix + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/pmix-4.2.6-gesd3fwvj3dkvmzsn6vg4ltkoadsmqzx/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/pmix-4.2.6-gesd3fwvj3dkvmzsn6vg4ltkoadsmqzx/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/pmix-4.2.6-gesd3fwvj3dkvmzsn6vg4ltkoadsmqzx/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/pmix-4.2.6-gesd3fwvj3dkvmzsn6vg4ltkoadsmqzx/include} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/pmix-4.2.6-gesd3fwvj3dkvmzsn6vg4ltkoadsmqzx/bin} +prepend-path --delim {:} MANPATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/pmix-4.2.6-gesd3fwvj3dkvmzsn6vg4ltkoadsmqzx/share/man} +prepend-path --delim {:} PKG_CONFIG_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/pmix-4.2.6-gesd3fwvj3dkvmzsn6vg4ltkoadsmqzx/lib/pkgconfig} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/pmix-4.2.6-gesd3fwvj3dkvmzsn6vg4ltkoadsmqzx/.} +prepend-path --delim {:} XLOCALEDIR {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libx11-1.8.4-fqatafo2vvy4kb4sdsbcknswlwxras4a/share/X11/locale} +setenv PMIX_ROOT {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/pmix-4.2.6-gesd3fwvj3dkvmzsn6vg4ltkoadsmqzx} +append-path --delim {:} MANPATH {} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/core/pmix/4.2.6+amd b/modulefiles/hpccf/franklin/v0.21/core/pmix/4.2.6+amd new file mode 100644 index 00000000..497bea65 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/core/pmix/4.2.6+amd @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-13 18:13:34.693122 +## +## pmix@4.2.6%gcc@11.4.0~docs+pmi_backwards_compatibility~python~restful build_system=autotools arch=linux-ubuntu22.04-zen2/osu2gfo +## +## Configure options: --enable-shared --enable-static --disable-sphinx --without-munge --with-libevent=/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-zen2/gcc-11.4.0/libevent-2.1.12-z76nevy2pl4uf6qa62i3ttacdxe3ba44 --with-hwloc=/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-zen2/gcc-11.4.0/hwloc-2.9.1-bhwmug7x3mcrqnqdmjz6sbtmn5ojo3c4 --disable-python-bindings --enable-pmi-backward-compatibility --disable-man-pages +## + + +module-whatis {The Process Management Interface (PMI) has been used for quite some time as a means of exchanging wireup information needed for interprocess communication. However, meeting the significant orchestration challenges presented by exascale systems requires that the process-to-system interface evolve to permit a tighter integration between the different components of the parallel application and existing and future SMS solutions.} + +proc ModulesHelp { } { + puts stderr {Name : pmix} + puts stderr {Version: 4.2.6} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {The Process Management Interface (PMI) has been used for quite some time} + puts stderr {as a means of exchanging wireup information needed for interprocess} + puts stderr {communication. However, meeting the significant orchestration challenges} + puts stderr {presented by exascale systems requires that the process-to-system} + puts stderr {interface evolve to permit a tighter integration between the different} + puts stderr {components of the parallel application and existing and future SMS} + puts stderr {solutions. PMI Exascale (PMIx) addresses these needs by providing an} + puts stderr {extended version of the PMI definitions specifically designed to support} + puts stderr {exascale and beyond environments by: (a) adding flexibility to the} + puts stderr {functionality expressed in the existing APIs, (b) augmenting the} + puts stderr {interfaces with new APIs that provide extended capabilities, (c) forging} + puts stderr {a collaboration between subsystem providers including resource manager,} + puts stderr {fabric, file system, and programming library developers, (d)} + puts stderr {establishing a standards-like body for maintaining the definitions, and} + puts stderr {(e) providing a reference implementation of the PMIx standard that} + puts stderr {demonstrates the desired level of scalability while maintaining strict} + puts stderr {separation between it and the standard itself.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load libevent/2.1.12+amd +} else { + depends-on libevent/2.1.12+amd +} +prereq libevent/2.1.12+amd +conflict pmix + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-zen2/gcc-11.4.0/pmix-4.2.6-osu2gfoy3kmmybtac3yvvmyyfrp5hyct/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-zen2/gcc-11.4.0/pmix-4.2.6-osu2gfoy3kmmybtac3yvvmyyfrp5hyct/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-zen2/gcc-11.4.0/pmix-4.2.6-osu2gfoy3kmmybtac3yvvmyyfrp5hyct/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-zen2/gcc-11.4.0/pmix-4.2.6-osu2gfoy3kmmybtac3yvvmyyfrp5hyct/include} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-zen2/gcc-11.4.0/pmix-4.2.6-osu2gfoy3kmmybtac3yvvmyyfrp5hyct/bin} +prepend-path --delim {:} MANPATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-zen2/gcc-11.4.0/pmix-4.2.6-osu2gfoy3kmmybtac3yvvmyyfrp5hyct/share/man} +prepend-path --delim {:} PKG_CONFIG_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-zen2/gcc-11.4.0/pmix-4.2.6-osu2gfoy3kmmybtac3yvvmyyfrp5hyct/lib/pkgconfig} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-zen2/gcc-11.4.0/pmix-4.2.6-osu2gfoy3kmmybtac3yvvmyyfrp5hyct/.} +prepend-path --delim {:} XLOCALEDIR {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-zen2/gcc-11.4.0/libx11-1.8.4-5wohrorlcs3ej3ziz77otayh5dswe672/share/X11/locale} +setenv PMIX_ROOT {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-zen2/gcc-11.4.0/pmix-4.2.6-osu2gfoy3kmmybtac3yvvmyyfrp5hyct} +append-path --delim {:} MANPATH {} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/core/pmix/4.2.6+intel b/modulefiles/hpccf/franklin/v0.21/core/pmix/4.2.6+intel new file mode 100644 index 00000000..d4e0eb48 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/core/pmix/4.2.6+intel @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-13 18:13:34.809229 +## +## pmix@4.2.6%oneapi@2023.2.0~docs+pmi_backwards_compatibility~python~restful build_system=autotools arch=linux-ubuntu22.04-skylake_avx512/ms53xtr +## +## Configure options: --enable-shared --enable-static --disable-sphinx --without-munge --with-libevent=/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/libevent-2.1.12-hxwszogt27r3a2ptigkmqb7unfg2rszb --with-hwloc=/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/hwloc-2.9.1-aovyqzchhiynz4f673ucyno4qrk5iggj --disable-python-bindings --enable-pmi-backward-compatibility --disable-man-pages +## + + +module-whatis {The Process Management Interface (PMI) has been used for quite some time as a means of exchanging wireup information needed for interprocess communication. However, meeting the significant orchestration challenges presented by exascale systems requires that the process-to-system interface evolve to permit a tighter integration between the different components of the parallel application and existing and future SMS solutions.} + +proc ModulesHelp { } { + puts stderr {Name : pmix} + puts stderr {Version: 4.2.6} + puts stderr {Target : skylake_avx512} + puts stderr {} + puts stderr {The Process Management Interface (PMI) has been used for quite some time} + puts stderr {as a means of exchanging wireup information needed for interprocess} + puts stderr {communication. However, meeting the significant orchestration challenges} + puts stderr {presented by exascale systems requires that the process-to-system} + puts stderr {interface evolve to permit a tighter integration between the different} + puts stderr {components of the parallel application and existing and future SMS} + puts stderr {solutions. PMI Exascale (PMIx) addresses these needs by providing an} + puts stderr {extended version of the PMI definitions specifically designed to support} + puts stderr {exascale and beyond environments by: (a) adding flexibility to the} + puts stderr {functionality expressed in the existing APIs, (b) augmenting the} + puts stderr {interfaces with new APIs that provide extended capabilities, (c) forging} + puts stderr {a collaboration between subsystem providers including resource manager,} + puts stderr {fabric, file system, and programming library developers, (d)} + puts stderr {establishing a standards-like body for maintaining the definitions, and} + puts stderr {(e) providing a reference implementation of the PMIx standard that} + puts stderr {demonstrates the desired level of scalability while maintaining strict} + puts stderr {separation between it and the standard itself.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load libevent/2.1.12+intel +} else { + depends-on libevent/2.1.12+intel +} +prereq libevent/2.1.12+intel +conflict pmix + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/pmix-4.2.6-ms53xtrd3h3yhq4upbxc4qzl6po6v4wo/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/pmix-4.2.6-ms53xtrd3h3yhq4upbxc4qzl6po6v4wo/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/pmix-4.2.6-ms53xtrd3h3yhq4upbxc4qzl6po6v4wo/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/pmix-4.2.6-ms53xtrd3h3yhq4upbxc4qzl6po6v4wo/include} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/pmix-4.2.6-ms53xtrd3h3yhq4upbxc4qzl6po6v4wo/bin} +prepend-path --delim {:} MANPATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/pmix-4.2.6-ms53xtrd3h3yhq4upbxc4qzl6po6v4wo/share/man} +prepend-path --delim {:} PKG_CONFIG_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/pmix-4.2.6-ms53xtrd3h3yhq4upbxc4qzl6po6v4wo/lib/pkgconfig} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/pmix-4.2.6-ms53xtrd3h3yhq4upbxc4qzl6po6v4wo/.} +prepend-path --delim {:} XLOCALEDIR {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/libx11-1.8.4-2ayhfvka6wxl4mqq4vxtqdlyqfjxzsfp/share/X11/locale} +setenv PMIX_ROOT {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/pmix-4.2.6-ms53xtrd3h3yhq4upbxc4qzl6po6v4wo} +append-path --delim {:} MANPATH {} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/core/pmix/default b/modulefiles/hpccf/franklin/v0.21/core/pmix/default new file mode 120000 index 00000000..92ac24bd --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/core/pmix/default @@ -0,0 +1 @@ +/share/apps/22.04/modulefiles/spack/core/pmix/4.2.6 \ No newline at end of file diff --git a/modulefiles/hpccf/franklin/v0.21/core/slurm/23-02-6-1 b/modulefiles/hpccf/franklin/v0.21/core/slurm/23-02-6-1 new file mode 100644 index 00000000..d4cff708 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/core/slurm/23-02-6-1 @@ -0,0 +1,55 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-13 19:12:53.690293 +## +## slurm@23-02-6-1%gcc@11.4.0~gtk~hdf5+hwloc+mariadb+pmix+readline+restd build_system=autotools sysconfdir=/share/apps/22.04/spack/environments/core/view/generic/slurm-23-02-6-1/etc arch=linux-ubuntu22.04-x86_64_v3/xh4dsdi +## +## Configure options: --with-libcurl=/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/curl-8.4.0-qe2p3o3jqgnrhjesahumgrnkfgltx2p4 --with-json=/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/json-c-0.16-4lmip23q7tq2wphk2fswfp4ihclqa5mf --with-lz4=/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/lz4-1.9.4-4nwuyeyqfhu3firmfnar3yc6onsy2brx --with-munge=/usr --with-ssl=/usr --with-zlib=/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/zlib-ng-2.1.3-6bawsidwttj6jecmtk6u24gmu6wypvbp --disable-gtktest --without-hdf5 --enable-slurmrestd --with-http-parser=/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/http-parser-2.9.4-6xczsgxtdw35zdiuyvzetmy4gx5i7hse --with-jwt=/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libjwt-1.15.3-pko7lqebhhrzrapheis4y2w3m5nz2v6n --with-hwloc=/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/hwloc-2.9.1-kzjon55vscyblcf46v7zbwsu2kpenrl3 --with-pmix=/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/pmix-4.2.6-h4q7qusquires7z4nxkmar3sb7nu6lns --sysconfdir=/share/apps/22.04/spack/environments/core/view/generic/slurm-23-02-6-1/etc +## + + +module-whatis {Slurm is an open source, fault-tolerant, and highly scalable cluster management and job scheduling system for large and small Linux clusters.} + +proc ModulesHelp { } { + puts stderr {Name : slurm} + puts stderr {Version: 23-02-6-1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Slurm is an open source, fault-tolerant, and highly scalable cluster} + puts stderr {management and job scheduling system for large and small Linux clusters.} + puts stderr {Slurm requires no kernel modifications for its operation and is} + puts stderr {relatively self-contained. As a cluster workload manager, Slurm has} + puts stderr {three key functions. First, it allocates exclusive and/or non-exclusive} + puts stderr {access to resources (compute nodes) to users for some duration of time} + puts stderr {so they can perform work. Second, it provides a framework for starting,} + puts stderr {executing, and monitoring work (normally a parallel job) on the set of} + puts stderr {allocated nodes. Finally, it arbitrates contention for resources by} + puts stderr {managing a queue of pending work.} +} + +conflict slurm + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/slurm-23-02-6-1-xh4dsdigbg7lr3f2kasse7eylzxerhq2/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/slurm-23-02-6-1-xh4dsdigbg7lr3f2kasse7eylzxerhq2/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/slurm-23-02-6-1-xh4dsdigbg7lr3f2kasse7eylzxerhq2/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/slurm-23-02-6-1-xh4dsdigbg7lr3f2kasse7eylzxerhq2/include} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/slurm-23-02-6-1-xh4dsdigbg7lr3f2kasse7eylzxerhq2/bin} +prepend-path --delim {:} MANPATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/slurm-23-02-6-1-xh4dsdigbg7lr3f2kasse7eylzxerhq2/share/man} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/slurm-23-02-6-1-xh4dsdigbg7lr3f2kasse7eylzxerhq2/.} +prepend-path --delim {:} XLOCALEDIR {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libx11-1.8.4-zaqf7dicjkl3i2sg2ciot74vsehx7k47/share/X11/locale} +setenv SLURM_ROOT {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/slurm-23-02-6-1-xh4dsdigbg7lr3f2kasse7eylzxerhq2} +append-path --delim {:} MANPATH {} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/core/ucx/1.14.1 b/modulefiles/hpccf/franklin/v0.21/core/ucx/1.14.1 new file mode 100644 index 00000000..5eb2cd95 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/core/ucx/1.14.1 @@ -0,0 +1,45 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-13 18:13:35.209426 +## +## ucx@1.14.1%gcc@11.4.0~assertions~backtrace_detail~cma~cuda~dc~debug~dm+examples~gdrcopy~gtest~ib_hw_tm~java~knem~logging~mlx5_dv+numa+openmp+optimizations~parameter_checking+pic~rc~rdmacm~rocm+thread_multiple~ucg~ud~verbs~vfs~xpmem build_system=autotools libs=shared,static opt=3 simd=auto arch=linux-ubuntu22.04-x86_64_v3/5dulpds +## +## Configure options: --without-go --disable-doxygen-doc --enable-numa --disable-assertions --enable-compiler-opt=3 --without-java --enable-shared --enable-static --disable-logging --enable-mt --with-openmp --enable-optimizations --disable-params-check --disable-gtest --with-pic --without-cuda --disable-cma --without-dc --without-dm --without-gdrcopy --without-ib-hw-tm --without-knem --without-mlx5-dv --without-rc --without-ud --without-xpmem --without-fuse3 --without-bfd --without-rdmacm --without-verbs --with-avx --without-rocm +## + + +module-whatis {a communication library implementing high-performance messaging for MPI/PGAS frameworks} + +proc ModulesHelp { } { + puts stderr {Name : ucx} + puts stderr {Version: 1.14.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {a communication library implementing high-performance messaging for} + puts stderr {MPI/PGAS frameworks} +} + +conflict ucx + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ucx-1.14.1-5dulpdsnm3hap6cd4kszsvhqz564po7m/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ucx-1.14.1-5dulpdsnm3hap6cd4kszsvhqz564po7m/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ucx-1.14.1-5dulpdsnm3hap6cd4kszsvhqz564po7m/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ucx-1.14.1-5dulpdsnm3hap6cd4kszsvhqz564po7m/include} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ucx-1.14.1-5dulpdsnm3hap6cd4kszsvhqz564po7m/bin} +prepend-path --delim {:} PKG_CONFIG_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ucx-1.14.1-5dulpdsnm3hap6cd4kszsvhqz564po7m/lib/pkgconfig} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ucx-1.14.1-5dulpdsnm3hap6cd4kszsvhqz564po7m/.} +setenv UCX_ROOT {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ucx-1.14.1-5dulpdsnm3hap6cd4kszsvhqz564po7m} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/core/ucx/1.14.1+amd b/modulefiles/hpccf/franklin/v0.21/core/ucx/1.14.1+amd new file mode 100644 index 00000000..37220330 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/core/ucx/1.14.1+amd @@ -0,0 +1,45 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-13 18:13:35.235717 +## +## ucx@1.14.1%gcc@11.4.0~assertions~backtrace_detail~cma~cuda~dc~debug~dm+examples~gdrcopy~gtest~ib_hw_tm~java~knem~logging~mlx5_dv+numa+openmp+optimizations~parameter_checking+pic~rc~rdmacm~rocm+thread_multiple~ucg~ud~verbs~vfs~xpmem build_system=autotools libs=shared,static opt=3 simd=auto arch=linux-ubuntu22.04-zen2/eldjz4k +## +## Configure options: --without-go --disable-doxygen-doc --enable-numa --disable-assertions --enable-compiler-opt=3 --without-java --enable-shared --enable-static --disable-logging --enable-mt --with-openmp --enable-optimizations --disable-params-check --disable-gtest --with-pic --without-cuda --disable-cma --without-dc --without-dm --without-gdrcopy --without-ib-hw-tm --without-knem --without-mlx5-dv --without-rc --without-ud --without-xpmem --without-fuse3 --without-bfd --without-rdmacm --without-verbs --with-avx --without-rocm +## + + +module-whatis {a communication library implementing high-performance messaging for MPI/PGAS frameworks} + +proc ModulesHelp { } { + puts stderr {Name : ucx} + puts stderr {Version: 1.14.1} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {a communication library implementing high-performance messaging for} + puts stderr {MPI/PGAS frameworks} +} + +conflict ucx + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-zen2/gcc-11.4.0/ucx-1.14.1-eldjz4kz4re5axw2cyusrzkasym3rtob/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-zen2/gcc-11.4.0/ucx-1.14.1-eldjz4kz4re5axw2cyusrzkasym3rtob/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-zen2/gcc-11.4.0/ucx-1.14.1-eldjz4kz4re5axw2cyusrzkasym3rtob/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-zen2/gcc-11.4.0/ucx-1.14.1-eldjz4kz4re5axw2cyusrzkasym3rtob/include} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-zen2/gcc-11.4.0/ucx-1.14.1-eldjz4kz4re5axw2cyusrzkasym3rtob/bin} +prepend-path --delim {:} PKG_CONFIG_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-zen2/gcc-11.4.0/ucx-1.14.1-eldjz4kz4re5axw2cyusrzkasym3rtob/lib/pkgconfig} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-zen2/gcc-11.4.0/ucx-1.14.1-eldjz4kz4re5axw2cyusrzkasym3rtob/.} +setenv UCX_ROOT {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-zen2/gcc-11.4.0/ucx-1.14.1-eldjz4kz4re5axw2cyusrzkasym3rtob} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/core/ucx/1.14.1+intel b/modulefiles/hpccf/franklin/v0.21/core/ucx/1.14.1+intel new file mode 100644 index 00000000..6e7d2db4 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/core/ucx/1.14.1+intel @@ -0,0 +1,45 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-13 18:13:35.259325 +## +## ucx@1.14.1%oneapi@2023.2.0~assertions~backtrace_detail~cma~cuda~dc~debug~dm+examples~gdrcopy~gtest~ib_hw_tm~java~knem~logging~mlx5_dv+numa+openmp+optimizations~parameter_checking+pic~rc~rdmacm~rocm+thread_multiple~ucg~ud~verbs~vfs~xpmem build_system=autotools libs=shared,static opt=3 simd=auto arch=linux-ubuntu22.04-skylake_avx512/24xu7dq +## +## Configure options: --without-go --disable-doxygen-doc --enable-numa --disable-assertions --enable-compiler-opt=3 --without-java --enable-shared --enable-static --disable-logging --enable-mt --with-openmp --enable-optimizations --disable-params-check --disable-gtest --with-pic --without-cuda --disable-cma --without-dc --without-dm --without-gdrcopy --without-ib-hw-tm --without-knem --without-mlx5-dv --without-rc --without-ud --without-xpmem --without-fuse3 --without-bfd --without-rdmacm --without-verbs --with-avx --without-rocm +## + + +module-whatis {a communication library implementing high-performance messaging for MPI/PGAS frameworks} + +proc ModulesHelp { } { + puts stderr {Name : ucx} + puts stderr {Version: 1.14.1} + puts stderr {Target : skylake_avx512} + puts stderr {} + puts stderr {a communication library implementing high-performance messaging for} + puts stderr {MPI/PGAS frameworks} +} + +conflict ucx + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/ucx-1.14.1-24xu7dqfo4d3jribbliwpinq4x6hxyxc/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/ucx-1.14.1-24xu7dqfo4d3jribbliwpinq4x6hxyxc/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/ucx-1.14.1-24xu7dqfo4d3jribbliwpinq4x6hxyxc/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/ucx-1.14.1-24xu7dqfo4d3jribbliwpinq4x6hxyxc/include} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/ucx-1.14.1-24xu7dqfo4d3jribbliwpinq4x6hxyxc/bin} +prepend-path --delim {:} PKG_CONFIG_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/ucx-1.14.1-24xu7dqfo4d3jribbliwpinq4x6hxyxc/lib/pkgconfig} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/ucx-1.14.1-24xu7dqfo4d3jribbliwpinq4x6hxyxc/.} +setenv UCX_ROOT {/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/ucx-1.14.1-24xu7dqfo4d3jribbliwpinq4x6hxyxc} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/core/ucx/default b/modulefiles/hpccf/franklin/v0.21/core/ucx/default new file mode 120000 index 00000000..87c57a9f --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/core/ucx/default @@ -0,0 +1 @@ +/share/apps/22.04/modulefiles/spack/core/ucx/1.14.1 \ No newline at end of file diff --git a/modulefiles/hpccf/franklin/v0.21/software/abyss/2.3.5 b/modulefiles/hpccf/franklin/v0.21/software/abyss/2.3.5 new file mode 100644 index 00000000..9acfecad --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/abyss/2.3.5 @@ -0,0 +1,47 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:42.739985 +## +## abyss@2.3.5%gcc@11.4.0 build_system=autotools maxk=128 arch=linux-ubuntu22.04-x86_64_v3/xg4fubp +## +## Configure options: --with-boost=/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/boost-1.83.0-clh2nwr5b3ztnxqcxktlbi5dju3t6u6p --with-sqlite=/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/sqlite-3.42.0-nmfs24rz5wwavy6d5pmbn66etb3tgdpn --with-mpi=/share/apps/22.04/spack/environments/core/view/generic/openmpi-4.1.5 --enable-maxk=128 +## + + +module-whatis {ABySS is a de novo, parallel, paired-end sequence assembler that is designed for short reads. The single-processor version is useful for assembling genomes up to 100 Mbases in size.} + +proc ModulesHelp { } { + puts stderr {Name : abyss} + puts stderr {Version: 2.3.5} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {ABySS is a de novo, parallel, paired-end sequence assembler that is} + puts stderr {designed for short reads. The single-processor version is useful for} + puts stderr {assembling genomes up to 100 Mbases in size.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load bwa/0.7.17 +} else { + depends-on bwa/0.7.17 +} +prereq bwa/0.7.17 +conflict abyss + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/abyss-2.3.5-xg4fubpioxg2c44tdniolmktsdslrh7h/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/abyss-2.3.5-xg4fubpioxg2c44tdniolmktsdslrh7h/.} +setenv ABYSS_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/abyss-2.3.5-xg4fubpioxg2c44tdniolmktsdslrh7h} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/alphafold/2.2.4 b/modulefiles/hpccf/franklin/v0.21/software/alphafold/2.2.4 new file mode 100644 index 00000000..c136c450 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/alphafold/2.2.4 @@ -0,0 +1,123 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-23 10:22:45.515156 +## +## py-alphafold@2.2.4%gcc@11.4.0~cuda build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/knxfx2w +## + + +module-whatis {AlphaFold is an AI system developed by DeepMind that predicts a protein's 3D structure from its amino acid sequence. It regularly achieves accuracy competitive with experiment.} + +proc ModulesHelp { } { + puts stderr {Name : py-alphafold} + puts stderr {Version: 2.2.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {AlphaFold is an AI system developed by DeepMind that predicts a} + puts stderr {protein's 3D structure from its amino acid sequence. It regularly} + puts stderr {achieves accuracy competitive with experiment.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load hh-suite/3.3.0 + module load hmmer/3.4 + module load kalign/3.3.1 +} else { + depends-on hh-suite/3.3.0 + depends-on hmmer/3.4 + depends-on kalign/3.3.1 +} +prereq hh-suite/3.3.0 +prereq hmmer/3.4 +prereq kalign/3.3.1 +conflict py-alphafold + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-alphafold-2.2.4-knxfx2woum257i5jozl3s6yvqisjhcpb/lib} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-alphafold-2.2.4-knxfx2woum257i5jozl3s6yvqisjhcpb/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-alphafold-2.2.4-knxfx2woum257i5jozl3s6yvqisjhcpb/.} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-alphafold-2.2.4-knxfx2woum257i5jozl3s6yvqisjhcpb/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/openmm-7.5.1-3glgilajmpukczvtpxxscq6g7ghb72xj/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-numpy-1.22.4-7bmhfuxzgomebebnpowq3emn5yf3jqvk/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-setuptools-57.4.0-pimnnnhysdfbtj3dwvjvjtebblzx6ije/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-absl-py-1.4.0-i2xc5za3l24fa6nqbo2s4jcuxhed7p6a/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-biopython-1.81-hujswz3fyvgtea3bz23yhymwnfgjgyvc/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-chex-0.1.5-ge7oxtr7rhicm7afqcxwpwsv2w3ttlhd/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-dm-tree-0.1.8-n25vf77hcgl4eoqvnoz4gxj3g53py4xp/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-jax-0.4.3-4ltcwvziamay6c4wj3qnu6xt26ikdtz7/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-jaxlib-0.4.3-mnnluawx6i2nozcmhhaw3i6q424rzgau/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH 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{/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-requests-oauthlib-1.3.1-oklc2cy2dkq2hujbbhvbja4jdybxv3rz/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-oauthlib-3.2.1-u3u2wt6dx5bhclyn5upgbows5vdj7fvy/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-markdown-3.4.1-yjbiocipllteacj7wugx2c464yuiqjvj/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-importlib-metadata-6.6.0-ogn5hhewct2zr7juwpui5aivzfpt55yr/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-zipp-3.17.0-twtypdparmu3gca7jw56ik7h4vvx6lxb/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-tensorboard-data-server-0.7.0-5dcctcwqm3u7apind3e47ug5bw6w5ekc/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-tensorboard-plugin-wit-1.8.1-t6rvc35vsipbb3gnsyaw224avtrb74h3/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-werkzeug-3.0.0-taj6z67ftfdrru6xyczzh5cz5vxtfff5/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-markupsafe-2.1.3-mg4rpbj6rozituispmclzlalgg3p2fev/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-termcolor-1.1.0-n7o4cdqu36pak63wawzji3ia3fjpusvg/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-typing-extensions-4.5.0-rq63xqsktmnnp6tnk4z4oxqfb3pvlkbi/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-wrapt-1.15.0-oerfaygs762kudxdhpgfnntklnuuglgy/lib/python3.9/site-packages} +setenv OPENMM_CUDA_COMPILER {/share/apps/22.04/spack/environments/core/view/generic/cuda-11.7.1/bin/nvcc} +setenv CUDA_HOST_COMPILER {/share/apps/22.04/spack/environments/core/view/compilers/gcc-11.4.0/bin/g++} +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/cudnn-8.7.0.84-11.8-qqvfagyyqmlcx27zya2jkydysap3fgov/lib} +setenv PY_ALPHAFOLD_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-alphafold-2.2.4-knxfx2woum257i5jozl3s6yvqisjhcpb} +setenv ALPHAFOLD_DB_ROOT {/share/databases/alphafold} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/alphafold/2.3.2 b/modulefiles/hpccf/franklin/v0.21/software/alphafold/2.3.2 new file mode 100644 index 00000000..07150de7 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/alphafold/2.3.2 @@ -0,0 +1,123 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-23 12:10:35.347124 +## +## py-alphafold@2.3.2%gcc@11.4.0~cuda build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/d2ctrwo +## + + +module-whatis {AlphaFold is an AI system developed by DeepMind that predicts a protein's 3D structure from its amino acid sequence. It regularly achieves accuracy competitive with experiment.} + +proc ModulesHelp { } { + puts stderr {Name : py-alphafold} + puts stderr {Version: 2.3.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {AlphaFold is an AI system developed by DeepMind that predicts a} + puts stderr {protein's 3D structure from its amino acid sequence. It regularly} + puts stderr {achieves accuracy competitive with experiment.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load hh-suite/3.3.0 + module load hmmer/3.4 + module load kalign/3.3.1 +} else { + depends-on hh-suite/3.3.0 + depends-on hmmer/3.4 + depends-on kalign/3.3.1 +} +prereq hh-suite/3.3.0 +prereq hmmer/3.4 +prereq kalign/3.3.1 +conflict py-alphafold + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-alphafold-2.3.2-d2ctrwoctto4i6m7gj44o7xkt3agyw7z/lib} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-alphafold-2.3.2-d2ctrwoctto4i6m7gj44o7xkt3agyw7z/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-alphafold-2.3.2-d2ctrwoctto4i6m7gj44o7xkt3agyw7z/.} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-alphafold-2.3.2-d2ctrwoctto4i6m7gj44o7xkt3agyw7z/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/openmm-7.5.1-3glgilajmpukczvtpxxscq6g7ghb72xj/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-numpy-1.22.4-7bmhfuxzgomebebnpowq3emn5yf3jqvk/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-setuptools-57.4.0-pimnnnhysdfbtj3dwvjvjtebblzx6ije/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-absl-py-1.4.0-i2xc5za3l24fa6nqbo2s4jcuxhed7p6a/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-biopython-1.81-hujswz3fyvgtea3bz23yhymwnfgjgyvc/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-chex-0.1.5-ge7oxtr7rhicm7afqcxwpwsv2w3ttlhd/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-dm-tree-0.1.8-n25vf77hcgl4eoqvnoz4gxj3g53py4xp/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-jax-0.4.3-4ltcwvziamay6c4wj3qnu6xt26ikdtz7/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-jaxlib-0.4.3-mnnluawx6i2nozcmhhaw3i6q424rzgau/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH 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{/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-grpcio-1.52.0-w5peil2gshmchordlnkh76sihhwzn3na/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-h5py-3.8.0-2zi5gif62gbzxmcjrpbgyeyoqgzpllsk/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-libclang-14.0.6-e7ejm2y7lssnzmzf7i7al5fniq6rir65/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-tensorboard-2.13.0-ddabwhdjl7zywhvzgdeq5fbt4soy2ang/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-google-auth-2.20.0-opmno2gxp4kzi3xhljomubq4f57bzwia/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-cachetools-5.2.0-oifwt6vi2lqn5dxi7oyvgawdrvvh44g3/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-pyasn1-modules-0.2.8-qmhvmgyuibyrb764yg24aebfkcygpo4z/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-pyasn1-0.4.8-rczlb4ekuzoh2akdwvc7qveew7ajhktj/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-rsa-4.9-mjhfgvmmnbo6memylrxanhgntsoynuxu/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-google-auth-oauthlib-0.5.2-ejy65q2zj2ji2bbhsjkj6uh5rsl4e3x2/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-requests-oauthlib-1.3.1-oklc2cy2dkq2hujbbhvbja4jdybxv3rz/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-oauthlib-3.2.1-u3u2wt6dx5bhclyn5upgbows5vdj7fvy/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-markdown-3.4.1-yjbiocipllteacj7wugx2c464yuiqjvj/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-importlib-metadata-6.6.0-ogn5hhewct2zr7juwpui5aivzfpt55yr/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-zipp-3.17.0-twtypdparmu3gca7jw56ik7h4vvx6lxb/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-tensorboard-data-server-0.7.0-5dcctcwqm3u7apind3e47ug5bw6w5ekc/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-tensorboard-plugin-wit-1.8.1-t6rvc35vsipbb3gnsyaw224avtrb74h3/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-werkzeug-3.0.0-taj6z67ftfdrru6xyczzh5cz5vxtfff5/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-markupsafe-2.1.3-mg4rpbj6rozituispmclzlalgg3p2fev/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-termcolor-1.1.0-n7o4cdqu36pak63wawzji3ia3fjpusvg/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-typing-extensions-4.5.0-rq63xqsktmnnp6tnk4z4oxqfb3pvlkbi/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-wrapt-1.15.0-oerfaygs762kudxdhpgfnntklnuuglgy/lib/python3.9/site-packages} +setenv OPENMM_CUDA_COMPILER {/share/apps/22.04/spack/environments/core/view/generic/cuda-11.7.1/bin/nvcc} +setenv CUDA_HOST_COMPILER {/share/apps/22.04/spack/environments/core/view/compilers/gcc-11.4.0/bin/g++} +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/cudnn-8.7.0.84-11.8-qqvfagyyqmlcx27zya2jkydysap3fgov/lib} +setenv PY_ALPHAFOLD_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-alphafold-2.3.2-d2ctrwoctto4i6m7gj44o7xkt3agyw7z} +setenv ALPHAFOLD_DB_ROOT {/share/databases/alphafold} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/amdfftw/4.1+amd b/modulefiles/hpccf/franklin/v0.21/software/amdfftw/4.1+amd new file mode 100644 index 00000000..2828cad8 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/amdfftw/4.1+amd @@ -0,0 +1,57 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:43.325454 +## +## amdfftw@4.1%gcc@11.4.0+amd-dynamic-dispatcher~amd-fast-planner~amd-mpi-vader-limit~debug+mpi+openmp+shared~static~threads build_system=autotools precision=double,float arch=linux-ubuntu22.04-zen2/dtzmsaj +## + + +module-whatis {FFTW (AMD Optimized version) is a comprehensive collection of fast C routines for computing the Discrete Fourier Transform (DFT) and various special cases thereof.} + +proc ModulesHelp { } { + puts stderr {Name : amdfftw} + puts stderr {Version: 4.1} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {FFTW (AMD Optimized version) is a comprehensive collection of fast C} + puts stderr {routines for computing the Discrete Fourier Transform (DFT) and various} + puts stderr {special cases thereof. It is an open-source implementation of the Fast} + puts stderr {Fourier transform algorithm. It can compute transforms of real and} + puts stderr {complex-values arrays of arbitrary size and dimension. AMD Optimized} + puts stderr {FFTW is the optimized FFTW implementation targeted for AMD CPUs. For} + puts stderr {single precision build, please use precision value as float. Example :} + puts stderr {spack install amdfftw precision=float LICENSING INFORMATION: By} + puts stderr {downloading, installing and using this software, you agree to the terms} + puts stderr {and conditions of the AMD AOCL-FFTW license agreement. You may obtain a} + puts stderr {copy of this license agreement from} + puts stderr {https://www.amd.com/en/developer/aocl/fftw/eula/fftw-} + puts stderr {libraries-4-1-eula.html} + puts stderr {https://www.amd.com/en/developer/aocl/fftw/eula/fftw-libraries-eula.html} +} + +conflict amdfftw + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/amdfftw-4.1-dtzmsajk32g6xufraj4kga7qhwqntc4l/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/amdfftw-4.1-dtzmsajk32g6xufraj4kga7qhwqntc4l/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/amdfftw-4.1-dtzmsajk32g6xufraj4kga7qhwqntc4l/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/amdfftw-4.1-dtzmsajk32g6xufraj4kga7qhwqntc4l/include} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/amdfftw-4.1-dtzmsajk32g6xufraj4kga7qhwqntc4l/bin} +prepend-path --delim {:} MANPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/amdfftw-4.1-dtzmsajk32g6xufraj4kga7qhwqntc4l/share/man} +prepend-path --delim {:} PKG_CONFIG_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/amdfftw-4.1-dtzmsajk32g6xufraj4kga7qhwqntc4l/lib/pkgconfig} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/amdfftw-4.1-dtzmsajk32g6xufraj4kga7qhwqntc4l/.} +setenv AMDFFTW_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/amdfftw-4.1-dtzmsajk32g6xufraj4kga7qhwqntc4l} +append-path --delim {:} MANPATH {} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/amdfftw/default b/modulefiles/hpccf/franklin/v0.21/software/amdfftw/default new file mode 120000 index 00000000..7ce0bb3a --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/amdfftw/default @@ -0,0 +1 @@ +/share/apps/22.04/modulefiles/spack/software/amdfftw/4.1+amd \ No newline at end of file diff --git a/modulefiles/hpccf/franklin/v0.21/software/angsd/0.935 b/modulefiles/hpccf/franklin/v0.21/software/angsd/0.935 new file mode 100644 index 00000000..2378ad55 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/angsd/0.935 @@ -0,0 +1,43 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:43.610061 +## +## angsd@0.935%gcc@11.4.0+r build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/qdrcsu2 +## + + +module-whatis {Angsd is a program for analysing NGS data.} + +proc ModulesHelp { } { + puts stderr {Name : angsd} + puts stderr {Version: 0.935} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Angsd is a program for analysing NGS data. The software can handle a} + puts stderr {number of different input types from mapped reads to imputed genotype} + puts stderr {probabilities. Most methods take genotype uncertainty into account} + puts stderr {instead of basing the analysis on called genotypes. This is especially} + puts stderr {useful for low and medium depth data.} +} + +conflict angsd + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/angsd-0.935-qdrcsu2cjawervpofi3pci7sjhmkdovp/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/angsd-0.935-qdrcsu2cjawervpofi3pci7sjhmkdovp/.} +setenv R_HOME {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/r-4.3.0-odq5bdd2ieghfeux27ir4wq7qi53fmj3/rlib/R} +setenv R_LIBS {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/angsd-0.935-qdrcsu2cjawervpofi3pci7sjhmkdovp/R} +setenv ANGSD_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/angsd-0.935-qdrcsu2cjawervpofi3pci7sjhmkdovp} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/aragorn/1.2.41 b/modulefiles/hpccf/franklin/v0.21/software/aragorn/1.2.41 new file mode 100644 index 00000000..f695453e --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/aragorn/1.2.41 @@ -0,0 +1,38 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:44.074559 +## +## aragorn@1.2.41%gcc@11.4.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/pnveeed +## + + +module-whatis {ARAGORN, a program to detect tRNA genes and tmRNA genes in nucleotide sequences.} + +proc ModulesHelp { } { + puts stderr {Name : aragorn} + puts stderr {Version: 1.2.41} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {ARAGORN, a program to detect tRNA genes and tmRNA genes in nucleotide} + puts stderr {sequences.} +} + +conflict aragorn + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/aragorn-1.2.41-pnveeed3npsefk226ppz7ogb6is6x3pl/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/aragorn-1.2.41-pnveeed3npsefk226ppz7ogb6is6x3pl/.} +setenv ARAGORN_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/aragorn-1.2.41-pnveeed3npsefk226ppz7ogb6is6x3pl} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/aria2/1.36.0 b/modulefiles/hpccf/franklin/v0.21/software/aria2/1.36.0 new file mode 100644 index 00000000..3b4d8e7c --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/aria2/1.36.0 @@ -0,0 +1,39 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:44.174969 +## +## aria2@1.36.0%gcc@11.4.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/t3wl4qu +## + + +module-whatis {An ultra fast download utility} + +proc ModulesHelp { } { + puts stderr {Name : aria2} + puts stderr {Version: 1.36.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {An ultra fast download utility} +} + +conflict aria2 + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/aria2-1.36.0-t3wl4qur2nk2d2ufal3a2xwckroh7n5k/bin} +prepend-path --delim {:} MANPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/aria2-1.36.0-t3wl4qur2nk2d2ufal3a2xwckroh7n5k/share/man} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/aria2-1.36.0-t3wl4qur2nk2d2ufal3a2xwckroh7n5k/.} +setenv ARIA2_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/aria2-1.36.0-t3wl4qur2nk2d2ufal3a2xwckroh7n5k} +append-path --delim {:} MANPATH {} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/aspera-cli/3.7.7 b/modulefiles/hpccf/franklin/v0.21/software/aspera-cli/3.7.7 new file mode 100644 index 00000000..11fb74e7 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/aspera-cli/3.7.7 @@ -0,0 +1,37 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:44.633155 +## +## aspera-cli@3.7.7%gcc@11.4.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/ilke725 +## + + +module-whatis {The Aspera CLI client for the Fast and Secure Protocol (FASP).} + +proc ModulesHelp { } { + puts stderr {Name : aspera-cli} + puts stderr {Version: 3.7.7} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The Aspera CLI client for the Fast and Secure Protocol (FASP).} +} + +conflict aspera-cli + +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/aspera-cli-3.7.7-ilke725ydjfta5qq5hj56vurth2yp7v2/.} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/aspera-cli-3.7.7-ilke725ydjfta5qq5hj56vurth2yp7v2/cli/bin} +setenv ASPERA_CLI_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/aspera-cli-3.7.7-ilke725ydjfta5qq5hj56vurth2yp7v2} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/augustus/3.5.0 b/modulefiles/hpccf/franklin/v0.21/software/augustus/3.5.0 new file mode 100644 index 00000000..ccf1d850 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/augustus/3.5.0 @@ -0,0 +1,49 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:44.819776 +## +## augustus@3.5.0%gcc@11.4.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/udjicid +## + + +module-whatis {AUGUSTUS is a program that predicts genes in eukaryotic genomic sequences} + +proc ModulesHelp { } { + puts stderr {Name : augustus} + puts stderr {Version: 3.5.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {AUGUSTUS is a program that predicts genes in eukaryotic genomic} + puts stderr {sequences} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load gsl/2.7.1 + module load samtools/1.16.1 +} else { + depends-on gsl/2.7.1 + depends-on samtools/1.16.1 +} +prereq gsl/2.7.1 +prereq samtools/1.16.1 +conflict augustus + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/augustus-3.5.0-udjicidvvalzttval5hmcaqmsuunmswk/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/augustus-3.5.0-udjicidvvalzttval5hmcaqmsuunmswk/.} +setenv AUGUSTUS_CONFIG_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/augustus-3.5.0-udjicidvvalzttval5hmcaqmsuunmswk/config} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/augustus-3.5.0-udjicidvvalzttval5hmcaqmsuunmswk/scripts} +setenv AUGUSTUS_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/augustus-3.5.0-udjicidvvalzttval5hmcaqmsuunmswk} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/awscli/1.29.41 b/modulefiles/hpccf/franklin/v0.21/software/awscli/1.29.41 new file mode 100644 index 00000000..39fe9a68 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/awscli/1.29.41 @@ -0,0 +1,52 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:46.213444 +## +## awscli@1.29.41%gcc@11.4.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/fg32zdj +## + + +module-whatis {This package provides a unified command line interface to Amazon Web Services} + +proc ModulesHelp { } { + puts stderr {Name : awscli} + puts stderr {Version: 1.29.41} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {This package provides a unified command line interface to Amazon Web} + puts stderr {Services} +} + +conflict awscli + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/awscli-1.29.41-fg32zdj7swu2igkb5swbeojye2txcwow/lib} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/awscli-1.29.41-fg32zdj7swu2igkb5swbeojye2txcwow/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/awscli-1.29.41-fg32zdj7swu2igkb5swbeojye2txcwow/.} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/awscli-1.29.41-fg32zdj7swu2igkb5swbeojye2txcwow/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-botocore-1.31.41-qrtwcfwlhiq5xbq2j6mli7n7isob3dem/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-jmespath-1.0.1-ylcwtmokumlirsceff3w64nkbec6pt5j/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-python-dateutil-2.8.2-sal43bboln5hfq3pmdr3gncmcumpof5j/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-six-1.16.0-oidvgjb3d7yptdqfpuxvp5zrst3yu4qr/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-urllib3-1.26.12-q5szjxjuclgxf2bpckexnr4xobbiivmv/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-colorama-0.4.4-3pizisvnl4imxx2bxopl6o5ywxlmycw3/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-docutils-0.16-dv55mu77h53x4zfj2beqbuqzqsnaicls/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-pyyaml-5.4.1-o63w7wrrjjj2uqauipwkoudsvwcltikh/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-rsa-4.7.2-fvqf2646l6n45hvum4asl65ewfkgukfy/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-pyasn1-0.4.8-2ljong4aphpsdmp5y3kjl3nj4mhn5psb/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-setuptools-68.0.0-dkyik7gcew2chhg4lijir22ne7fyl7t7/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-s3transfer-0.6.0-v5yyytcdvcmylbli4rs2vqoq5bh37xb3/lib/python3.11/site-packages} +setenv AWSCLI_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/awscli-1.29.41-fg32zdj7swu2igkb5swbeojye2txcwow} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/bayenv2/2.0 b/modulefiles/hpccf/franklin/v0.21/software/bayenv2/2.0 new file mode 100644 index 00000000..3692030d --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/bayenv2/2.0 @@ -0,0 +1,48 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:46.622177 +## +## bayenv2@2.0%gcc@11.4.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/mpcwsjc +## + + +module-whatis {Loci involved in local adaptation can potentially be identified by an unusual correlation between allele frequencies and important ecological variables, or by extreme allele frequency differences between geographic regions. However, such comparisons are complicated by differences in sample sizes and the neutral correlation of allele frequencies across populations due to shared history and gene flow. To overcome these difficulties, we have developed a Bayesian method that estimates the empirical pattern of covariance in allele frequencies between populations from a set of markers, and then uses this as a null model for a test at individual SNPs. Graham developed this method in collaboration with David Witonsky, Anna Di Rienzo and Jonathan Pritchard.} + +proc ModulesHelp { } { + puts stderr {Name : bayenv2} + puts stderr {Version: 2.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Loci involved in local adaptation can potentially be identified by an} + puts stderr {unusual correlation between allele frequencies and important ecological} + puts stderr {variables, or by extreme allele frequency differences between geographic} + puts stderr {regions. However, such comparisons are complicated by differences in} + puts stderr {sample sizes and the neutral correlation of allele frequencies across} + puts stderr {populations due to shared history and gene flow. To overcome these} + puts stderr {difficulties, we have developed a Bayesian method that estimates the} + puts stderr {empirical pattern of covariance in allele frequencies between} + puts stderr {populations from a set of markers, and then uses this as a null model} + puts stderr {for a test at individual SNPs. Graham developed this method in} + puts stderr {collaboration with David Witonsky, Anna Di Rienzo and Jonathan} + puts stderr {Pritchard.} +} + +conflict bayenv2 + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/bayenv2-2.0-mpcwsjcde2hxexageg7pr4b3xutvgzos/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/bayenv2-2.0-mpcwsjcde2hxexageg7pr4b3xutvgzos/.} +setenv BAYENV2_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/bayenv2-2.0-mpcwsjcde2hxexageg7pr4b3xutvgzos} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/bbmap/39.01 b/modulefiles/hpccf/franklin/v0.21/software/bbmap/39.01 new file mode 100644 index 00000000..3e373fd9 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/bbmap/39.01 @@ -0,0 +1,39 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:46.672891 +## +## bbmap@39.01%gcc@11.4.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/fautbix +## + + +module-whatis {Short read aligner for DNA and RNA-seq data.} + +proc ModulesHelp { } { + puts stderr {Name : bbmap} + puts stderr {Version: 39.01} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Short read aligner for DNA and RNA-seq data.} +} + +conflict bbmap + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/bbmap-39.01-fautbixulbv44ncr5mqcv3kxgbmp3iip/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/bbmap-39.01-fautbixulbv44ncr5mqcv3kxgbmp3iip/.} +setenv BBMAP_CONFIG {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/bbmap-39.01-fautbixulbv44ncr5mqcv3kxgbmp3iip/bin/config} +setenv BBMAP_RESOURCES {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/bbmap-39.01-fautbixulbv44ncr5mqcv3kxgbmp3iip/bin/resources} +setenv BBMAP_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/bbmap-39.01-fautbixulbv44ncr5mqcv3kxgbmp3iip} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/bcftools/1.16 b/modulefiles/hpccf/franklin/v0.21/software/bcftools/1.16 new file mode 100644 index 00000000..5fed360e --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/bcftools/1.16 @@ -0,0 +1,62 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:46.764150 +## +## bcftools@1.16%gcc@11.4.0+libgsl+perl-filters build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/ko4c5ts +## +## Configure options: --with-htslib=/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/htslib-1.16-7tl6ln4jjhn4j73ap4u6dnydvc47v4vh --enable-libgsl --enable-perl-filters +## + + +module-whatis {BCFtools is a set of utilities that manipulate variant calls in the Variant Call Format (VCF) and its binary counterpart BCF. All commands work transparently with both VCFs and BCFs, both uncompressed and BGZF-compressed.} + +proc ModulesHelp { } { + puts stderr {Name : bcftools} + puts stderr {Version: 1.16} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {BCFtools is a set of utilities that manipulate variant calls in the} + puts stderr {Variant Call Format (VCF) and its binary counterpart BCF. All commands} + puts stderr {work transparently with both VCFs and BCFs, both uncompressed and BGZF-} + puts stderr {compressed.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load gsl/2.7.1 +} else { + depends-on gsl/2.7.1 +} +prereq gsl/2.7.1 +conflict bcftools + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/bcftools-1.16-ko4c5ts5lwxcg3f2z3beh26yibpzcimt/bin} +prepend-path --delim {:} MANPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/bcftools-1.16-ko4c5ts5lwxcg3f2z3beh26yibpzcimt/share/man} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/bcftools-1.16-ko4c5ts5lwxcg3f2z3beh26yibpzcimt/.} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-matplotlib-3.8.0-qkq4nm72nrtixat7jsf26hsft7wobdxd/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-contourpy-1.0.7-j5nqmef7f6r2nwbxtjktkfuxwyf4rees/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-numpy-1.25.2-wnu35glxayp2uswy7dizfvgqytul6tcd/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-setuptools-63.4.3-gerjumbuhqoehxurdobbuortjepqbgdk/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-cycler-0.11.0-gkgfgboo7mxgso5ih7n5zzl3hp5xen6k/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-fonttools-4.39.4-szekdscngprthckt3z6glxl5mafkw62k/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-kiwisolver-1.4.4-t6sx4yqbdbg3xfgj7aerossyx5yq2gsu/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-packaging-23.1-pmrqnpodguoeqmo2ssqrydgdzc3qwrxe/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-pillow-10.0.0-vdehid7sbsy3rysf4keeajgv4s5qzejt/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-pyparsing-3.0.9-gxq3vmdndt3ovo5y4tsvdpq2piwyed3g/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-python-dateutil-2.8.2-vzjgfcxspf6uuaygw45cugx23xzjshco/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-six-1.16.0-wlmiepptfys2ktep3nj6z2t5ok3iw3vg/lib/python3.11/site-packages} +setenv BCFTOOLS_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/bcftools-1.16-ko4c5ts5lwxcg3f2z3beh26yibpzcimt} +append-path --delim {:} MANPATH {} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/beagle/5.4 b/modulefiles/hpccf/franklin/v0.21/software/beagle/5.4 new file mode 100644 index 00000000..9606a0a7 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/beagle/5.4 @@ -0,0 +1,38 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:46.950437 +## +## beagle@5.4%gcc@11.4.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/2ijrtxh +## + + +module-whatis {Beagle is a software package for phasing genotypes and for imputing ungenotyped markers.} + +proc ModulesHelp { } { + puts stderr {Name : beagle} + puts stderr {Version: 5.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Beagle is a software package for phasing genotypes and for imputing} + puts stderr {ungenotyped markers.} +} + +conflict beagle + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/beagle-5.4-2ijrtxhhubecu54jyecvav532kz3tbmk/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/beagle-5.4-2ijrtxhhubecu54jyecvav532kz3tbmk/.} +setenv BEAGLE_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/beagle-5.4-2ijrtxhhubecu54jyecvav532kz3tbmk} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/bedops/2.4.41 b/modulefiles/hpccf/franklin/v0.21/software/bedops/2.4.41 new file mode 100644 index 00000000..592b6555 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/bedops/2.4.41 @@ -0,0 +1,40 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:46.995473 +## +## bedops@2.4.41%gcc@11.4.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/zspxugc +## + + +module-whatis {BEDOPS is an open-source command-line toolkit that performs highly efficient and scalable Boolean and other set operations, statistical calculations, archiving, conversion and other management of genomic data of arbitrary scale.} + +proc ModulesHelp { } { + puts stderr {Name : bedops} + puts stderr {Version: 2.4.41} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {BEDOPS is an open-source command-line toolkit that performs highly} + puts stderr {efficient and scalable Boolean and other set operations, statistical} + puts stderr {calculations, archiving, conversion and other management of genomic data} + puts stderr {of arbitrary scale.} +} + +conflict bedops + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/bedops-2.4.41-zspxugcipkk3oick36z4vxmnjmptw43i/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/bedops-2.4.41-zspxugcipkk3oick36z4vxmnjmptw43i/.} +setenv BEDOPS_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/bedops-2.4.41-zspxugcipkk3oick36z4vxmnjmptw43i} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/bedtools2/2.31.0 b/modulefiles/hpccf/franklin/v0.21/software/bedtools2/2.31.0 new file mode 100644 index 00000000..33b98f67 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/bedtools2/2.31.0 @@ -0,0 +1,45 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:47.067704 +## +## bedtools2@2.31.0%gcc@11.4.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/4zmzlls +## + + +module-whatis {Collectively, the bedtools utilities are a swiss-army knife of tools for a wide-range of genomics analysis tasks. The most widely-used tools enable genome arithmetic: that is, set theory on the genome.} + +proc ModulesHelp { } { + puts stderr {Name : bedtools2} + puts stderr {Version: 2.31.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Collectively, the bedtools utilities are a swiss-army knife of tools for} + puts stderr {a wide-range of genomics analysis tasks. The most widely-used tools} + puts stderr {enable genome arithmetic: that is, set theory on the genome.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load bzip2/1.0.8 +} else { + depends-on bzip2/1.0.8 +} +prereq bzip2/1.0.8 +conflict bedtools2 + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/bedtools2-2.31.0-4zmzllsotldo5bcpwtavvgja4drzxhgh/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/bedtools2-2.31.0-4zmzllsotldo5bcpwtavvgja4drzxhgh/.} +setenv BEDTOOLS2_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/bedtools2-2.31.0-4zmzllsotldo5bcpwtavvgja4drzxhgh} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/blast-plus/2.13.0 b/modulefiles/hpccf/franklin/v0.21/software/blast-plus/2.13.0 new file mode 100644 index 00000000..6a75dd6b --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/blast-plus/2.13.0 @@ -0,0 +1,49 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:47.266538 +## +## blast-plus@2.13.0%gcc@11.4.0+bzip2+freetype+gnutls+jpeg+lzo+openssl+pcre+perl+png+python~static+zlib build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/spcghx3 +## +## Configure options: --with-bin-release --without-debug --with-mt --without-boost --with-64 --with-dll --without-static --without-static-exe --with-jpeg=/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libjpeg-turbo-3.0.0-6zvogxjoqaqdqiekv33lmt4xvzsaaaz7 --with-png=/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libpng-1.6.39-p3c2fzu44lvvz2ihmjul2ghrkrzo6vgo --with-freetype=/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/freetype-2.11.1-idjnpjirxoxggguue6bqsacm2jlc56xu --without-hdf5 --with-z=/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/zlib-ng-2.1.3-6bawsidwttj6jecmtk6u24gmu6wypvbp --with-bz2=/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/bzip2-1.0.8-c3vnkum6unfohk23dfiw4avkknpmx74h --with-lzo=/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/lzo-2.10-uyxxxvbl6adxw7kh4v532ttmmjonfr54 --with-gnutls=/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gnutls-3.7.8-tl3tykvgbmtkp3oxi54sousv4zigghha --with-openssl=/usr --with-pcre=/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/pcre-8.45-w5sysjxegb4dc55jeq7yhbyxm6s5o7t4 --with-python=/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/python-3.11.6-rsiojxhe6noyzj3r3vapbkydvqu33nc2 --with-perl=/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-5.38.0-lfl2a73mxtea55vpdeecal5tjmgr3plf +## + + +module-whatis {Basic Local Alignment Search Tool.} + +proc ModulesHelp { } { + puts stderr {Name : blast-plus} + puts stderr {Version: 2.13.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Basic Local Alignment Search Tool.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load bzip2/1.0.8 +} else { + depends-on bzip2/1.0.8 +} +prereq bzip2/1.0.8 +conflict blast-plus + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/blast-plus-2.13.0-spcghx3zhezhl5xmrodhy26q52fwgrt5/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/blast-plus-2.13.0-spcghx3zhezhl5xmrodhy26q52fwgrt5/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/blast-plus-2.13.0-spcghx3zhezhl5xmrodhy26q52fwgrt5/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/blast-plus-2.13.0-spcghx3zhezhl5xmrodhy26q52fwgrt5/include} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/blast-plus-2.13.0-spcghx3zhezhl5xmrodhy26q52fwgrt5/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/blast-plus-2.13.0-spcghx3zhezhl5xmrodhy26q52fwgrt5/.} +setenv BLAST_PLUS_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/blast-plus-2.13.0-spcghx3zhezhl5xmrodhy26q52fwgrt5} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/blast2go/5.2.5 b/modulefiles/hpccf/franklin/v0.21/software/blast2go/5.2.5 new file mode 100644 index 00000000..928af007 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/blast2go/5.2.5 @@ -0,0 +1,38 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:47.584816 +## +## blast2go@5.2.5%gcc@11.4.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/t4ea2nl +## + + +module-whatis {Blast2GO is a bioinformatics platform for high-quality functional annotation and analysis of genomic datasets.} + +proc ModulesHelp { } { + puts stderr {Name : blast2go} + puts stderr {Version: 5.2.5} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Blast2GO is a bioinformatics platform for high-quality functional} + puts stderr {annotation and analysis of genomic datasets.} +} + +conflict blast2go + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/blast2go-5.2.5-t4ea2nl5pxsxejo5xkkxmzgejs52zvtf/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/blast2go-5.2.5-t4ea2nl5pxsxejo5xkkxmzgejs52zvtf/.} +setenv BLAST2GO_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/blast2go-5.2.5-t4ea2nl5pxsxejo5xkkxmzgejs52zvtf} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/boost/1.82.0 b/modulefiles/hpccf/franklin/v0.21/software/boost/1.82.0 new file mode 100644 index 00000000..053357e6 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/boost/1.82.0 @@ -0,0 +1,44 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:47.710660 +## +## boost@1.82.0%gcc@11.4.0~atomic~chrono~clanglibcpp~container~context~contract~coroutine~date_time~debug~exception~fiber~filesystem~graph~graph_parallel~icu~iostreams~json~locale~log~math~mpi+multithreaded~nowide~numpy~pic~program_options~python~random~regex~serialization+shared~signals~singlethreaded~stacktrace~system~taggedlayout~test~thread~timer~type_erasure~versionedlayout~wave build_system=generic cxxstd=98 patches=a440f96,a7c807f visibility=hidden arch=linux-ubuntu22.04-x86_64_v3/i2ljonp +## + + +module-whatis {Boost provides free peer-reviewed portable C++ source libraries, emphasizing libraries that work well with the C++ Standard Library.} + +proc ModulesHelp { } { + puts stderr {Name : boost} + puts stderr {Version: 1.82.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Boost provides free peer-reviewed portable C++ source libraries,} + puts stderr {emphasizing libraries that work well with the C++ Standard Library.} + puts stderr {Boost libraries are intended to be widely useful, and usable across a} + puts stderr {broad spectrum of applications. The Boost license encourages both} + puts stderr {commercial and non-commercial use.} +} + +conflict boost + +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/boost-1.82.0-i2ljonpzqhrz6sajb7mx4hbn6xayptsv/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/boost-1.82.0-i2ljonpzqhrz6sajb7mx4hbn6xayptsv/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/boost-1.82.0-i2ljonpzqhrz6sajb7mx4hbn6xayptsv/include} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/boost-1.82.0-i2ljonpzqhrz6sajb7mx4hbn6xayptsv/.} +setenv BOOST_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/boost-1.82.0-i2ljonpzqhrz6sajb7mx4hbn6xayptsv} +setenv BOOST_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/boost-1.82.0-i2ljonpzqhrz6sajb7mx4hbn6xayptsv} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/bowtie/1.3.1 b/modulefiles/hpccf/franklin/v0.21/software/bowtie/1.3.1 new file mode 100644 index 00000000..e8db5dfa --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/bowtie/1.3.1 @@ -0,0 +1,38 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:47.760382 +## +## bowtie@1.3.1%gcc@11.4.0~tbb build_system=makefile patches=55bcf00 arch=linux-ubuntu22.04-x86_64_v3/5x5jkvr +## + + +module-whatis {Bowtie is an ultrafast, memory-efficient short read aligner for short DNA sequences (reads) from next-gen sequencers.} + +proc ModulesHelp { } { + puts stderr {Name : bowtie} + puts stderr {Version: 1.3.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Bowtie is an ultrafast, memory-efficient short read aligner for short} + puts stderr {DNA sequences (reads) from next-gen sequencers.} +} + +conflict bowtie + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/bowtie-1.3.1-5x5jkvr7khh6h7vx6qayaz677g7sxy37/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/bowtie-1.3.1-5x5jkvr7khh6h7vx6qayaz677g7sxy37/.} +setenv BOWTIE_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/bowtie-1.3.1-5x5jkvr7khh6h7vx6qayaz677g7sxy37} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/bowtie2/2.5.1 b/modulefiles/hpccf/franklin/v0.21/software/bowtie2/2.5.1 new file mode 100644 index 00000000..8d8b98d9 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/bowtie2/2.5.1 @@ -0,0 +1,44 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:47.870666 +## +## bowtie2@2.5.1%gcc@11.4.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/belpcno +## + + +module-whatis {Bowtie 2 is an ultrafast and memory-efficient tool for aligning sequencing reads to long reference sequences} + +proc ModulesHelp { } { + puts stderr {Name : bowtie2} + puts stderr {Version: 2.5.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Bowtie 2 is an ultrafast and memory-efficient tool for aligning} + puts stderr {sequencing reads to long reference sequences} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load intel-oneapi-tbb/2021.10.0 +} else { + depends-on intel-oneapi-tbb/2021.10.0 +} +prereq intel-oneapi-tbb/2021.10.0 +conflict bowtie2 + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/bowtie2-2.5.1-belpcno47lzwxzvjp7hmg3lrobmqfqw3/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/bowtie2-2.5.1-belpcno47lzwxzvjp7hmg3lrobmqfqw3/.} +setenv BOWTIE2_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/bowtie2-2.5.1-belpcno47lzwxzvjp7hmg3lrobmqfqw3} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/braker/2.1.6 b/modulefiles/hpccf/franklin/v0.21/software/braker/2.1.6 new file mode 100644 index 00000000..18545c7a --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/braker/2.1.6 @@ -0,0 +1,50 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:48.127478 +## +## braker@2.1.6%gcc@11.4.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/opfddbw +## + + +module-whatis {BRAKER is a pipeline for unsupervised RNA-Seq-based genome annotation that combines the advantages of GeneMark-ET and AUGUSTUS} + +proc ModulesHelp { } { + puts stderr {Name : braker} + puts stderr {Version: 2.1.6} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {BRAKER is a pipeline for unsupervised RNA-Seq-based genome annotation} + puts stderr {that combines the advantages of GeneMark-ET and AUGUSTUS} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load augustus/3.5.0 + module load samtools/1.16.1 +} else { + depends-on augustus/3.5.0 + depends-on samtools/1.16.1 +} +prereq augustus/3.5.0 +prereq samtools/1.16.1 +conflict braker + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/braker-2.1.6-opfddbwqtbzqsmekdqcx6bb57c36ybgr/lib} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/braker-2.1.6-opfddbwqtbzqsmekdqcx6bb57c36ybgr/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/braker-2.1.6-opfddbwqtbzqsmekdqcx6bb57c36ybgr/.} +prepend-path --delim {:} PERL5LIB {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-file-homedir-1.006-n2rfwdyeyx5rf6qskygh6ael6qt7iavt/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-file-which-1.27-uc7lvhpskdnyg2r75rbna5wcunoosyrq/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-hash-merge-0.300-ofdbndlkyoqkoa355e2a5vwkrg2pd2lg/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-clone-choose-0.010-nvtixdxiiurdwgvx7za4egslyopudnen/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-scalar-list-utils-1.63-fouqtcmk6pmpa75wpmte6fxc2ecpqjvu/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-list-moreutils-0.430-fqd4dxakvhwjq4aequfrg2j32w52xmn4/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-exporter-tiny-1.006002-5c4wtrrgtfejj5i4fk3wxwfvqzpvwxss/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-list-moreutils-xs-0.430-gxciivr6sbvymj5qq7qcs5n5usbcjgmq/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-logger-simple-2.0-3qgr6y35dde33tlre4mkfj7pltgvdg5j/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-object-insideout-4.05-qenkvi5kcceevkkcavxkqsoil5gkqw7z/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-exception-class-1.45-idhnokikrzwsm3gvnac4o25byeuwokvz/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-class-data-inheritable-0.08-2tw2aabplu4s4etzbkznfwajfksjogog/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-devel-stacktrace-2.04-mmfni6wiw3z24io2quwhk3tk4xgvpdxi/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-parallel-forkmanager-2.02-jk37lvekiy5olchkl5hlanvlgnj7wyko/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-scalar-util-numeric-0.40-bvj6ujtduj2jrr2dpap2gu36i36roq5k/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-yaml-1.30-7tappv5e3e7knhpadquuxq373nylcyt6/lib/perl5} +prepend-path --delim {:} PERL5LIB {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/braker-2.1.6-opfddbwqtbzqsmekdqcx6bb57c36ybgr/lib} +setenv BRAKER_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/braker-2.1.6-opfddbwqtbzqsmekdqcx6bb57c36ybgr} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/busco/5.4.3 b/modulefiles/hpccf/franklin/v0.21/software/busco/5.4.3 new file mode 100644 index 00000000..af2848e0 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/busco/5.4.3 @@ -0,0 +1,67 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:48.828306 +## +## busco@5.4.3%gcc@11.4.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/ircblq4 +## + + +module-whatis {Assesses genome assembly and annotation completeness with Benchmarking Universal Single-Copy Orthologs} + +proc ModulesHelp { } { + puts stderr {Name : busco} + puts stderr {Version: 5.4.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Assesses genome assembly and annotation completeness with Benchmarking} + puts stderr {Universal Single-Copy Orthologs} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load bbmap/39.01 + module load hmmer/3.4 + module load prodigal/2.6.3 +} else { + depends-on bbmap/39.01 + depends-on hmmer/3.4 + depends-on prodigal/2.6.3 +} +prereq bbmap/39.01 +prereq hmmer/3.4 +prereq prodigal/2.6.3 +conflict busco + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/busco-5.4.3-ircblq4hyx565euukxx66qlo3q6pcw5p/lib} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/busco-5.4.3-ircblq4hyx565euukxx66qlo3q6pcw5p/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/busco-5.4.3-ircblq4hyx565euukxx66qlo3q6pcw5p/.} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/busco-5.4.3-ircblq4hyx565euukxx66qlo3q6pcw5p/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-biopython-1.81-pzc62tsa2zqgm7qc2tmytx4untlvnn5s/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-numpy-1.24.4-gqhf3jrnoz4vrpgb7avi3ssngri2he55/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-setuptools-63.4.3-oafgc6zoyob2y2qxjelba4p3ykz7b34r/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-pandas-2.1.1-4cgmxwtdtmbtv6aad3cg5ze7bsxgndji/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-bottleneck-1.3.7-jmxawbzbohyb6t4x4z77pyvrct6x77s2/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-numba-0.57.0-nzeol76lyepf32u3bdrqbni3euq45hey/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-llvmlite-0.40.0-qn7amwsctelqahij4gfbj5xuru7jhznk/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-numexpr-2.8.4-7s2sgfs7ndkmhincnbscwxkdnynyi4fc/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-python-dateutil-2.8.2-mwvmxcwo5nzbamt65gyonchcauubkbum/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-six-1.16.0-r7xqlbvbmshxcwijmfdoyu5oorh7qbfi/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-pytz-2023.3-3cy5dsw2fuh632ptnngrvzg6jqo2mohz/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-tzdata-2023.3-tjxfagktdu5k6c6p4wmplr3qi76oroqu/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/sepp-4.5.1-olnwo5tnoumhtkl4sbx5jotu3sf7o2qr/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/pasta-1.9.0-mfbowlosqmo6hcn3wbxywe7ue3d655vh/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-dendropy-4.5.2-5q2a3mo4uyhcuayaqtu7umbuodkgbeqw/lib/python3.11/site-packages} +setenv BUSCO_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/busco-5.4.3-ircblq4hyx565euukxx66qlo3q6pcw5p} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/bwa/0.7.17 b/modulefiles/hpccf/franklin/v0.21/software/bwa/0.7.17 new file mode 100644 index 00000000..9c7787ca --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/bwa/0.7.17 @@ -0,0 +1,39 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:49.747803 +## +## bwa@0.7.17%gcc@11.4.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/y22jt6d +## + + +module-whatis {Burrow-Wheeler Aligner for pairwise alignment between DNA sequences.} + +proc ModulesHelp { } { + puts stderr {Name : bwa} + puts stderr {Version: 0.7.17} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Burrow-Wheeler Aligner for pairwise alignment between DNA sequences.} +} + +conflict bwa + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/bwa-0.7.17-y22jt6d7qm63i2tohmu7gqeedxytadky/bin} +prepend-path --delim {:} MANPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/bwa-0.7.17-y22jt6d7qm63i2tohmu7gqeedxytadky/man} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/bwa-0.7.17-y22jt6d7qm63i2tohmu7gqeedxytadky/.} +setenv BWA_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/bwa-0.7.17-y22jt6d7qm63i2tohmu7gqeedxytadky} +append-path --delim {:} MANPATH {} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/bwtool/1.0 b/modulefiles/hpccf/franklin/v0.21/software/bwtool/1.0 new file mode 100644 index 00000000..7a797b70 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/bwtool/1.0 @@ -0,0 +1,37 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:49.808154 +## +## bwtool@1.0%gcc@11.4.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/6c7yiaz +## + + +module-whatis {bwtool is a command-line utility for bigWig files.} + +proc ModulesHelp { } { + puts stderr {Name : bwtool} + puts stderr {Version: 1.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {bwtool is a command-line utility for bigWig files.} +} + +conflict bwtool + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/bwtool-1.0-6c7yiazxomiybiid3e7qfu2qx5z73vhk/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/bwtool-1.0-6c7yiazxomiybiid3e7qfu2qx5z73vhk/.} +setenv BWTOOL_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/bwtool-1.0-6c7yiazxomiybiid3e7qfu2qx5z73vhk} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/bzip2/1.0.8 b/modulefiles/hpccf/franklin/v0.21/software/bzip2/1.0.8 new file mode 100644 index 00000000..8dbb46d1 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/bzip2/1.0.8 @@ -0,0 +1,48 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:49.881573 +## +## bzip2@1.0.8%gcc@11.4.0~debug~pic+shared build_system=generic arch=linux-ubuntu22.04-x86_64_v3/c3vnkum +## + + +module-whatis {bzip2 is a freely available, patent free high-quality data compressor. It typically compresses files to within 10% to 15% of the best available techniques (the PPM family of statistical compressors), whilst being around twice as fast at compression and six times faster at decompression.} + +proc ModulesHelp { } { + puts stderr {Name : bzip2} + puts stderr {Version: 1.0.8} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {bzip2 is a freely available, patent free high-quality data compressor.} + puts stderr {It typically compresses files to within 10% to 15% of the best available} + puts stderr {techniques (the PPM family of statistical compressors), whilst being} + puts stderr {around twice as fast at compression and six times faster at} + puts stderr {decompression.} +} + +conflict bzip2 + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/bzip2-1.0.8-c3vnkum6unfohk23dfiw4avkknpmx74h/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/bzip2-1.0.8-c3vnkum6unfohk23dfiw4avkknpmx74h/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/bzip2-1.0.8-c3vnkum6unfohk23dfiw4avkknpmx74h/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/bzip2-1.0.8-c3vnkum6unfohk23dfiw4avkknpmx74h/include} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/bzip2-1.0.8-c3vnkum6unfohk23dfiw4avkknpmx74h/bin} +prepend-path --delim {:} MANPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/bzip2-1.0.8-c3vnkum6unfohk23dfiw4avkknpmx74h/man} +prepend-path --delim {:} PKG_CONFIG_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/bzip2-1.0.8-c3vnkum6unfohk23dfiw4avkknpmx74h/lib/pkgconfig} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/bzip2-1.0.8-c3vnkum6unfohk23dfiw4avkknpmx74h/.} +setenv BZIP2_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/bzip2-1.0.8-c3vnkum6unfohk23dfiw4avkknpmx74h} +append-path --delim {:} MANPATH {} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/canu/2.2 b/modulefiles/hpccf/franklin/v0.21/software/canu/2.2 new file mode 100644 index 00000000..a1177254 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/canu/2.2 @@ -0,0 +1,45 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:49.956377 +## +## canu@2.2%gcc@11.4.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/juv33lg +## + + +module-whatis {A single molecule sequence assembler for genomes large and small.} + +proc ModulesHelp { } { + puts stderr {Name : canu} + puts stderr {Version: 2.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A single molecule sequence assembler for genomes large and small.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load gnuplot/5.4.3 +} else { + depends-on gnuplot/5.4.3 +} +prereq gnuplot/5.4.3 +conflict canu + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/canu-2.2-juv33lg4nca7tpzz6zdngw34pw52aexh/lib} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/canu-2.2-juv33lg4nca7tpzz6zdngw34pw52aexh/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/canu-2.2-juv33lg4nca7tpzz6zdngw34pw52aexh/.} +prepend-path --delim {:} XLOCALEDIR {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libx11-1.8.4-zkd3h7btls3gx3c3akcrwrwqd46l43i6/share/X11/locale} +setenv CANU_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/canu-2.2-juv33lg4nca7tpzz6zdngw34pw52aexh} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/cap3/2015-02-11 b/modulefiles/hpccf/franklin/v0.21/software/cap3/2015-02-11 new file mode 100644 index 00000000..e8d86830 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/cap3/2015-02-11 @@ -0,0 +1,37 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:50.484738 +## +## cap3@2015-02-11%gcc@11.4.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/62wj2sd +## + + +module-whatis {CAP3 is DNA Sequence Assembly Program} + +proc ModulesHelp { } { + puts stderr {Name : cap3} + puts stderr {Version: 2015-02-11} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {CAP3 is DNA Sequence Assembly Program} +} + +conflict cap3 + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/cap3-2015-02-11-62wj2sdwhztvtwvu2scbkcxvpoe2neoh/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/cap3-2015-02-11-62wj2sdwhztvtwvu2scbkcxvpoe2neoh/.} +setenv CAP3_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/cap3-2015-02-11-62wj2sdwhztvtwvu2scbkcxvpoe2neoh} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/cdhit/4.8.1 b/modulefiles/hpccf/franklin/v0.21/software/cdhit/4.8.1 new file mode 100644 index 00000000..6ed7eaf1 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/cdhit/4.8.1 @@ -0,0 +1,39 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:50.549410 +## +## cdhit@4.8.1%gcc@11.4.0+openmp+zlib build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/kauufsl +## + + +module-whatis {CD-HIT is a very widely used program for clustering and comparing protein or nucleotide sequences.} + +proc ModulesHelp { } { + puts stderr {Name : cdhit} + puts stderr {Version: 4.8.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {CD-HIT is a very widely used program for clustering and comparing} + puts stderr {protein or nucleotide sequences.} +} + +conflict cdhit + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/cdhit-4.8.1-kauufslqxf67f74pbrrtv3w3f6iwq5zr/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/cdhit-4.8.1-kauufslqxf67f74pbrrtv3w3f6iwq5zr/.} +prepend-path --delim {:} PERL5LIB {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-text-nsp-1.31-c6p746cnsfbai3zr7hmurdvn7u37ltqm/lib/perl5} +setenv CDHIT_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/cdhit-4.8.1-kauufslqxf67f74pbrrtv3w3f6iwq5zr} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/cgal/5.4.1 b/modulefiles/hpccf/franklin/v0.21/software/cgal/5.4.1 new file mode 100644 index 00000000..2a4ecfdd --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/cgal/5.4.1 @@ -0,0 +1,59 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:50.692678 +## +## cgal@5.4.1%gcc@11.4.0~core~demos+eigen~header_only~imageio~ipo+shared build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/c3capt5 +## +## Configure options: -DBUILD_SHARED_LIBS:BOOL=True -DWITH_CGAL_Core:BOOL=False -DWITH_CGAL_ImageIO:BOOL=False -DWITH_CGAL_Qt5:BOOL=False -DCGAL_HEADER_ONLY:BOOL=False +## + + +module-whatis {The Computational Geometry Algorithms Library (CGAL) is a C++ library that aims to provide easy access to efficient and reliable algorithms in computational geometry. CGAL is used in various areas needing geometric computation, such as geographic information systems, computer aided design, molecular biology, medical imaging, computer graphics, and robotics. } + +proc ModulesHelp { } { + puts stderr {Name : cgal} + puts stderr {Version: 5.4.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The Computational Geometry Algorithms Library (CGAL) is a C++ library} + puts stderr {that aims to provide easy access to efficient and reliable algorithms in} + puts stderr {computational geometry. CGAL is used in various areas needing geometric} + puts stderr {computation, such as geographic information systems, computer aided} + puts stderr {design, molecular biology, medical imaging, computer graphics, and} + puts stderr {robotics.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load eigen/3.4.0 + module load mpfr/4.2.0 +} else { + depends-on eigen/3.4.0 + depends-on mpfr/4.2.0 +} +prereq eigen/3.4.0 +prereq mpfr/4.2.0 +conflict cgal + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/cgal-5.4.1-c3capt52tvmkftfonagdn33y5nxbmdtf/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/cgal-5.4.1-c3capt52tvmkftfonagdn33y5nxbmdtf/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/cgal-5.4.1-c3capt52tvmkftfonagdn33y5nxbmdtf/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/cgal-5.4.1-c3capt52tvmkftfonagdn33y5nxbmdtf/include} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/cgal-5.4.1-c3capt52tvmkftfonagdn33y5nxbmdtf/bin} +prepend-path --delim {:} MANPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/cgal-5.4.1-c3capt52tvmkftfonagdn33y5nxbmdtf/share/man} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/cgal-5.4.1-c3capt52tvmkftfonagdn33y5nxbmdtf/.} +setenv CGAL_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/cgal-5.4.1-c3capt52tvmkftfonagdn33y5nxbmdtf} +append-path --delim {:} MANPATH {} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/circos/0.69-9 b/modulefiles/hpccf/franklin/v0.21/software/circos/0.69-9 new file mode 100644 index 00000000..769f2dd7 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/circos/0.69-9 @@ -0,0 +1,40 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:50.986137 +## +## circos@0.69-9%gcc@11.4.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/csche5b +## + + +module-whatis {Circos is a software package for visualizing data and information.} + +proc ModulesHelp { } { + puts stderr {Name : circos} + puts stderr {Version: 0.69-9} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Circos is a software package for visualizing data and information.} +} + +conflict circos + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/circos-0.69-9-csche5beb4ncyqheoggxbchykahhyprk/lib} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/circos-0.69-9-csche5beb4ncyqheoggxbchykahhyprk/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/circos-0.69-9-csche5beb4ncyqheoggxbchykahhyprk/.} +prepend-path --delim {:} PERL5LIB {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-clone-0.46-qvghnmvcsvkjlenivukbbv5ea7zfh7sj/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-config-general-2.65-n2ozij4bgnbnnlyi5s36cbmnl3cywlc4/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-exporter-tiny-1.006002-5c4wtrrgtfejj5i4fk3wxwfvqzpvwxss/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-font-ttf-1.06-glydctl3k2cxdrhxxqzqe2mxcqwgvgm3/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-gd-2.77-4wfjknxayw3z7ovanbdu4bpswd4rq6cr/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-extutils-makemaker-7.70-cw3bpyg2z3puwtgur5k4nh5dgoec44sx/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-extutils-pkgconfig-1.16-wwbrkne64vcsvmz3z7egn3s2ot3xvlqj/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-io-string-1.08-epoalwv5tibo3mq7l4zmb4vt3cy6ibaw/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-list-moreutils-0.430-fqd4dxakvhwjq4aequfrg2j32w52xmn4/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-list-moreutils-xs-0.430-gxciivr6sbvymj5qq7qcs5n5usbcjgmq/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-math-bezier-0.01-vtlkylzpq5fhdnjz3xt73vzddhchrll2/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-math-round-0.07-vxdfvxnxrpdcg7wsuvnnc5vyk245eokw/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-math-vecstat-0.08-ycemjsijbuqn5a3jkqqn4a5ht6fca7ta/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-params-validate-1.31-5rpdvnxdlcj74vtbkf7nrhd7r7kduaea/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-module-implementation-0.09-puqeu73gj6rs7jx2micw6il4cwuejwnf/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-module-runtime-0.016-z2xahjynu73m2ajrz7zj4bo7kwcen2lo/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-test-fatal-0.017-rdezplynof3g25tea6y6fl56z5upuetc/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-try-tiny-0.31-l2hiyji7bj3ou3fixu4ed42a3w7ia4kn/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-test-requires-0.11-cdvav3ekfrciouh2zbknfo4ntktxodf4/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-readonly-2.05-usrqf5ezioxyw35n2nfji6hhcki5fc75/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-regexp-common-2017060201-dhcwbnfjfi54wwo4mkn3ch4yrq74y57f/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-set-intspan-1.19-7ymxni64umqizomgtmbmexrdcqzfoacv/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-statistics-basic-1.6611-iphrrllxi7nseryskuacejg2vnx3ms2v/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-number-format-1.75-pdiscz4yzps3zs2d5rozpgtf3knrjp5t/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-scalar-list-utils-1.63-fouqtcmk6pmpa75wpmte6fxc2ecpqjvu/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-svg-2.87-yw3y4qfq5k3cie64ju5ez3eeqkzt444k/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-text-format-0.62-7va4eifen3fw6wrn2xgilzso63l7imvl/lib/perl5} +prepend-path --delim {:} XLOCALEDIR {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libx11-1.8.4-zkd3h7btls3gx3c3akcrwrwqd46l43i6/share/X11/locale} +setenv CIRCOS_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/circos-0.69-9-csche5beb4ncyqheoggxbchykahhyprk} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/clustal-omega/1.2.4 b/modulefiles/hpccf/franklin/v0.21/software/clustal-omega/1.2.4 new file mode 100644 index 00000000..ff63d98f --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/clustal-omega/1.2.4 @@ -0,0 +1,42 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:51.623111 +## +## clustal-omega@1.2.4%gcc@11.4.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/dgofc5t +## + + +module-whatis {Clustal Omega: the last alignment program you'll ever need.} + +proc ModulesHelp { } { + puts stderr {Name : clustal-omega} + puts stderr {Version: 1.2.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Clustal Omega: the last alignment program you'll ever need.} +} + +conflict clustal-omega + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/clustal-omega-1.2.4-dgofc5t2mbg742dxoubkblaezzag6wiq/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/clustal-omega-1.2.4-dgofc5t2mbg742dxoubkblaezzag6wiq/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/clustal-omega-1.2.4-dgofc5t2mbg742dxoubkblaezzag6wiq/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/clustal-omega-1.2.4-dgofc5t2mbg742dxoubkblaezzag6wiq/include} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/clustal-omega-1.2.4-dgofc5t2mbg742dxoubkblaezzag6wiq/bin} +prepend-path --delim {:} PKG_CONFIG_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/clustal-omega-1.2.4-dgofc5t2mbg742dxoubkblaezzag6wiq/lib/pkgconfig} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/clustal-omega-1.2.4-dgofc5t2mbg742dxoubkblaezzag6wiq/.} +setenv CLUSTAL_OMEGA_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/clustal-omega-1.2.4-dgofc5t2mbg742dxoubkblaezzag6wiq} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/clustalw/2.1 b/modulefiles/hpccf/franklin/v0.21/software/clustalw/2.1 new file mode 100644 index 00000000..ab175747 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/clustalw/2.1 @@ -0,0 +1,38 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:51.674316 +## +## clustalw@2.1%gcc@11.4.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/fbusvz2 +## + + +module-whatis {Multiple alignment of nucleic acid and protein sequences.} + +proc ModulesHelp { } { + puts stderr {Name : clustalw} + puts stderr {Version: 2.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Multiple alignment of nucleic acid and protein sequences.} +} + +conflict clustalw + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/clustalw-2.1-fbusvz2ptnoolwakgwvovlyegiy5tvqv/bin} +prepend-path --delim {:} ACLOCAL_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/clustalw-2.1-fbusvz2ptnoolwakgwvovlyegiy5tvqv/share/aclocal} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/clustalw-2.1-fbusvz2ptnoolwakgwvovlyegiy5tvqv/.} +setenv CLUSTALW_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/clustalw-2.1-fbusvz2ptnoolwakgwvovlyegiy5tvqv} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/cmake/3.27.7 b/modulefiles/hpccf/franklin/v0.21/software/cmake/3.27.7 new file mode 100644 index 00000000..9596c5f9 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/cmake/3.27.7 @@ -0,0 +1,39 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:51.730164 +## +## cmake@3.27.7%gcc@11.4.0~doc+ncurses+ownlibs build_system=generic build_type=Release arch=linux-ubuntu22.04-x86_64_v3/xfbf4xb +## + + +module-whatis {A cross-platform, open-source build system. CMake is a family of tools designed to build, test and package software. } + +proc ModulesHelp { } { + puts stderr {Name : cmake} + puts stderr {Version: 3.27.7} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A cross-platform, open-source build system. CMake is a family of tools} + puts stderr {designed to build, test and package software.} +} + +conflict cmake + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/cmake-3.27.7-xfbf4xbbdycszyafvwyxnfktn5oh5srg/bin} +prepend-path --delim {:} ACLOCAL_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/cmake-3.27.7-xfbf4xbbdycszyafvwyxnfktn5oh5srg/share/aclocal} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/cmake-3.27.7-xfbf4xbbdycszyafvwyxnfktn5oh5srg/.} +setenv CMAKE_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/cmake-3.27.7-xfbf4xbbdycszyafvwyxnfktn5oh5srg} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/corset/1.09 b/modulefiles/hpccf/franklin/v0.21/software/corset/1.09 new file mode 100644 index 00000000..012de73f --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/corset/1.09 @@ -0,0 +1,38 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:51.805123 +## +## corset@1.09%gcc@11.4.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/3lsqssa +## + + +module-whatis {Corset is a command-line software program to go from a de novo transcriptome assembly to gene-level counts.} + +proc ModulesHelp { } { + puts stderr {Name : corset} + puts stderr {Version: 1.09} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Corset is a command-line software program to go from a de novo} + puts stderr {transcriptome assembly to gene-level counts.} +} + +conflict corset + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/corset-1.09-3lsqssaihwjacxh5moowm5g3lfxv3gnx/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/corset-1.09-3lsqssaihwjacxh5moowm5g3lfxv3gnx/.} +setenv CORSET_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/corset-1.09-3lsqssaihwjacxh5moowm5g3lfxv3gnx} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/ctffind/4.1.14+amd b/modulefiles/hpccf/franklin/v0.21/software/ctffind/4.1.14+amd new file mode 100644 index 00000000..510428b6 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/ctffind/4.1.14+amd @@ -0,0 +1,39 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:51.878359 +## +## ctffind@4.1.14%gcc@11.4.0+openmp build_system=autotools patches=d2d349c arch=linux-ubuntu22.04-zen2/uqsjztn +## +## Configure options: --disable-debugmode --disable-mkl CPPFLAGS=-I/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/amdfftw-4.1-pruyofrqqn7by3xztcec7ha2355bzba2/include LDFLAGS=-L/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/amdfftw-4.1-pruyofrqqn7by3xztcec7ha2355bzba2/lib -lfftw3 --enable-openmp +## + + +module-whatis {Fast and accurate defocus estimation from electron micrographs.} + +proc ModulesHelp { } { + puts stderr {Name : ctffind} + puts stderr {Version: 4.1.14} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {Fast and accurate defocus estimation from electron micrographs.} +} + +conflict ctffind + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/ctffind-4.1.14-uqsjztnwxwbiznxk4y7hn25i6f5ycnjz/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/ctffind-4.1.14-uqsjztnwxwbiznxk4y7hn25i6f5ycnjz/.} +setenv CTFFIND_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/ctffind-4.1.14-uqsjztnwxwbiznxk4y7hn25i6f5ycnjz} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/ctffind/4.1.14+intel b/modulefiles/hpccf/franklin/v0.21/software/ctffind/4.1.14+intel new file mode 100644 index 00000000..500b7baf --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/ctffind/4.1.14+intel @@ -0,0 +1,45 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:52.060562 +## +## ctffind@4.1.14%oneapi@2023.2.0+openmp build_system=autotools patches=d2d349c arch=linux-ubuntu22.04-skylake_avx512/myhgc3z +## +## Configure options: --disable-debugmode --enable-mkl CPPFLAGS=-I/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/intel-oneapi-mkl-2023.2.0-fktonydcczkb4imn52isghi2xogyein5/mkl/2023.2.0/include -I/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/intel-oneapi-mkl-2023.2.0-fktonydcczkb4imn52isghi2xogyein5/mkl/2023.2.0/include/fftw LDFLAGS=-L/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/intel-oneapi-mkl-2023.2.0-fktonydcczkb4imn52isghi2xogyein5/mkl/2023.2.0/lib/intel64 -L/lib/x86_64-linux-gnu -lmkl_intel_lp64 -lmkl_sequential -lmkl_core -lm --enable-openmp +## + + +module-whatis {Fast and accurate defocus estimation from electron micrographs.} + +proc ModulesHelp { } { + puts stderr {Name : ctffind} + puts stderr {Version: 4.1.14} + puts stderr {Target : skylake_avx512} + puts stderr {} + puts stderr {Fast and accurate defocus estimation from electron micrographs.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load intel-oneapi-mkl/2023.2.0+intel +} else { + depends-on intel-oneapi-mkl/2023.2.0+intel +} +prereq intel-oneapi-mkl/2023.2.0+intel +conflict ctffind + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/ctffind-4.1.14-myhgc3zqfoozdugyysirndf5kbgt77ez/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/ctffind-4.1.14-myhgc3zqfoozdugyysirndf5kbgt77ez/.} +setenv CTFFIND_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/ctffind-4.1.14-myhgc3zqfoozdugyysirndf5kbgt77ez} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/ctffind/default b/modulefiles/hpccf/franklin/v0.21/software/ctffind/default new file mode 120000 index 00000000..1818b05b --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/ctffind/default @@ -0,0 +1 @@ +/share/apps/22.04/modulefiles/spack/software/ctffind/4.1.14+amd \ No newline at end of file diff --git a/modulefiles/hpccf/franklin/v0.21/software/cufflinks/2.2.1 b/modulefiles/hpccf/franklin/v0.21/software/cufflinks/2.2.1 new file mode 100644 index 00000000..a7992b5c --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/cufflinks/2.2.1 @@ -0,0 +1,38 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:52.149436 +## +## cufflinks@2.2.1%gcc@11.4.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/vlisunz +## + + +module-whatis {Cufflinks assembles transcripts, estimates their abundances, and tests for differential expression and regulation in RNA-Seq samples.} + +proc ModulesHelp { } { + puts stderr {Name : cufflinks} + puts stderr {Version: 2.2.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Cufflinks assembles transcripts, estimates their abundances, and tests} + puts stderr {for differential expression and regulation in RNA-Seq samples.} +} + +conflict cufflinks + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/cufflinks-2.2.1-vlisunz67mjsmju4u4vv42fw2vyks4yy/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/cufflinks-2.2.1-vlisunz67mjsmju4u4vv42fw2vyks4yy/.} +setenv CUFFLINKS_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/cufflinks-2.2.1-vlisunz67mjsmju4u4vv42fw2vyks4yy} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/dashing/0.4.0 b/modulefiles/hpccf/franklin/v0.21/software/dashing/0.4.0 new file mode 100644 index 00000000..a22e4a77 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/dashing/0.4.0 @@ -0,0 +1,37 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:52.184568 +## +## dashing@0.4.0%gcc@7.5.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/x3illba +## + + +module-whatis {dashing sketches and computes distances between fasta and fastq data.} + +proc ModulesHelp { } { + puts stderr {Name : dashing} + puts stderr {Version: 0.4.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {dashing sketches and computes distances between fasta and fastq data.} +} + +conflict dashing + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/dashing-0.4.0-x3illbaqcavhj6qlfi45gxvfcvp5mcgb/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/dashing-0.4.0-x3illbaqcavhj6qlfi45gxvfcvp5mcgb/.} +setenv DASHING_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/dashing-0.4.0-x3illbaqcavhj6qlfi45gxvfcvp5mcgb} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/diamond/2.1.7 b/modulefiles/hpccf/franklin/v0.21/software/diamond/2.1.7 new file mode 100644 index 00000000..3405a83e --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/diamond/2.1.7 @@ -0,0 +1,38 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:52.226372 +## +## diamond@2.1.7%gcc@11.4.0~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/wyglftz +## + + +module-whatis {DIAMOND is a sequence aligner for protein and translated DNA searches, designed for high performance analysis of big sequence data.} + +proc ModulesHelp { } { + puts stderr {Name : diamond} + puts stderr {Version: 2.1.7} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {DIAMOND is a sequence aligner for protein and translated DNA searches,} + puts stderr {designed for high performance analysis of big sequence data.} +} + +conflict diamond + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/diamond-2.1.7-wyglftzsdv5rhtie4fdjzldddfaz4eba/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/diamond-2.1.7-wyglftzsdv5rhtie4fdjzldddfaz4eba/.} +setenv DIAMOND_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/diamond-2.1.7-wyglftzsdv5rhtie4fdjzldddfaz4eba} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/doxygen/1.9.6 b/modulefiles/hpccf/franklin/v0.21/software/doxygen/1.9.6 new file mode 100644 index 00000000..8bdd71dc --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/doxygen/1.9.6 @@ -0,0 +1,43 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:52.286700 +## +## doxygen@1.9.6%gcc@11.4.0~graphviz~ipo~mscgen build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/ewfnc5b +## +## Configure options: -DPYTHON_EXECUTABLE:STRING=/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/python-3.11.6-rsiojxhe6noyzj3r3vapbkydvqu33nc2/bin/python3.11 +## + + +module-whatis {Doxygen is the de facto standard tool for generating documentation from annotated C++ sources, but it also supports other popular programming languages such as C, Objective-C, C#, PHP, Java, Python, IDL (Corba, Microsoft, and UNO/OpenOffice flavors), Fortran, VHDL, Tcl, and to some extent D..} + +proc ModulesHelp { } { + puts stderr {Name : doxygen} + puts stderr {Version: 1.9.6} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Doxygen is the de facto standard tool for generating documentation from} + puts stderr {annotated C++ sources, but it also supports other popular programming} + puts stderr {languages such as C, Objective-C, C#, PHP, Java, Python, IDL (Corba,} + puts stderr {Microsoft, and UNO/OpenOffice flavors), Fortran, VHDL, Tcl, and to some} + puts stderr {extent D..} +} + +conflict doxygen + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/doxygen-1.9.6-ewfnc5bvzlvlp2vjqci5bkbhquftfxtz/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/doxygen-1.9.6-ewfnc5bvzlvlp2vjqci5bkbhquftfxtz/.} +setenv DOXYGEN_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/doxygen-1.9.6-ewfnc5bvzlvlp2vjqci5bkbhquftfxtz} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/dssp/3.1.4 b/modulefiles/hpccf/franklin/v0.21/software/dssp/3.1.4 new file mode 100644 index 00000000..db62b9e9 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/dssp/3.1.4 @@ -0,0 +1,39 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:52.387985 +## +## dssp@3.1.4%gcc@11.4.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/feicgsw +## +## Configure options: --with-boost=/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/boost-1.83.0-clh2nwr5b3ztnxqcxktlbi5dju3t6u6p +## + + +module-whatis {'mkdssp' utility. (dictionary of protein secondary structure)} + +proc ModulesHelp { } { + puts stderr {Name : dssp} + puts stderr {Version: 3.1.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {'mkdssp' utility. (dictionary of protein secondary structure)} +} + +conflict dssp + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/dssp-3.1.4-feicgswcm2hinif3fc5gvnktszyw56ws/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/dssp-3.1.4-feicgswcm2hinif3fc5gvnktszyw56ws/.} +setenv DSSP_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/dssp-3.1.4-feicgswcm2hinif3fc5gvnktszyw56ws} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/ea-utils/2021-10-20 b/modulefiles/hpccf/franklin/v0.21/software/ea-utils/2021-10-20 new file mode 100644 index 00000000..59df5901 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/ea-utils/2021-10-20 @@ -0,0 +1,45 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:52.511798 +## +## ea-utils@2021-10-20%gcc@11.4.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/zonslfe +## + + +module-whatis {Command-line tools for processing biological sequencing data. Barcode demultiplexing, adapter trimming, etc. Primarily written to support an Illumina based pipeline - but should work with any FASTQs.} + +proc ModulesHelp { } { + puts stderr {Name : ea-utils} + puts stderr {Version: 2021-10-20} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Command-line tools for processing biological sequencing data. Barcode} + puts stderr {demultiplexing, adapter trimming, etc. Primarily written to support an} + puts stderr {Illumina based pipeline - but should work with any FASTQs.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load gsl/2.7.1 +} else { + depends-on gsl/2.7.1 +} +prereq gsl/2.7.1 +conflict ea-utils + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ea-utils-2021-10-20-zonslfevleeezzwhuvw242cfhjrnctih/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ea-utils-2021-10-20-zonslfevleeezzwhuvw242cfhjrnctih/.} +setenv EA_UTILS_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ea-utils-2021-10-20-zonslfevleeezzwhuvw242cfhjrnctih} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/eigen/3.4.0 b/modulefiles/hpccf/franklin/v0.21/software/eigen/3.4.0 new file mode 100644 index 00000000..86b819d3 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/eigen/3.4.0 @@ -0,0 +1,44 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:52.611105 +## +## eigen@3.4.0%gcc@11.4.0~ipo build_system=cmake build_type=RelWithDebInfo generator=make arch=linux-ubuntu22.04-x86_64_v3/erbdmfo +## +## Configure options: -DBUILD_TESTING:STRING=ON +## + + +module-whatis {Eigen is a C++ template library for linear algebra matrices, vectors, numerical solvers, and related algorithms. } + +proc ModulesHelp { } { + puts stderr {Name : eigen} + puts stderr {Version: 3.4.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Eigen is a C++ template library for linear algebra matrices, vectors,} + puts stderr {numerical solvers, and related algorithms.} +} + +conflict eigen + +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/eigen-3.4.0-erbdmfohsxs5fwsclup67liy4br2xxcp/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/eigen-3.4.0-erbdmfohsxs5fwsclup67liy4br2xxcp/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/eigen-3.4.0-erbdmfohsxs5fwsclup67liy4br2xxcp/include} +prepend-path --delim {:} PKG_CONFIG_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/eigen-3.4.0-erbdmfohsxs5fwsclup67liy4br2xxcp/share/pkgconfig} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/eigen-3.4.0-erbdmfohsxs5fwsclup67liy4br2xxcp/.} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/eigen-3.4.0-erbdmfohsxs5fwsclup67liy4br2xxcp/include/eigen3} +setenv EIGEN_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/eigen-3.4.0-erbdmfohsxs5fwsclup67liy4br2xxcp} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/elk/8.3.22 b/modulefiles/hpccf/franklin/v0.21/software/elk/8.3.22 new file mode 100644 index 00000000..55a16b3e --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/elk/8.3.22 @@ -0,0 +1,38 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:52.671452 +## +## elk@8.3.22%gcc@11.4.0+libxc+mpi+openmp~w90 build_system=makefile fft=internal linalg=internal arch=linux-ubuntu22.04-x86_64_v3/l7ssdew +## + + +module-whatis {An all-electron full-potential linearised augmented-plane wave (FP-LAPW) code with many advanced features.} + +proc ModulesHelp { } { + puts stderr {Name : elk} + puts stderr {Version: 8.3.22} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {An all-electron full-potential linearised augmented-plane wave (FP-LAPW)} + puts stderr {code with many advanced features.} +} + +conflict elk + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/elk-8.3.22-l7ssdewtpguv6fnwc6itsxuoouhu4hxs/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/elk-8.3.22-l7ssdewtpguv6fnwc6itsxuoouhu4hxs/.} +setenv ELK_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/elk-8.3.22-l7ssdewtpguv6fnwc6itsxuoouhu4hxs} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/emboss/6.6.0 b/modulefiles/hpccf/franklin/v0.21/software/emboss/6.6.0 new file mode 100644 index 00000000..85980a1a --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/emboss/6.6.0 @@ -0,0 +1,44 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:52.801413 +## +## emboss@6.6.0%gcc@11.4.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/rvvit2v +## + + +module-whatis {EMBOSS is a free Open Source software analysis package specially developed for the needs of the molecular biology (e.g. EMBnet) user community} + +proc ModulesHelp { } { + puts stderr {Name : emboss} + puts stderr {Version: 6.6.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {EMBOSS is a free Open Source software analysis package specially} + puts stderr {developed for the needs of the molecular biology (e.g. EMBnet) user} + puts stderr {community} +} + +conflict emboss + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/emboss-6.6.0-rvvit2v3w65xfty5cpy7grvgwogqm6g5/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/emboss-6.6.0-rvvit2v3w65xfty5cpy7grvgwogqm6g5/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/emboss-6.6.0-rvvit2v3w65xfty5cpy7grvgwogqm6g5/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/emboss-6.6.0-rvvit2v3w65xfty5cpy7grvgwogqm6g5/include} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/emboss-6.6.0-rvvit2v3w65xfty5cpy7grvgwogqm6g5/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/emboss-6.6.0-rvvit2v3w65xfty5cpy7grvgwogqm6g5/.} +prepend-path --delim {:} XLOCALEDIR {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libx11-1.8.4-zkd3h7btls3gx3c3akcrwrwqd46l43i6/share/X11/locale} +setenv EMBOSS_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/emboss-6.6.0-rvvit2v3w65xfty5cpy7grvgwogqm6g5} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/exonerate-gff3/2.3.0 b/modulefiles/hpccf/franklin/v0.21/software/exonerate-gff3/2.3.0 new file mode 100644 index 00000000..579326ed --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/exonerate-gff3/2.3.0 @@ -0,0 +1,40 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:53.415651 +## +## exonerate-gff3@2.3.0%gcc@11.4.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/yxdwchf +## + + +module-whatis {This is an exonerate fork with added gff3 support. Original website with user guides: http://www.ebi.ac.uk/~guy/exonerate/} + +proc ModulesHelp { } { + puts stderr {Name : exonerate-gff3} + puts stderr {Version: 2.3.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {This is an exonerate fork with added gff3 support. Original website with} + puts stderr {user guides: http://www.ebi.ac.uk/~guy/exonerate/} +} + +conflict exonerate-gff3 + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/exonerate-gff3-2.3.0-yxdwchffn62skapzfdb7xfalq3nzifgb/bin} +prepend-path --delim {:} MANPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/exonerate-gff3-2.3.0-yxdwchffn62skapzfdb7xfalq3nzifgb/share/man} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/exonerate-gff3-2.3.0-yxdwchffn62skapzfdb7xfalq3nzifgb/.} +setenv EXONERATE_GFF3_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/exonerate-gff3-2.3.0-yxdwchffn62skapzfdb7xfalq3nzifgb} +append-path --delim {:} MANPATH {} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/exonerate/2.4.0 b/modulefiles/hpccf/franklin/v0.21/software/exonerate/2.4.0 new file mode 100644 index 00000000..506f1027 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/exonerate/2.4.0 @@ -0,0 +1,41 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:53.006529 +## +## exonerate@2.4.0%gcc@11.4.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/rklohoc +## +## Configure options: --disable-debug --disable-dependency-tracking +## + + +module-whatis {Pairwise sequence alignment of DNA and proteins} + +proc ModulesHelp { } { + puts stderr {Name : exonerate} + puts stderr {Version: 2.4.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Pairwise sequence alignment of DNA and proteins} +} + +conflict exonerate + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/exonerate-2.4.0-rklohocccgjo2nqqxum7gp5en2qeclyy/bin} +prepend-path --delim {:} MANPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/exonerate-2.4.0-rklohocccgjo2nqqxum7gp5en2qeclyy/share/man} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/exonerate-2.4.0-rklohocccgjo2nqqxum7gp5en2qeclyy/.} +setenv EXONERATE_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/exonerate-2.4.0-rklohocccgjo2nqqxum7gp5en2qeclyy} +append-path --delim {:} MANPATH {} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/fastani/1.33 b/modulefiles/hpccf/franklin/v0.21/software/fastani/1.33 new file mode 100644 index 00000000..8cb83cfc --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/fastani/1.33 @@ -0,0 +1,44 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:53.490970 +## +## fastani@1.33%gcc@11.4.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/gp5q2ps +## + + +module-whatis {Fast, alignment-free computation of whole-genome Average Nucleotide Identity (ANI)} + +proc ModulesHelp { } { + puts stderr {Name : fastani} + puts stderr {Version: 1.33} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Fast, alignment-free computation of whole-genome Average Nucleotide} + puts stderr {Identity (ANI)} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load gsl/2.7.1 +} else { + depends-on gsl/2.7.1 +} +prereq gsl/2.7.1 +conflict fastani + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/fastani-1.33-gp5q2psudf7okbf6omu5penuwvozxu6t/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/fastani-1.33-gp5q2psudf7okbf6omu5penuwvozxu6t/.} +setenv FASTANI_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/fastani-1.33-gp5q2psudf7okbf6omu5penuwvozxu6t} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/fastme/2.1.5.1 b/modulefiles/hpccf/franklin/v0.21/software/fastme/2.1.5.1 new file mode 100644 index 00000000..7f44c2f2 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/fastme/2.1.5.1 @@ -0,0 +1,38 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:53.538469 +## +## fastme@2.1.5.1%gcc@11.4.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/suh4yfr +## + + +module-whatis {FastME is a distance based phylogeny reconstruction program that works on distance matrices and, as of v2.0, sequence data.} + +proc ModulesHelp { } { + puts stderr {Name : fastme} + puts stderr {Version: 2.1.5.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {FastME is a distance based phylogeny reconstruction program that works} + puts stderr {on distance matrices and, as of v2.0, sequence data.} +} + +conflict fastme + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/fastme-2.1.5.1-suh4yfrsrfnuuzbtkfhoqtwzqf3wi7mi/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/fastme-2.1.5.1-suh4yfrsrfnuuzbtkfhoqtwzqf3wi7mi/.} +setenv FASTME_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/fastme-2.1.5.1-suh4yfrsrfnuuzbtkfhoqtwzqf3wi7mi} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/fastq-screen/0.15.3 b/modulefiles/hpccf/franklin/v0.21/software/fastq-screen/0.15.3 new file mode 100644 index 00000000..e87a9a99 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/fastq-screen/0.15.3 @@ -0,0 +1,47 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:53.595258 +## +## fastq-screen@0.15.3%gcc@11.4.0~bismark~bowtie~bwa build_system=generic arch=linux-ubuntu22.04-x86_64_v3/mmsjw2e +## + + +module-whatis {FastQ Screen allows you to screen a library of sequences in FastQ format against a set of sequence databases so you can see if the composition of the library matches with what you expect.} + +proc ModulesHelp { } { + puts stderr {Name : fastq-screen} + puts stderr {Version: 0.15.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {FastQ Screen allows you to screen a library of sequences in FastQ format} + puts stderr {against a set of sequence databases so you can see if the composition of} + puts stderr {the library matches with what you expect.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load bowtie2/2.5.1 +} else { + depends-on bowtie2/2.5.1 +} +prereq bowtie2/2.5.1 +conflict fastq-screen + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/fastq-screen-0.15.3-mmsjw2efqko3xqespnjynbbu2wy6fstq/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/fastq-screen-0.15.3-mmsjw2efqko3xqespnjynbbu2wy6fstq/.} +prepend-path --delim {:} PERL5LIB {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-gdgraph-1.4308-ksru65263nkrezp2gc7ztvcjp7aa6sbz/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-capture-tiny-0.48-buwhsdnlgv5mg4xfdyws2in22fm5pl4q/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-gd-2.77-4wfjknxayw3z7ovanbdu4bpswd4rq6cr/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-extutils-makemaker-7.70-cw3bpyg2z3puwtgur5k4nh5dgoec44sx/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-extutils-pkgconfig-1.16-wwbrkne64vcsvmz3z7egn3s2ot3xvlqj/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-gdtextutil-0.86-wilv5si6gmhozx5rmk7ondts23b4pg5y/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-test-exception-0.43-q6dchkcg76o2jpo2o6ibkuhy5czvtwwi/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-sub-uplevel-0.2800-n56v2p6rpuoyifwxhhehp3hvwzho7r2s/lib/perl5} +prepend-path --delim {:} XLOCALEDIR {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libx11-1.8.4-zkd3h7btls3gx3c3akcrwrwqd46l43i6/share/X11/locale} +setenv FASTQ_SCREEN_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/fastq-screen-0.15.3-mmsjw2efqko3xqespnjynbbu2wy6fstq} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/fastqc/0.12.1 b/modulefiles/hpccf/franklin/v0.21/software/fastqc/0.12.1 new file mode 100644 index 00000000..e9a791c0 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/fastqc/0.12.1 @@ -0,0 +1,38 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:53.727253 +## +## fastqc@0.12.1%gcc@11.4.0 build_system=generic patches=886aba9 arch=linux-ubuntu22.04-x86_64_v3/maid4z7 +## + + +module-whatis {A quality control tool for high throughput sequence data.} + +proc ModulesHelp { } { + puts stderr {Name : fastqc} + puts stderr {Version: 0.12.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A quality control tool for high throughput sequence data.} +} + +conflict fastqc + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/fastqc-0.12.1-maid4z7dkedkn2awswts7hfp4opuz5fm/lib} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/fastqc-0.12.1-maid4z7dkedkn2awswts7hfp4opuz5fm/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/fastqc-0.12.1-maid4z7dkedkn2awswts7hfp4opuz5fm/.} +setenv FASTQC_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/fastqc-0.12.1-maid4z7dkedkn2awswts7hfp4opuz5fm} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/fasttree/2.1.11 b/modulefiles/hpccf/franklin/v0.21/software/fasttree/2.1.11 new file mode 100644 index 00000000..785490d3 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/fasttree/2.1.11 @@ -0,0 +1,38 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:53.801149 +## +## fasttree@2.1.11%gcc@11.4.0+openmp build_system=generic arch=linux-ubuntu22.04-x86_64_v3/7fmk4tv +## + + +module-whatis {FastTree infers approximately-maximum-likelihood phylogenetic trees from alignments of nucleotide or protein sequences. } + +proc ModulesHelp { } { + puts stderr {Name : fasttree} + puts stderr {Version: 2.1.11} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {FastTree infers approximately-maximum-likelihood phylogenetic trees from} + puts stderr {alignments of nucleotide or protein sequences.} +} + +conflict fasttree + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/fasttree-2.1.11-7fmk4tvprk33yi7pltv6e5rqjuj2js4i/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/fasttree-2.1.11-7fmk4tvprk33yi7pltv6e5rqjuj2js4i/.} +setenv FASTTREE_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/fasttree-2.1.11-7fmk4tvprk33yi7pltv6e5rqjuj2js4i} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/fastx-toolkit/0.0.14 b/modulefiles/hpccf/franklin/v0.21/software/fastx-toolkit/0.0.14 new file mode 100644 index 00000000..f1b40e58 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/fastx-toolkit/0.0.14 @@ -0,0 +1,39 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:53.845592 +## +## fastx-toolkit@0.0.14%gcc@11.4.0 build_system=autotools patches=915bdfc arch=linux-ubuntu22.04-x86_64_v3/dmkeji2 +## + + +module-whatis {The FASTX-Toolkit is a collection of command line tools for Short-Reads FASTA/FASTQ files preprocessing.} + +proc ModulesHelp { } { + puts stderr {Name : fastx-toolkit} + puts stderr {Version: 0.0.14} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The FASTX-Toolkit is a collection of command line tools for Short-Reads} + puts stderr {FASTA/FASTQ files preprocessing.} +} + +conflict fastx-toolkit + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/fastx-toolkit-0.0.14-dmkeji262rck4ekcel2jcy5vzlyplh5t/bin} +prepend-path --delim {:} ACLOCAL_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/fastx-toolkit-0.0.14-dmkeji262rck4ekcel2jcy5vzlyplh5t/share/aclocal} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/fastx-toolkit-0.0.14-dmkeji262rck4ekcel2jcy5vzlyplh5t/.} +setenv FASTX_TOOLKIT_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/fastx-toolkit-0.0.14-dmkeji262rck4ekcel2jcy5vzlyplh5t} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/feh/3.10 b/modulefiles/hpccf/franklin/v0.21/software/feh/3.10 new file mode 100644 index 00000000..726a7b4d --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/feh/3.10 @@ -0,0 +1,43 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:53.947344 +## +## feh@3.10%gcc@11.4.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/cgb4zkz +## + + +module-whatis { feh is an X11 image viewer aimed mostly at console users. Unlike most other viewers, it does not have a fancy GUI, but simply displays images. It is controlled via commandline arguments and configurable key/mouse actions. } + +proc ModulesHelp { } { + puts stderr {Name : feh} + puts stderr {Version: 3.10} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr { feh is an X11 image viewer aimed mostly at console users. Unlike most} + puts stderr {other viewers, it does not have a fancy GUI, but simply displays images.} + puts stderr {It is controlled via commandline arguments and configurable key/mouse} + puts stderr {actions.} +} + +conflict feh + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/feh-3.10-cgb4zkz6np6ys5lisnyvlewaasr3jkbv/bin} +prepend-path --delim {:} MANPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/feh-3.10-cgb4zkz6np6ys5lisnyvlewaasr3jkbv/share/man} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/feh-3.10-cgb4zkz6np6ys5lisnyvlewaasr3jkbv/.} +prepend-path --delim {:} XLOCALEDIR {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libx11-1.8.4-zkd3h7btls3gx3c3akcrwrwqd46l43i6/share/X11/locale} +setenv FEH_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/feh-3.10-cgb4zkz6np6ys5lisnyvlewaasr3jkbv} +append-path --delim {:} MANPATH {} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/fftw/3.3.10 b/modulefiles/hpccf/franklin/v0.21/software/fftw/3.3.10 new file mode 100644 index 00000000..a7b326ae --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/fftw/3.3.10 @@ -0,0 +1,49 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:54.317323 +## +## fftw@3.3.10%gcc@11.4.0+mpi+openmp~pfft_patches build_system=autotools precision=double,float arch=linux-ubuntu22.04-x86_64_v3/jojm5n3 +## + + +module-whatis {FFTW is a C subroutine library for computing the discrete Fourier transform (DFT) in one or more dimensions, of arbitrary input size, and of both real and complex data (as well as of even/odd data, i.e. the discrete cosine/sine transforms or DCT/DST). We believe that FFTW, which is free software, should become the FFT library of choice for most applications.} + +proc ModulesHelp { } { + puts stderr {Name : fftw} + puts stderr {Version: 3.3.10} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {FFTW is a C subroutine library for computing the discrete Fourier} + puts stderr {transform (DFT) in one or more dimensions, of arbitrary input size, and} + puts stderr {of both real and complex data (as well as of even/odd data, i.e. the} + puts stderr {discrete cosine/sine transforms or DCT/DST). We believe that FFTW, which} + puts stderr {is free software, should become the FFT library of choice for most} + puts stderr {applications.} +} + +conflict fftw + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/fftw-3.3.10-jojm5n3dohagabni2beq4ookmqpc5pfw/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/fftw-3.3.10-jojm5n3dohagabni2beq4ookmqpc5pfw/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/fftw-3.3.10-jojm5n3dohagabni2beq4ookmqpc5pfw/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/fftw-3.3.10-jojm5n3dohagabni2beq4ookmqpc5pfw/include} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/fftw-3.3.10-jojm5n3dohagabni2beq4ookmqpc5pfw/bin} +prepend-path --delim {:} MANPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/fftw-3.3.10-jojm5n3dohagabni2beq4ookmqpc5pfw/share/man} +prepend-path --delim {:} PKG_CONFIG_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/fftw-3.3.10-jojm5n3dohagabni2beq4ookmqpc5pfw/lib/pkgconfig} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/fftw-3.3.10-jojm5n3dohagabni2beq4ookmqpc5pfw/.} +setenv FFTW_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/fftw-3.3.10-jojm5n3dohagabni2beq4ookmqpc5pfw} +append-path --delim {:} MANPATH {} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/freebayes/1.3.6 b/modulefiles/hpccf/franklin/v0.21/software/freebayes/1.3.6 new file mode 100644 index 00000000..d9625430 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/freebayes/1.3.6 @@ -0,0 +1,37 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:54.430791 +## +## freebayes@1.3.6%gcc@11.4.0~strip build_system=meson buildtype=release default_library=shared arch=linux-ubuntu22.04-x86_64_v3/sufcdij +## + + +module-whatis {Bayesian haplotype-based genetic polymorphism discovery and genotyping.} + +proc ModulesHelp { } { + puts stderr {Name : freebayes} + puts stderr {Version: 1.3.6} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Bayesian haplotype-based genetic polymorphism discovery and genotyping.} +} + +conflict freebayes + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/freebayes-1.3.6-sufcdijoyna4atby54da7wuzyfdtiw42/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/freebayes-1.3.6-sufcdijoyna4atby54da7wuzyfdtiw42/.} +setenv FREEBAYES_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/freebayes-1.3.6-sufcdijoyna4atby54da7wuzyfdtiw42} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/freesurfer/7.2.0 b/modulefiles/hpccf/franklin/v0.21/software/freesurfer/7.2.0 new file mode 100644 index 00000000..179a0d9e --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/freesurfer/7.2.0 @@ -0,0 +1,48 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:54.651438 +## +## freesurfer@7.2.0%gcc@11.4.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/vn2gjky +## + + +module-whatis {Freesurfer is an open source software suite for processing and analyzing (human) brain MRI images.} + +proc ModulesHelp { } { + puts stderr {Name : freesurfer} + puts stderr {Version: 7.2.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Freesurfer is an open source software suite for processing and analyzing} + puts stderr {(human) brain MRI images.} +} + +conflict freesurfer + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/freesurfer-7.2.0-vn2gjkyl7etfe7nlc26njuk2tbphsgmx/lib} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/freesurfer-7.2.0-vn2gjkyl7etfe7nlc26njuk2tbphsgmx/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/freesurfer-7.2.0-vn2gjkyl7etfe7nlc26njuk2tbphsgmx/.} +prepend-path --delim {:} XLOCALEDIR {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libx11-1.8.4-zaqf7dicjkl3i2sg2ciot74vsehx7k47/share/X11/locale} +prepend-path --delim {:} XDG_DATA_DIRS {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gobject-introspection-1.76.1-p7ovpnwgkhdrynjsf2zetdapj4hwgkkr/share} +prepend-path --delim {:} GI_TYPELIB_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gobject-introspection-1.76.1-p7ovpnwgkhdrynjsf2zetdapj4hwgkkr/lib/girepository-1.0} +prepend-path --delim {:} XDG_DATA_DIRS {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/harfbuzz-7.3.0-qydks2c5unty2nl6v6ppaloxifbjr6ov/share} +prepend-path --delim {:} GI_TYPELIB_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/harfbuzz-7.3.0-qydks2c5unty2nl6v6ppaloxifbjr6ov/lib/girepository-1.0} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/freesurfer-7.2.0-vn2gjkyl7etfe7nlc26njuk2tbphsgmx/bin} +setenv FREESURFER_HOME {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/freesurfer-7.2.0-vn2gjkyl7etfe7nlc26njuk2tbphsgmx} +setenv SUBJECTS_DIR {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/freesurfer-7.2.0-vn2gjkyl7etfe7nlc26njuk2tbphsgmx/subjects} +setenv FUNCTIONALS_DIR {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/freesurfer-7.2.0-vn2gjkyl7etfe7nlc26njuk2tbphsgmx/sessions} +setenv FREESURFER_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/freesurfer-7.2.0-vn2gjkyl7etfe7nlc26njuk2tbphsgmx} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/gatk/3.8.1 b/modulefiles/hpccf/franklin/v0.21/software/gatk/3.8.1 new file mode 100644 index 00000000..b37539a5 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/gatk/3.8.1 @@ -0,0 +1,39 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:55.291445 +## +## gatk@3.8.1%gcc@11.4.0~r build_system=generic arch=linux-ubuntu22.04-x86_64_v3/27xn2fd +## + + +module-whatis { Genome Analysis Toolkit Variant Discovery in High-Throughput Sequencing Data } + +proc ModulesHelp { } { + puts stderr {Name : gatk} + puts stderr {Version: 3.8.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr { Genome Analysis Toolkit Variant Discovery in High-Throughput Sequencing} + puts stderr {Data} +} + +conflict gatk + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gatk-3.8.1-27xn2fdgrcnyrl6gjrjqscrdujv3ahal/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gatk-3.8.1-27xn2fdgrcnyrl6gjrjqscrdujv3ahal/.} +prepend-path --delim {:} GATK {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gatk-3.8.1-27xn2fdgrcnyrl6gjrjqscrdujv3ahal/bin/GenomeAnalysisTK.jar} +setenv GATK_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gatk-3.8.1-27xn2fdgrcnyrl6gjrjqscrdujv3ahal} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/gatk/4.2.6.1 b/modulefiles/hpccf/franklin/v0.21/software/gatk/4.2.6.1 new file mode 100644 index 00000000..b57056c9 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/gatk/4.2.6.1 @@ -0,0 +1,39 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:55.353192 +## +## gatk@4.2.6.1%gcc@11.4.0~r build_system=generic arch=linux-ubuntu22.04-x86_64_v3/q35v4j7 +## + + +module-whatis { Genome Analysis Toolkit Variant Discovery in High-Throughput Sequencing Data } + +proc ModulesHelp { } { + puts stderr {Name : gatk} + puts stderr {Version: 4.2.6.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr { Genome Analysis Toolkit Variant Discovery in High-Throughput Sequencing} + puts stderr {Data} +} + +conflict gatk + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gatk-4.2.6.1-q35v4j7pchze5wun2ywqv4zgbadb6s2v/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gatk-4.2.6.1-q35v4j7pchze5wun2ywqv4zgbadb6s2v/.} +prepend-path --delim {:} GATK {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gatk-4.2.6.1-q35v4j7pchze5wun2ywqv4zgbadb6s2v/bin/GenomeAnalysisTK.jar} +setenv GATK_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gatk-4.2.6.1-q35v4j7pchze5wun2ywqv4zgbadb6s2v} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/gctf/1.06 b/modulefiles/hpccf/franklin/v0.21/software/gctf/1.06 new file mode 100644 index 00000000..eb50724c --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/gctf/1.06 @@ -0,0 +1,38 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:55.530904 +## +## gctf@1.06%gcc@11.4.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/7qivncf +## + + +module-whatis {a GPU accelerated program for Real-Time CTF determination, refinement, evaluation and correction.} + +proc ModulesHelp { } { + puts stderr {Name : gctf} + puts stderr {Version: 1.06} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {a GPU accelerated program for Real-Time CTF determination, refinement,} + puts stderr {evaluation and correction.} +} + +conflict gctf + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gctf-1.06-7qivncfbeb2loemvr3ntod457xlzrccs/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gctf-1.06-7qivncfbeb2loemvr3ntod457xlzrccs/.} +setenv GCTF_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gctf-1.06-7qivncfbeb2loemvr3ntod457xlzrccs} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/geant4/11.1.1 b/modulefiles/hpccf/franklin/v0.21/software/geant4/11.1.1 new file mode 100644 index 00000000..a170882e --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/geant4/11.1.1 @@ -0,0 +1,46 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-13 10:15:03.244594 +## +## geant4@11.1.1%gcc@11.4.0~ipo~motif~opengl~qt~tbb+threads~vecgeom~vtk~x11 build_system=cmake build_type=Release cxxstd=17 generator=make arch=linux-ubuntu22.04-x86_64_v3/5fd2wfl +## +## Configure options: -DGEANT4_USE_SYSTEM_CLHEP:BOOL=ON -DGEANT4_USE_SYSTEM_EXPAT:BOOL=ON -DGEANT4_USE_SYSTEM_ZLIB:BOOL=ON -DGEANT4_USE_G3TOG4:BOOL=ON -DGEANT4_USE_GDML:BOOL=ON -DXERCESC_ROOT_DIR:STRING=/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/xerces-c-3.2.4-n6ruuec24fpnlnifn2wjgxnxxkcukdoh -DCMAKE_CXX_STANDARD:STRING=17 -DGEANT4_INSTALL_PACKAGE_CACHE:BOOL=ON -DGEANT4_BUILD_MULTITHREADED:BOOL=ON -DGEANT4_USE_TBB:BOOL=OFF -DGEANT4_BUILD_TLS_MODEL=global-dynamic -DGEANT4_INSTALL_DATA:BOOL=OFF -DGEANT4_INSTALL_DATADIR:STRING=/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/geant4-data-11.1.0-pfpai6hfz65vb7gwbjzslt7o27j4nd3r/share/geant4-data-11.1.0 -DGEANT4_USE_VTK:BOOL=OFF +## + + +module-whatis {Geant4 is a toolkit for the simulation of the passage of particles through matter. Its areas of application include high energy, nuclear and accelerator physics, as well as studies in medical and space science.} + +proc ModulesHelp { } { + puts stderr {Name : geant4} + puts stderr {Version: 11.1.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Geant4 is a toolkit for the simulation of the passage of particles} + puts stderr {through matter. Its areas of application include high energy, nuclear} + puts stderr {and accelerator physics, as well as studies in medical and space} + puts stderr {science.} +} + +conflict geant4 + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/geant4-11.1.1-5fd2wflyrh6dvl4djua4o2r7dl4c3zbj/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/geant4-11.1.1-5fd2wflyrh6dvl4djua4o2r7dl4c3zbj/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/geant4-11.1.1-5fd2wflyrh6dvl4djua4o2r7dl4c3zbj/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/geant4-11.1.1-5fd2wflyrh6dvl4djua4o2r7dl4c3zbj/include} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/geant4-11.1.1-5fd2wflyrh6dvl4djua4o2r7dl4c3zbj/bin} +prepend-path --delim {:} PKG_CONFIG_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/geant4-11.1.1-5fd2wflyrh6dvl4djua4o2r7dl4c3zbj/lib/pkgconfig} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/geant4-11.1.1-5fd2wflyrh6dvl4djua4o2r7dl4c3zbj/.} +setenv G4ABLADATA {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/g4abla-3.1-kueg44c5uiko6o3y6bhvgqzdti6tndvj/share/data/G4ABLA3.1} +setenv G4LEDATA {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/g4emlow-8.2-47iv5b6ewosijo55oobwvrfmmx5flxlw/share/data/G4EMLOW8.2} +setenv G4ENSDFSTATEDATA {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/g4ensdfstate-2.3-wt3dmrh2pqryxlybxqa3pt567s2hw2fa/share/data/G4ENSDFSTATE2.3} +setenv G4INCLDATA {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/g4incl-1.0-r5bjvgbddpl2vnnihssg5cdxopeacvlu/share/data/G4INCL1.0} +setenv G4NEUTRONHPDATA {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/g4ndl-4.7-ssdq42g5lgullpetaas7qew46w5rsdlh/share/data/G4NDL4.7} +setenv G4PARTICLEXSDATA {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/g4particlexs-4.0-y3u6z3uuqegegt3wbyeiba4b5wtf245b/share/data/G4PARTICLEXS4.0} +setenv G4LEVELGAMMADATA {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/g4photonevaporation-5.7-6jcrn2nyqc725xi6fhbpdwpzwt6iquig/share/data/PhotonEvaporation5.7} +setenv G4PIIDATA {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/g4pii-1.3-qplxnfhhjyfyxn3tfpbxtkdrkgfwracg/share/data/G4PII1.3} +setenv G4RADIOACTIVEDATA {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/g4radioactivedecay-5.6-y5xhjgn7ornhbvt2bwyykkej7kds4gyl/share/data/RadioactiveDecay5.6} +setenv G4REALSURFACEDATA {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/g4realsurface-2.2-lbmprzbbuo23nh7o2jxdpqbisbjuwrlh/share/data/RealSurface2.2} +setenv G4SAIDXSDATA {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/g4saiddata-2.0-rhztuldn7aj7h3p6boterpxrjpv7vmzb/share/data/G4SAIDDATA2.0} +setenv GEANT4_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/geant4-11.1.1-5fd2wflyrh6dvl4djua4o2r7dl4c3zbj} + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/franklin/v0.21/software/gemma/0.98.5 b/modulefiles/hpccf/franklin/v0.21/software/gemma/0.98.5 new file mode 100644 index 00000000..77dc900c --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/gemma/0.98.5 @@ -0,0 +1,45 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:55.626047 +## +## gemma@0.98.5%gcc@11.4.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/5j6g4hh +## + + +module-whatis {GEMMA is a software toolkit for fast application of linear mixed models (LMMs) and related models to genome-wide association studies (GWAS) and other large-scale data sets.} + +proc ModulesHelp { } { + puts stderr {Name : gemma} + puts stderr {Version: 0.98.5} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {GEMMA is a software toolkit for fast application of linear mixed models} + puts stderr {(LMMs) and related models to genome-wide association studies (GWAS) and} + puts stderr {other large-scale data sets.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load gsl/2.7.1 +} else { + depends-on gsl/2.7.1 +} +prereq gsl/2.7.1 +conflict gemma + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gemma-0.98.5-5j6g4hhnvbkyctqtd5opsv4b3mvcxafe/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gemma-0.98.5-5j6g4hhnvbkyctqtd5opsv4b3mvcxafe/.} +setenv GEMMA_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gemma-0.98.5-5j6g4hhnvbkyctqtd5opsv4b3mvcxafe} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/genometools/1.6.2 b/modulefiles/hpccf/franklin/v0.21/software/genometools/1.6.2 new file mode 100644 index 00000000..e2ad2118 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/genometools/1.6.2 @@ -0,0 +1,49 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:55.761539 +## +## genometools@1.6.2%gcc@11.4.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/p72a2ai +## + + +module-whatis {genometools is a free collection of bioinformatics tools (in the realm of genome informatics) combined into a single binary named gt.} + +proc ModulesHelp { } { + puts stderr {Name : genometools} + puts stderr {Version: 1.6.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {genometools is a free collection of bioinformatics tools (in the realm} + puts stderr {of genome informatics) combined into a single binary named gt.} +} + +conflict genometools + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/genometools-1.6.2-p72a2aiirwnly5clkbprqeyiw6cvypwg/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/genometools-1.6.2-p72a2aiirwnly5clkbprqeyiw6cvypwg/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/genometools-1.6.2-p72a2aiirwnly5clkbprqeyiw6cvypwg/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/genometools-1.6.2-p72a2aiirwnly5clkbprqeyiw6cvypwg/include} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/genometools-1.6.2-p72a2aiirwnly5clkbprqeyiw6cvypwg/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/genometools-1.6.2-p72a2aiirwnly5clkbprqeyiw6cvypwg/.} +prepend-path --delim {:} XLOCALEDIR {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libx11-1.8.4-zaqf7dicjkl3i2sg2ciot74vsehx7k47/share/X11/locale} +prepend-path --delim {:} XDG_DATA_DIRS {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gobject-introspection-1.76.1-p7ovpnwgkhdrynjsf2zetdapj4hwgkkr/share} +prepend-path --delim {:} GI_TYPELIB_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gobject-introspection-1.76.1-p7ovpnwgkhdrynjsf2zetdapj4hwgkkr/lib/girepository-1.0} +prepend-path --delim {:} XDG_DATA_DIRS {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/harfbuzz-7.3.0-qydks2c5unty2nl6v6ppaloxifbjr6ov/share} +prepend-path --delim {:} GI_TYPELIB_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/harfbuzz-7.3.0-qydks2c5unty2nl6v6ppaloxifbjr6ov/lib/girepository-1.0} +prepend-path --delim {:} XDG_DATA_DIRS {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/pango-1.50.13-ulgoaxm2xovaz4xwfzaxj7vzs4mhlvpx/share} +prepend-path --delim {:} GI_TYPELIB_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/pango-1.50.13-ulgoaxm2xovaz4xwfzaxj7vzs4mhlvpx/lib/girepository-1.0} +setenv GENOMETOOLS_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/genometools-1.6.2-p72a2aiirwnly5clkbprqeyiw6cvypwg} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/genrich/0.6.1 b/modulefiles/hpccf/franklin/v0.21/software/genrich/0.6.1 new file mode 100644 index 00000000..f97649a4 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/genrich/0.6.1 @@ -0,0 +1,37 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:56.091638 +## +## genrich@0.6.1%gcc@11.4.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/tqlmavy +## + + +module-whatis {Genrich is a peak-caller for genomic enrichment assays.} + +proc ModulesHelp { } { + puts stderr {Name : genrich} + puts stderr {Version: 0.6.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Genrich is a peak-caller for genomic enrichment assays.} +} + +conflict genrich + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/genrich-0.6.1-tqlmavyniqt3v4mycou7bit3gvxzntay/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/genrich-0.6.1-tqlmavyniqt3v4mycou7bit3gvxzntay/.} +setenv GENRICH_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/genrich-0.6.1-tqlmavyniqt3v4mycou7bit3gvxzntay} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/gffcompare/0.12.6 b/modulefiles/hpccf/franklin/v0.21/software/gffcompare/0.12.6 new file mode 100644 index 00000000..7e0334f0 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/gffcompare/0.12.6 @@ -0,0 +1,43 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:56.137887 +## +## gffcompare@0.12.6%gcc@11.4.0 build_system=makefile patches=86d7701 arch=linux-ubuntu22.04-x86_64_v3/zst5cdb +## + + +module-whatis {Compare and evaluate the accuracy of RNA-Seq transcript assemblers (Cufflinks, Stringtie); collapse (merge) duplicate transcripts from multiple GTF/GFF3 files (e.g. resulted from assembly of different samples); classify transcripts from one or multiple GTF/GFF3 files as they relate to reference transcripts provided in a annotation file (also in GTF/GFF3 format)} + +proc ModulesHelp { } { + puts stderr {Name : gffcompare} + puts stderr {Version: 0.12.6} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Compare and evaluate the accuracy of RNA-Seq transcript assemblers} + puts stderr {(Cufflinks, Stringtie); collapse (merge) duplicate transcripts from} + puts stderr {multiple GTF/GFF3 files (e.g. resulted from assembly of different} + puts stderr {samples); classify transcripts from one or multiple GTF/GFF3 files as} + puts stderr {they relate to reference transcripts provided in a annotation file (also} + puts stderr {in GTF/GFF3 format) More details can be found in the paper: DOI:} + puts stderr {10.12688/f1000research.23297.1} +} + +conflict gffcompare + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gffcompare-0.12.6-zst5cdbvwmrx3j22y2m5pusqcyu6cfy3/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gffcompare-0.12.6-zst5cdbvwmrx3j22y2m5pusqcyu6cfy3/.} +setenv GFFCOMPARE_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gffcompare-0.12.6-zst5cdbvwmrx3j22y2m5pusqcyu6cfy3} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/gffread/0.12.7 b/modulefiles/hpccf/franklin/v0.21/software/gffread/0.12.7 new file mode 100644 index 00000000..c5084282 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/gffread/0.12.7 @@ -0,0 +1,39 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:56.173028 +## +## gffread@0.12.7%gcc@11.4.0 build_system=makefile patches=a25b092 arch=linux-ubuntu22.04-x86_64_v3/a6a5d3w +## + + +module-whatis {GFF/GTF utility providing format conversions, filtering, FASTA sequence extraction and more. The paper can be found at: DOI: 10.12688/f1000research.23297.1} + +proc ModulesHelp { } { + puts stderr {Name : gffread} + puts stderr {Version: 0.12.7} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {GFF/GTF utility providing format conversions, filtering, FASTA sequence} + puts stderr {extraction and more. The paper can be found at: DOI:} + puts stderr {10.12688/f1000research.23297.1} +} + +conflict gffread + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gffread-0.12.7-a6a5d3wcngbcz4zstyjsfq7oaf275aab/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gffread-0.12.7-a6a5d3wcngbcz4zstyjsfq7oaf275aab/.} +setenv GFFREAD_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gffread-0.12.7-a6a5d3wcngbcz4zstyjsfq7oaf275aab} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/ghostscript/10.0.0 b/modulefiles/hpccf/franklin/v0.21/software/ghostscript/10.0.0 new file mode 100644 index 00000000..ee974180 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/ghostscript/10.0.0 @@ -0,0 +1,48 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:56.292992 +## +## ghostscript@10.0.0%gcc@11.4.0~tesseract build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/mvpae5a +## +## Configure options: --disable-compile-inits --enable-dynamic --with-system-libtiff --without-tesseract +## + + +module-whatis {An interpreter for the PostScript language and for PDF.} + +proc ModulesHelp { } { + puts stderr {Name : ghostscript} + puts stderr {Version: 10.0.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {An interpreter for the PostScript language and for PDF.} +} + +conflict ghostscript + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ghostscript-10.0.0-mvpae5apwxyw6yjbx5thwkcm2ao7tucb/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ghostscript-10.0.0-mvpae5apwxyw6yjbx5thwkcm2ao7tucb/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ghostscript-10.0.0-mvpae5apwxyw6yjbx5thwkcm2ao7tucb/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ghostscript-10.0.0-mvpae5apwxyw6yjbx5thwkcm2ao7tucb/include} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ghostscript-10.0.0-mvpae5apwxyw6yjbx5thwkcm2ao7tucb/bin} +prepend-path --delim {:} MANPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ghostscript-10.0.0-mvpae5apwxyw6yjbx5thwkcm2ao7tucb/share/man} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ghostscript-10.0.0-mvpae5apwxyw6yjbx5thwkcm2ao7tucb/.} +prepend-path --delim {:} XDG_DATA_DIRS {/usr/share} +prepend-path --delim {:} GI_TYPELIB_PATH {/usr/lib/girepository-1.0} +prepend-path --delim {:} XLOCALEDIR {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libx11-1.8.4-zaqf7dicjkl3i2sg2ciot74vsehx7k47/share/X11/locale} +setenv GHOSTSCRIPT_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ghostscript-10.0.0-mvpae5apwxyw6yjbx5thwkcm2ao7tucb} +append-path --delim {:} MANPATH {} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/glimmer/3.02b b/modulefiles/hpccf/franklin/v0.21/software/glimmer/3.02b new file mode 100644 index 00000000..ea531143 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/glimmer/3.02b @@ -0,0 +1,38 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:56.569132 +## +## glimmer@3.02b%gcc@11.4.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/ekiimni +## + + +module-whatis {Glimmer is a system for finding genes in microbial DNA, especially the genomes of bacteria, archaea, and viruses.} + +proc ModulesHelp { } { + puts stderr {Name : glimmer} + puts stderr {Version: 3.02b} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Glimmer is a system for finding genes in microbial DNA, especially the} + puts stderr {genomes of bacteria, archaea, and viruses.} +} + +conflict glimmer + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/glimmer-3.02b-ekiimnioktkwld6mikix3yspsvgj6tzg/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/glimmer-3.02b-ekiimnioktkwld6mikix3yspsvgj6tzg/.} +setenv GLIMMER_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/glimmer-3.02b-ekiimnioktkwld6mikix3yspsvgj6tzg} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/gmp/6.2.1 b/modulefiles/hpccf/franklin/v0.21/software/gmp/6.2.1 new file mode 100644 index 00000000..d8ca9754 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/gmp/6.2.1 @@ -0,0 +1,44 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:56.601464 +## +## gmp@6.2.1%gcc@11.4.0+cxx build_system=autotools libs=shared,static patches=69ad2e2 arch=linux-ubuntu22.04-x86_64_v3/wxamwua +## +## Configure options: --enable-cxx --enable-shared --enable-static --with-pic +## + + +module-whatis {GMP is a free library for arbitrary precision arithmetic, operating on signed integers, rational numbers, and floating-point numbers.} + +proc ModulesHelp { } { + puts stderr {Name : gmp} + puts stderr {Version: 6.2.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {GMP is a free library for arbitrary precision arithmetic, operating on} + puts stderr {signed integers, rational numbers, and floating-point numbers.} +} + +conflict gmp + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gmp-6.2.1-wxamwua5b3il22ycpr4xf3auxw2m4ewq/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gmp-6.2.1-wxamwua5b3il22ycpr4xf3auxw2m4ewq/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gmp-6.2.1-wxamwua5b3il22ycpr4xf3auxw2m4ewq/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gmp-6.2.1-wxamwua5b3il22ycpr4xf3auxw2m4ewq/include} +prepend-path --delim {:} PKG_CONFIG_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gmp-6.2.1-wxamwua5b3il22ycpr4xf3auxw2m4ewq/lib/pkgconfig} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gmp-6.2.1-wxamwua5b3il22ycpr4xf3auxw2m4ewq/.} +setenv GMP_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gmp-6.2.1-wxamwua5b3il22ycpr4xf3auxw2m4ewq} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/gnuplot/5.4.3 b/modulefiles/hpccf/franklin/v0.21/software/gnuplot/5.4.3 new file mode 100644 index 00000000..e2e2118b --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/gnuplot/5.4.3 @@ -0,0 +1,49 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:56.679545 +## +## gnuplot@5.4.3%gcc@11.4.0~X~cairo+gd+libcerf~pbm~qt+readline~wx build_system=autotools patches=ad89f23 arch=linux-ubuntu22.04-x86_64_v3/kxljfwe +## +## Configure options: --disable-dependency-tracking --disable-silent-rules --without-tutorial --with-readline=/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/readline-8.2-jkh6v5ytaixrf2qoatx4knywvjprnybj --without-bitmap-terminals --without-x --with-qt=no --disable-wxwidgets --with-gd=/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libgd-2.3.3-b4peh57fb5sqmljndv55yzium6ggaxkt --without-cairo --with-libcerf --without-pdf --without-lua --without-latex --without-aquaterm +## + + +module-whatis {Gnuplot is a portable command-line driven graphing utility for Linux, OS/2, MS Windows, OSX, VMS, and many other platforms. The source code is copyrighted but freely distributed (i.e., you don't have to pay for it). It was originally created to allow scientists and students to visualize mathematical functions and data interactively, but has grown to support many non-interactive uses such as web scripting. It is also used as a plotting engine by third-party applications like Octave. Gnuplot has been supported and under active development since 1986} + +proc ModulesHelp { } { + puts stderr {Name : gnuplot} + puts stderr {Version: 5.4.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Gnuplot is a portable command-line driven graphing utility for Linux,} + puts stderr {OS/2, MS Windows, OSX, VMS, and many other platforms. The source code is} + puts stderr {copyrighted but freely distributed (i.e., you don't have to pay for it).} + puts stderr {It was originally created to allow scientists and students to visualize} + puts stderr {mathematical functions and data interactively, but has grown to support} + puts stderr {many non-interactive uses such as web scripting. It is also used as a} + puts stderr {plotting engine by third-party applications like Octave. Gnuplot has} + puts stderr {been supported and under active development since 1986} +} + +conflict gnuplot + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gnuplot-5.4.3-kxljfwev3kx37cu2tqw33m4jshjysgbs/bin} +prepend-path --delim {:} MANPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gnuplot-5.4.3-kxljfwev3kx37cu2tqw33m4jshjysgbs/share/man} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gnuplot-5.4.3-kxljfwev3kx37cu2tqw33m4jshjysgbs/.} +prepend-path --delim {:} XLOCALEDIR {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libx11-1.8.4-zkd3h7btls3gx3c3akcrwrwqd46l43i6/share/X11/locale} +setenv GNUPLOT_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gnuplot-5.4.3-kxljfwev3kx37cu2tqw33m4jshjysgbs} +append-path --delim {:} MANPATH {} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/gsl/2.7.1 b/modulefiles/hpccf/franklin/v0.21/software/gsl/2.7.1 new file mode 100644 index 00000000..afd6d2fd --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/gsl/2.7.1 @@ -0,0 +1,52 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:56.789276 +## +## gsl@2.7.1%gcc@11.4.0~external-cblas+pic+shared build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/62tbson +## +## Configure options: --enable-shared --with-pic +## + + +module-whatis {The GNU Scientific Library (GSL) is a numerical library for C and C++ programmers. It is free software under the GNU General Public License. The library provides a wide range of mathematical routines such as random number generators, special functions and least-squares fitting. There are over 1000 functions in total with an extensive test suite.} + +proc ModulesHelp { } { + puts stderr {Name : gsl} + puts stderr {Version: 2.7.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The GNU Scientific Library (GSL) is a numerical library for C and C++} + puts stderr {programmers. It is free software under the GNU General Public License.} + puts stderr {The library provides a wide range of mathematical routines such as} + puts stderr {random number generators, special functions and least-squares fitting.} + puts stderr {There are over 1000 functions in total with an extensive test suite.} +} + +conflict gsl + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gsl-2.7.1-62tbsonbxsd6dhe3jpct2jzlsvf7u5ev/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gsl-2.7.1-62tbsonbxsd6dhe3jpct2jzlsvf7u5ev/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gsl-2.7.1-62tbsonbxsd6dhe3jpct2jzlsvf7u5ev/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gsl-2.7.1-62tbsonbxsd6dhe3jpct2jzlsvf7u5ev/include} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gsl-2.7.1-62tbsonbxsd6dhe3jpct2jzlsvf7u5ev/bin} +prepend-path --delim {:} MANPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gsl-2.7.1-62tbsonbxsd6dhe3jpct2jzlsvf7u5ev/share/man} +prepend-path --delim {:} ACLOCAL_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gsl-2.7.1-62tbsonbxsd6dhe3jpct2jzlsvf7u5ev/share/aclocal} +prepend-path --delim {:} PKG_CONFIG_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gsl-2.7.1-62tbsonbxsd6dhe3jpct2jzlsvf7u5ev/lib/pkgconfig} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gsl-2.7.1-62tbsonbxsd6dhe3jpct2jzlsvf7u5ev/.} +setenv GSL_ROOT_DIR {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gsl-2.7.1-62tbsonbxsd6dhe3jpct2jzlsvf7u5ev} +setenv GSL_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gsl-2.7.1-62tbsonbxsd6dhe3jpct2jzlsvf7u5ev} +append-path --delim {:} MANPATH {} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/hdf5/1.14.1-2 b/modulefiles/hpccf/franklin/v0.21/software/hdf5/1.14.1-2 new file mode 100644 index 00000000..b6067314 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/hdf5/1.14.1-2 @@ -0,0 +1,47 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:56.868928 +## +## hdf5@1.14.1-2%gcc@11.4.0~cxx~fortran~hl~ipo~java~map+mpi+shared~szip~threadsafe+tools api=default build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/roj4mq3 +## +## Configure options: -DALLOW_UNSUPPORTED:BOOL=ON -DHDF5_BUILD_EXAMPLES:BOOL=OFF -DBUILD_TESTING:BOOL=OFF -DHDF5_ENABLE_MAP_API:BOOL=OFF -DHDF5_ENABLE_Z_LIB_SUPPORT:BOOL=ON -DHDF5_ENABLE_SZIP_SUPPORT:BOOL=OFF -DHDF5_ENABLE_SZIP_ENCODING:BOOL=OFF -DBUILD_SHARED_LIBS:BOOL=ON -DONLY_SHARED_LIBS:BOOL=OFF -DHDF5_ENABLE_PARALLEL:BOOL=ON -DHDF5_ENABLE_THREADSAFE:BOOL=OFF -DHDF5_BUILD_HL_LIB:BOOL=OFF -DHDF5_BUILD_CPP_LIB:BOOL=OFF -DHDF5_BUILD_FORTRAN:BOOL=OFF -DHDF5_BUILD_JAVA:BOOL=OFF -DHDF5_BUILD_TOOLS:BOOL=ON -DMPI_CXX_COMPILER:PATH=/share/apps/22.04/spack/environments/core/view/generic/openmpi-4.1.5/bin/mpic++ -DMPI_C_COMPILER:PATH=/share/apps/22.04/spack/environments/core/view/generic/openmpi-4.1.5/bin/mpicc +## + + +module-whatis {HDF5 is a data model, library, and file format for storing and managing data. It supports an unlimited variety of datatypes, and is designed for flexible and efficient I/O and for high volume and complex data. } + +proc ModulesHelp { } { + puts stderr {Name : hdf5} + puts stderr {Version: 1.14.1-2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {HDF5 is a data model, library, and file format for storing and managing} + puts stderr {data. It supports an unlimited variety of datatypes, and is designed for} + puts stderr {flexible and efficient I/O and for high volume and complex data.} +} + +conflict hdf5 + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/hdf5-1.14.1-2-roj4mq3hnrrs6drwcfjrxxbhs3zakjob/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/hdf5-1.14.1-2-roj4mq3hnrrs6drwcfjrxxbhs3zakjob/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/hdf5-1.14.1-2-roj4mq3hnrrs6drwcfjrxxbhs3zakjob/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/hdf5-1.14.1-2-roj4mq3hnrrs6drwcfjrxxbhs3zakjob/include} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/hdf5-1.14.1-2-roj4mq3hnrrs6drwcfjrxxbhs3zakjob/bin} +prepend-path --delim {:} PKG_CONFIG_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/hdf5-1.14.1-2-roj4mq3hnrrs6drwcfjrxxbhs3zakjob/lib/pkgconfig} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/hdf5-1.14.1-2-roj4mq3hnrrs6drwcfjrxxbhs3zakjob/.} +append-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/hdf5-1.14.1-2-roj4mq3hnrrs6drwcfjrxxbhs3zakjob/lib} +setenv HDF5_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/hdf5-1.14.1-2-roj4mq3hnrrs6drwcfjrxxbhs3zakjob} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/hh-suite/3.3.0 b/modulefiles/hpccf/franklin/v0.21/software/hh-suite/3.3.0 new file mode 100644 index 00000000..e510bb15 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/hh-suite/3.3.0 @@ -0,0 +1,40 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:56.962990 +## +## hh-suite@3.3.0%gcc@11.4.0~ipo+mpi build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/l3zft2s +## + + +module-whatis {HH-suite is a widely used open source software suite for sensitive sequence similarity searches and protein fold recognition. It is based on pairwise alignment of profile Hidden Markov models (HMMs), which represent multiple sequence alignments of homologous proteins.} + +proc ModulesHelp { } { + puts stderr {Name : hh-suite} + puts stderr {Version: 3.3.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {HH-suite is a widely used open source software suite for sensitive} + puts stderr {sequence similarity searches and protein fold recognition. It is based} + puts stderr {on pairwise alignment of profile Hidden Markov models (HMMs), which} + puts stderr {represent multiple sequence alignments of homologous proteins.} +} + +conflict hh-suite + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/hh-suite-3.3.0-l3zft2szajrdp43iv22zsrzjqq5463bk/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/hh-suite-3.3.0-l3zft2szajrdp43iv22zsrzjqq5463bk/.} +setenv HH_SUITE_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/hh-suite-3.3.0-l3zft2szajrdp43iv22zsrzjqq5463bk} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/hisat2/2.2.1 b/modulefiles/hpccf/franklin/v0.21/software/hisat2/2.2.1 new file mode 100644 index 00000000..325b4398 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/hisat2/2.2.1 @@ -0,0 +1,40 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:57.037348 +## +## hisat2@2.2.1%gcc@11.4.0~sra build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/fvowikc +## + + +module-whatis {HISAT2 is a fast and sensitive alignment program for mapping next-generation sequencing reads (whole-genome, transcriptome, and exome sequencing data) against the general human population (as well as against a single reference genome).} + +proc ModulesHelp { } { + puts stderr {Name : hisat2} + puts stderr {Version: 2.2.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {HISAT2 is a fast and sensitive alignment program for mapping next-} + puts stderr {generation sequencing reads (whole-genome, transcriptome, and exome} + puts stderr {sequencing data) against the general human population (as well as} + puts stderr {against a single reference genome).} +} + +conflict hisat2 + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/hisat2-2.2.1-fvowikcqs5syeqrlro6llzzvfyqyhqpn/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/hisat2-2.2.1-fvowikcqs5syeqrlro6llzzvfyqyhqpn/.} +setenv HISAT2_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/hisat2-2.2.1-fvowikcqs5syeqrlro6llzzvfyqyhqpn} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/hmmer/3.4 b/modulefiles/hpccf/franklin/v0.21/software/hmmer/3.4 new file mode 100644 index 00000000..6bcea8e4 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/hmmer/3.4 @@ -0,0 +1,41 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:57.112809 +## +## hmmer@3.4%gcc@11.4.0~gsl+mpi build_system=generic arch=linux-ubuntu22.04-x86_64_v3/dfkhduk +## + + +module-whatis {HMMER is used for searching sequence databases for sequence homologs, and for making sequence alignments. It implements methods using probabilistic models called profile hidden Markov models (profile HMMs). } + +proc ModulesHelp { } { + puts stderr {Name : hmmer} + puts stderr {Version: 3.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {HMMER is used for searching sequence databases for sequence homologs,} + puts stderr {and for making sequence alignments. It implements methods using} + puts stderr {probabilistic models called profile hidden Markov models (profile HMMs).} +} + +conflict hmmer + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/hmmer-3.4-dfkhduk5hl4pjyijcifiln3gkfkljz2m/bin} +prepend-path --delim {:} MANPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/hmmer-3.4-dfkhduk5hl4pjyijcifiln3gkfkljz2m/share/man} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/hmmer-3.4-dfkhduk5hl4pjyijcifiln3gkfkljz2m/.} +setenv HMMER_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/hmmer-3.4-dfkhduk5hl4pjyijcifiln3gkfkljz2m} +append-path --delim {:} MANPATH {} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/homer/4.11.1 b/modulefiles/hpccf/franklin/v0.21/software/homer/4.11.1 new file mode 100644 index 00000000..f322b0ce --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/homer/4.11.1 @@ -0,0 +1,39 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:57.200296 +## +## homer@4.11.1%gcc@11.4.0~data build_system=generic arch=linux-ubuntu22.04-x86_64_v3/66jbz3g +## + + +module-whatis {Software for motif discovery and next generation sequencing analysis} + +proc ModulesHelp { } { + puts stderr {Name : homer} + puts stderr {Version: 4.11.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Software for motif discovery and next generation sequencing analysis} +} + +conflict homer + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/homer-4.11.1-66jbz3gqjvpauefpmmuzxeorzn5ak2s2/lib} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/homer-4.11.1-66jbz3gqjvpauefpmmuzxeorzn5ak2s2/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/homer-4.11.1-66jbz3gqjvpauefpmmuzxeorzn5ak2s2/.} +setenv R_HOME {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/r-4.3.0-vcbztcvlh4dmxlawalqlndetncvnfmer/rlib/R} +setenv HOMER_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/homer-4.11.1-66jbz3gqjvpauefpmmuzxeorzn5ak2s2} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/htslib/1.17 b/modulefiles/hpccf/franklin/v0.21/software/htslib/1.17 new file mode 100644 index 00000000..391d420b --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/htslib/1.17 @@ -0,0 +1,52 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:58.366181 +## +## htslib@1.17%gcc@11.4.0+libcurl+libdeflate build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/vssbqmt +## +## Configure options: --enable-libcurl --enable-libdeflate +## + + +module-whatis {C library for high-throughput sequencing data formats.} + +proc ModulesHelp { } { + puts stderr {Name : htslib} + puts stderr {Version: 1.17} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {C library for high-throughput sequencing data formats.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load bzip2/1.0.8 +} else { + depends-on bzip2/1.0.8 +} +prereq bzip2/1.0.8 +conflict htslib + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/htslib-1.17-vssbqmt2acghbxznq2fpdtgupgxijzyz/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/htslib-1.17-vssbqmt2acghbxznq2fpdtgupgxijzyz/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/htslib-1.17-vssbqmt2acghbxznq2fpdtgupgxijzyz/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/htslib-1.17-vssbqmt2acghbxznq2fpdtgupgxijzyz/include} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/htslib-1.17-vssbqmt2acghbxznq2fpdtgupgxijzyz/bin} +prepend-path --delim {:} MANPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/htslib-1.17-vssbqmt2acghbxznq2fpdtgupgxijzyz/share/man} +prepend-path --delim {:} PKG_CONFIG_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/htslib-1.17-vssbqmt2acghbxznq2fpdtgupgxijzyz/lib/pkgconfig} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/htslib-1.17-vssbqmt2acghbxznq2fpdtgupgxijzyz/.} +setenv HTSLIB_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/htslib-1.17-vssbqmt2acghbxznq2fpdtgupgxijzyz} +append-path --delim {:} MANPATH {} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/igv/2.12.3 b/modulefiles/hpccf/franklin/v0.21/software/igv/2.12.3 new file mode 100644 index 00000000..6b2e2416 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/igv/2.12.3 @@ -0,0 +1,41 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:58.461683 +## +## igv@2.12.3%gcc@11.4.0~igvtools build_system=generic arch=linux-ubuntu22.04-x86_64_v3/jpb4hsu +## + + +module-whatis {The Integrative Genomics Viewer (IGV) is a high-performance visualization tool for interactive exploration of large, integrated genomic datasets. It supports a wide variety of data types, including array-based and next-generation sequence data, and genomic annotations.} + +proc ModulesHelp { } { + puts stderr {Name : igv} + puts stderr {Version: 2.12.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The Integrative Genomics Viewer (IGV) is a high-performance} + puts stderr {visualization tool for interactive exploration of large, integrated} + puts stderr {genomic datasets. It supports a wide variety of data types, including} + puts stderr {array-based and next-generation sequence data, and genomic annotations.} +} + +conflict igv + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/igv-2.12.3-jpb4hsuf7g4ndui7tunwuczdg7gi5z2p/lib} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/igv-2.12.3-jpb4hsuf7g4ndui7tunwuczdg7gi5z2p/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/igv-2.12.3-jpb4hsuf7g4ndui7tunwuczdg7gi5z2p/.} +setenv IGV_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/igv-2.12.3-jpb4hsuf7g4ndui7tunwuczdg7gi5z2p} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/infernal/1.1.4 b/modulefiles/hpccf/franklin/v0.21/software/infernal/1.1.4 new file mode 100644 index 00000000..8a636d02 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/infernal/1.1.4 @@ -0,0 +1,44 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:58.509497 +## +## infernal@1.1.4%gcc@11.4.0~mpi build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/vjrwbus +## +## Configure options: --disable-mpi +## + + +module-whatis {Infernal (INFERence of RNA ALignment) is for searching DNA sequence databases for RNA structure and sequence similarities. It is an implementation of a special case of profile stochastic context-free grammars called covariance models (CMs).} + +proc ModulesHelp { } { + puts stderr {Name : infernal} + puts stderr {Version: 1.1.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Infernal (INFERence of RNA ALignment) is for searching DNA sequence} + puts stderr {databases for RNA structure and sequence similarities. It is an} + puts stderr {implementation of a special case of profile stochastic context-free} + puts stderr {grammars called covariance models (CMs).} +} + +conflict infernal + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/infernal-1.1.4-vjrwbuskdku2gqnc6fo2ejh5u4autvdv/bin} +prepend-path --delim {:} MANPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/infernal-1.1.4-vjrwbuskdku2gqnc6fo2ejh5u4autvdv/share/man} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/infernal-1.1.4-vjrwbuskdku2gqnc6fo2ejh5u4autvdv/.} +setenv INFERNAL_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/infernal-1.1.4-vjrwbuskdku2gqnc6fo2ejh5u4autvdv} +append-path --delim {:} MANPATH {} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/intel-oneapi-mkl/2023.2.0+intel b/modulefiles/hpccf/franklin/v0.21/software/intel-oneapi-mkl/2023.2.0+intel new file mode 100644 index 00000000..87443efc --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/intel-oneapi-mkl/2023.2.0+intel @@ -0,0 +1,61 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:58.557395 +## +## intel-oneapi-mkl@2023.2.0%oneapi@2023.2.0~cluster+envmods~ilp64+shared build_system=generic mpi_family=none threads=none arch=linux-ubuntu22.04-skylake_avx512/fktonyd +## + + +module-whatis {Intel oneAPI Math Kernel Library (Intel oneMKL; formerly Intel Math Kernel Library or Intel MKL), is a library of optimized math routines for science, engineering, and financial applications. Core math functions include BLAS, LAPACK, ScaLAPACK, sparse solvers, fast Fourier transforms, and vector math.} + +proc ModulesHelp { } { + puts stderr {Name : intel-oneapi-mkl} + puts stderr {Version: 2023.2.0} + puts stderr {Target : skylake_avx512} + puts stderr {} + puts stderr {Intel oneAPI Math Kernel Library (Intel oneMKL; formerly Intel Math} + puts stderr {Kernel Library or Intel MKL), is a library of optimized math routines} + puts stderr {for science, engineering, and financial applications. Core math} + puts stderr {functions include BLAS, LAPACK, ScaLAPACK, sparse solvers, fast Fourier} + puts stderr {transforms, and vector math. LICENSE INFORMATION: By downloading and} + puts stderr {using this software, you agree to the terms and conditions of the} + puts stderr {software license agreements at https://intel.ly/393CijO.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load intel-oneapi-tbb/2021.10.0+intel +} else { + depends-on intel-oneapi-tbb/2021.10.0+intel +} +prereq intel-oneapi-tbb/2021.10.0+intel +conflict intel-oneapi-mkl + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/intel-oneapi-mkl-2023.2.0-fktonydcczkb4imn52isghi2xogyein5/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/intel-oneapi-mkl-2023.2.0-fktonydcczkb4imn52isghi2xogyein5/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/intel-oneapi-mkl-2023.2.0-fktonydcczkb4imn52isghi2xogyein5/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/intel-oneapi-mkl-2023.2.0-fktonydcczkb4imn52isghi2xogyein5/include} +prepend-path --delim {:} PKG_CONFIG_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/intel-oneapi-mkl-2023.2.0-fktonydcczkb4imn52isghi2xogyein5/lib/pkgconfig} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/intel-oneapi-mkl-2023.2.0-fktonydcczkb4imn52isghi2xogyein5/.} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/intel-oneapi-mkl-2023.2.0-fktonydcczkb4imn52isghi2xogyein5/mkl/2023.2.0/include} +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/intel-oneapi-mkl-2023.2.0-fktonydcczkb4imn52isghi2xogyein5/mkl/2023.2.0/lib/intel64} +prepend-path --delim {:} LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/intel-oneapi-mkl-2023.2.0-fktonydcczkb4imn52isghi2xogyein5/mkl/2023.2.0/lib/intel64:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/intel-oneapi-mkl-2023.2.0-fktonydcczkb4imn52isghi2xogyein5/mkl/2023.2.0/lib/intel64:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/intel-oneapi-tbb-2021.10.0-k5lvx7b7dqe2w5tn5n333jahyn5zohuf/tbb/2021.10.0/env/../lib/intel64/gcc4.8} +append-path --delim {:} NLSPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/intel-oneapi-mkl-2023.2.0-fktonydcczkb4imn52isghi2xogyein5/mkl/2023.2.0/lib/intel64/locale/%l_%t/%N} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/intel-oneapi-mkl-2023.2.0-fktonydcczkb4imn52isghi2xogyein5/mkl/2023.2.0/bin/intel64} +prepend-path --delim {:} PKG_CONFIG_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/intel-oneapi-mkl-2023.2.0-fktonydcczkb4imn52isghi2xogyein5/mkl/2023.2.0/lib/pkgconfig:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/intel-oneapi-mkl-2023.2.0-fktonydcczkb4imn52isghi2xogyein5/mkl/2023.2.0/lib/pkgconfig:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/intel-oneapi-mkl-2023.2.0-fktonydcczkb4imn52isghi2xogyein5/lib/pkgconfig:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/intel-oneapi-tbb-2021.10.0-k5lvx7b7dqe2w5tn5n333jahyn5zohuf/tbb/2021.10.0/env/../lib/pkgconfig:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/intel-oneapi-tbb-2021.10.0-k5lvx7b7dqe2w5tn5n333jahyn5zohuf/lib/pkgconfig:/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/openmpi-4.1.5-joyc7douqjxwc6rga37uhhrbh34tsod5/lib/pkgconfig:/share/apps/22.04/spack/opt/core/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ucx-1.14.1-5dulpdsnm3hap6cd4kszsvhqz564po7m/lib/pkgconfig} +append-path --delim { } __INTEL_POST_CFLAGS {-Wl,-rpath,/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/intel-oneapi-mkl-2023.2.0-fktonydcczkb4imn52isghi2xogyein5/mkl/2023.2.0/lib/intel64} +append-path --delim { } __INTEL_POST_FFLAGS {-Wl,-rpath,/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/intel-oneapi-mkl-2023.2.0-fktonydcczkb4imn52isghi2xogyein5/mkl/2023.2.0/lib/intel64} +setenv INTEL_ONEAPI_MKL_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/intel-oneapi-mkl-2023.2.0-fktonydcczkb4imn52isghi2xogyein5} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/intel-oneapi-tbb/2021.10.0 b/modulefiles/hpccf/franklin/v0.21/software/intel-oneapi-tbb/2021.10.0 new file mode 100644 index 00000000..eb6b02ef --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/intel-oneapi-tbb/2021.10.0 @@ -0,0 +1,52 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:58.802029 +## +## intel-oneapi-tbb@2021.10.0%gcc@11.4.0+envmods build_system=generic arch=linux-ubuntu22.04-x86_64_v3/zogj5qg +## + + +module-whatis {Intel oneAPI Threading Building Blocks (oneTBB) is a flexible performance library that simplifies the work of adding parallelism to complex applications across accelerated architectures, even if you are not a threading expert.} + +proc ModulesHelp { } { + puts stderr {Name : intel-oneapi-tbb} + puts stderr {Version: 2021.10.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Intel oneAPI Threading Building Blocks (oneTBB) is a flexible} + puts stderr {performance library that simplifies the work of adding parallelism to} + puts stderr {complex applications across accelerated architectures, even if you are} + puts stderr {not a threading expert. LICENSE INFORMATION: By downloading and using} + puts stderr {this software, you agree to the terms and conditions of the software} + puts stderr {license agreements at https://intel.ly/393CijO.} +} + +conflict intel-oneapi-tbb + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-tbb-2021.10.0-zogj5qg7wqngmwffpgzkupjj36vn5yha/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-tbb-2021.10.0-zogj5qg7wqngmwffpgzkupjj36vn5yha/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-tbb-2021.10.0-zogj5qg7wqngmwffpgzkupjj36vn5yha/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-tbb-2021.10.0-zogj5qg7wqngmwffpgzkupjj36vn5yha/include} +prepend-path --delim {:} PKG_CONFIG_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-tbb-2021.10.0-zogj5qg7wqngmwffpgzkupjj36vn5yha/lib/pkgconfig} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-tbb-2021.10.0-zogj5qg7wqngmwffpgzkupjj36vn5yha/.} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-tbb-2021.10.0-zogj5qg7wqngmwffpgzkupjj36vn5yha/tbb/2021.10.0/env/..} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-tbb-2021.10.0-zogj5qg7wqngmwffpgzkupjj36vn5yha/tbb/2021.10.0/env/../include} +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-tbb-2021.10.0-zogj5qg7wqngmwffpgzkupjj36vn5yha/tbb/2021.10.0/env/../lib/intel64/gcc4.8} +prepend-path --delim {:} LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-tbb-2021.10.0-zogj5qg7wqngmwffpgzkupjj36vn5yha/tbb/2021.10.0/env/../lib/intel64/gcc4.8} +prepend-path --delim {:} PKG_CONFIG_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-tbb-2021.10.0-zogj5qg7wqngmwffpgzkupjj36vn5yha/tbb/2021.10.0/env/../lib/pkgconfig} +setenv TBBROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-tbb-2021.10.0-zogj5qg7wqngmwffpgzkupjj36vn5yha/tbb/2021.10.0/env/..} +setenv INTEL_ONEAPI_TBB_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-tbb-2021.10.0-zogj5qg7wqngmwffpgzkupjj36vn5yha} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/intel-oneapi-tbb/2021.10.0+amd b/modulefiles/hpccf/franklin/v0.21/software/intel-oneapi-tbb/2021.10.0+amd new file mode 100644 index 00000000..6c9bbf14 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/intel-oneapi-tbb/2021.10.0+amd @@ -0,0 +1,52 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:59.031532 +## +## intel-oneapi-tbb@2021.10.0%gcc@11.4.0+envmods build_system=generic arch=linux-ubuntu22.04-zen2/7rffg26 +## + + +module-whatis {Intel oneAPI Threading Building Blocks (oneTBB) is a flexible performance library that simplifies the work of adding parallelism to complex applications across accelerated architectures, even if you are not a threading expert.} + +proc ModulesHelp { } { + puts stderr {Name : intel-oneapi-tbb} + puts stderr {Version: 2021.10.0} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {Intel oneAPI Threading Building Blocks (oneTBB) is a flexible} + puts stderr {performance library that simplifies the work of adding parallelism to} + puts stderr {complex applications across accelerated architectures, even if you are} + puts stderr {not a threading expert. LICENSE INFORMATION: By downloading and using} + puts stderr {this software, you agree to the terms and conditions of the software} + puts stderr {license agreements at https://intel.ly/393CijO.} +} + +conflict intel-oneapi-tbb + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/intel-oneapi-tbb-2021.10.0-7rffg26lfrohi6hgwgtm4v36kn7zcr6m/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/intel-oneapi-tbb-2021.10.0-7rffg26lfrohi6hgwgtm4v36kn7zcr6m/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/intel-oneapi-tbb-2021.10.0-7rffg26lfrohi6hgwgtm4v36kn7zcr6m/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/intel-oneapi-tbb-2021.10.0-7rffg26lfrohi6hgwgtm4v36kn7zcr6m/include} +prepend-path --delim {:} PKG_CONFIG_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/intel-oneapi-tbb-2021.10.0-7rffg26lfrohi6hgwgtm4v36kn7zcr6m/lib/pkgconfig} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/intel-oneapi-tbb-2021.10.0-7rffg26lfrohi6hgwgtm4v36kn7zcr6m/.} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/intel-oneapi-tbb-2021.10.0-7rffg26lfrohi6hgwgtm4v36kn7zcr6m/tbb/2021.10.0/env/..} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/intel-oneapi-tbb-2021.10.0-7rffg26lfrohi6hgwgtm4v36kn7zcr6m/tbb/2021.10.0/env/../include} +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/intel-oneapi-tbb-2021.10.0-7rffg26lfrohi6hgwgtm4v36kn7zcr6m/tbb/2021.10.0/env/../lib/intel64/gcc4.8} +prepend-path --delim {:} LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/intel-oneapi-tbb-2021.10.0-7rffg26lfrohi6hgwgtm4v36kn7zcr6m/tbb/2021.10.0/env/../lib/intel64/gcc4.8} +prepend-path --delim {:} PKG_CONFIG_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/intel-oneapi-tbb-2021.10.0-7rffg26lfrohi6hgwgtm4v36kn7zcr6m/tbb/2021.10.0/env/../lib/pkgconfig} +setenv TBBROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/intel-oneapi-tbb-2021.10.0-7rffg26lfrohi6hgwgtm4v36kn7zcr6m/tbb/2021.10.0/env/..} +setenv INTEL_ONEAPI_TBB_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/intel-oneapi-tbb-2021.10.0-7rffg26lfrohi6hgwgtm4v36kn7zcr6m} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/intel-oneapi-tbb/2021.10.0+intel b/modulefiles/hpccf/franklin/v0.21/software/intel-oneapi-tbb/2021.10.0+intel new file mode 100644 index 00000000..0813ae40 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/intel-oneapi-tbb/2021.10.0+intel @@ -0,0 +1,53 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:59.269555 +## +## intel-oneapi-tbb@2021.10.0%oneapi@2023.2.0+envmods build_system=generic arch=linux-ubuntu22.04-skylake_avx512/k5lvx7b +## + + +module-whatis {Intel oneAPI Threading Building Blocks (oneTBB) is a flexible performance library that simplifies the work of adding parallelism to complex applications across accelerated architectures, even if you are not a threading expert.} + +proc ModulesHelp { } { + puts stderr {Name : intel-oneapi-tbb} + puts stderr {Version: 2021.10.0} + puts stderr {Target : skylake_avx512} + puts stderr {} + puts stderr {Intel oneAPI Threading Building Blocks (oneTBB) is a flexible} + puts stderr {performance library that simplifies the work of adding parallelism to} + puts stderr {complex applications across accelerated architectures, even if you are} + puts stderr {not a threading expert. LICENSE INFORMATION: By downloading and using} + puts stderr {this software, you agree to the terms and conditions of the software} + puts stderr {license agreements at https://intel.ly/393CijO.} +} + +conflict intel-oneapi-tbb + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/intel-oneapi-tbb-2021.10.0-k5lvx7b7dqe2w5tn5n333jahyn5zohuf/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/intel-oneapi-tbb-2021.10.0-k5lvx7b7dqe2w5tn5n333jahyn5zohuf/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/intel-oneapi-tbb-2021.10.0-k5lvx7b7dqe2w5tn5n333jahyn5zohuf/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/intel-oneapi-tbb-2021.10.0-k5lvx7b7dqe2w5tn5n333jahyn5zohuf/include} +prepend-path --delim {:} PKG_CONFIG_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/intel-oneapi-tbb-2021.10.0-k5lvx7b7dqe2w5tn5n333jahyn5zohuf/lib/pkgconfig} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/intel-oneapi-tbb-2021.10.0-k5lvx7b7dqe2w5tn5n333jahyn5zohuf/.} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/intel-oneapi-tbb-2021.10.0-k5lvx7b7dqe2w5tn5n333jahyn5zohuf/tbb/2021.10.0/env/..} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/intel-oneapi-tbb-2021.10.0-k5lvx7b7dqe2w5tn5n333jahyn5zohuf/tbb/2021.10.0/env/../include} +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/intel-oneapi-tbb-2021.10.0-k5lvx7b7dqe2w5tn5n333jahyn5zohuf/tbb/2021.10.0/env/../lib/intel64/gcc4.8} +append-path --delim {:} LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/intel-oneapi-mkl-2023.2.0-fktonydcczkb4imn52isghi2xogyein5/mkl/2023.2.0/lib/intel64} +append-path --delim {:} LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/intel-oneapi-tbb-2021.10.0-k5lvx7b7dqe2w5tn5n333jahyn5zohuf/tbb/2021.10.0/env/../lib/intel64/gcc4.8} +prepend-path --delim {:} LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/intel-oneapi-tbb-2021.10.0-k5lvx7b7dqe2w5tn5n333jahyn5zohuf/tbb/2021.10.0/env/../lib/intel64/gcc4.8} +prepend-path --delim {:} PKG_CONFIG_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/intel-oneapi-tbb-2021.10.0-k5lvx7b7dqe2w5tn5n333jahyn5zohuf/tbb/2021.10.0/env/../lib/pkgconfig} +setenv INTEL_ONEAPI_TBB_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-skylake_avx512/oneapi-2023.2.0/intel-oneapi-tbb-2021.10.0-k5lvx7b7dqe2w5tn5n333jahyn5zohuf} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/intel-oneapi-tbb/default b/modulefiles/hpccf/franklin/v0.21/software/intel-oneapi-tbb/default new file mode 120000 index 00000000..b37e3f11 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/intel-oneapi-tbb/default @@ -0,0 +1 @@ +/share/apps/22.04/modulefiles/spack/software/intel-oneapi-tbb/2021.10.0+amd \ No newline at end of file diff --git a/modulefiles/hpccf/franklin/v0.21/software/interproscan/4.8 b/modulefiles/hpccf/franklin/v0.21/software/interproscan/4.8 new file mode 100644 index 00000000..0449b4d1 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/interproscan/4.8 @@ -0,0 +1,45 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:06:59.586180 +## +## interproscan@4.8%gcc@11.4.0~databases build_system=generic patches=a243277,c90e3d6 arch=linux-ubuntu22.04-x86_64_v3/cth5dhw +## + + +module-whatis {InterProScan is the software package that allows sequences (protein and nucleic) to be scanned against InterPro's signatures. Signatures are predictive models, provided by several different databases, that make up the InterPro consortium. By default this does not download all the databases you likely want, you'll either want to build with +databases or download the data archive for the version you installed to a separate location and modify interproscan.properties} + +proc ModulesHelp { } { + puts stderr {Name : interproscan} + puts stderr {Version: 4.8} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {InterProScan is the software package that allows sequences (protein and} + puts stderr {nucleic) to be scanned against InterPro's signatures. Signatures are} + puts stderr {predictive models, provided by several different databases, that make up} + puts stderr {the InterPro consortium. By default this does not download all the} + puts stderr {databases you likely want, you'll either want to build with +databases} + puts stderr {or download the data archive for the version you installed to a separate} + puts stderr {location and modify interproscan.properties} +} + +conflict interproscan + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/interproscan-4.8-cth5dhwkgtro4awba4jkyb36tsufdyhq/lib} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/interproscan-4.8-cth5dhwkgtro4awba4jkyb36tsufdyhq/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/interproscan-4.8-cth5dhwkgtro4awba4jkyb36tsufdyhq/.} +prepend-path --delim {:} PERL5LIB {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-cgi-4.56-gjtchlrq7tvukywcxghc6omqwwvujcha/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-html-parser-3.72-gzf4cxbun4apc2u5jdpculaqsuqexmqu/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-html-tagset-3.20-ethpjczwe6s7uxm63h4umtjmje6abd2n/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-db-file-1.858-eo6ficiriej7ozy2jwvk4fglymub5dnj/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-io-string-1.08-epoalwv5tibo3mq7l4zmb4vt3cy6ibaw/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-io-stringy-2.111-qwb6tnjliwgaup6vweh4vz45k5kc22qd/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-mailtools-2.21-tpdmvqlmwgraaqhvu67s5kml4dqvxwuo/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-timedate-2.30-taj7egxtg47izfq7khzzffhm5s5moops/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-xml-parser-2.46-4s7gqlvv2qhuwaex7wu364cdy2kpoy7q/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-libwww-perl-6.68-hvqainaa2tmfic7fhrem7ubxm2yk45ij/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-clone-0.46-qvghnmvcsvkjlenivukbbv5ea7zfh7sj/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-encode-locale-1.05-i3yu5cubfljgrfrn2jidhaooexy43d4l/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-file-listing-6.04-fq4m3rsfoc7mue7i6clsqzzgbeonv4ko/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-http-date-6.02-uj7noibxo6m4lh5nyku7knjhl7xowazv/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-http-cookies-6.10-xh2s5vjlca6hfuxbete2622tij7gzpng/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-http-message-6.44-mogcd3b3u6h5scsfv5wqdhvgtrv26yrs/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-io-html-1.004-aznx2hxrouq2jhbbz2a73o4eb4txalty/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-lwp-mediatypes-6.02-ydjxjaywnstf7lawjacfjlyt5vlj7dhx/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-try-tiny-0.31-l2hiyji7bj3ou3fixu4ed42a3w7ia4kn/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-uri-5.08-m5ahizgcnwspsjcfnzryoy6rxhcf55bg/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-http-daemon-6.01-gfrosn3r4nbeach6j3wmqbldrmme5scl/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-http-negotiate-6.01-4coqv76cecnps6mkigbatvlnffxicnpn/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-net-http-6.22-pc245egcgt2yj5bljdxgyhvte2jbirsc/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-www-robotrules-6.02-uplnyrnxrngag76gexmcr3dipz4gksrj/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-xml-quote-1.02-pvkivlg27asjpgbfvx47wsfd5l6fjizn/lib/perl5} +setenv INTERPROSCAN_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/interproscan-4.8-cth5dhwkgtro4awba4jkyb36tsufdyhq} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/iq-tree/2.2.2.7 b/modulefiles/hpccf/franklin/v0.21/software/iq-tree/2.2.2.7 new file mode 100644 index 00000000..cfeeb009 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/iq-tree/2.2.2.7 @@ -0,0 +1,39 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:00.049945 +## +## iq-tree@2.2.2.7%gcc@11.4.0~ipo+lsd2~mpi+openmp build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/btydlaw +## +## Configure options: -DUSE_LSD2=ON -DIQTREE_FLAGS=omp +## + + +module-whatis {IQ-TREE Efficient software for phylogenomic inference} + +proc ModulesHelp { } { + puts stderr {Name : iq-tree} + puts stderr {Version: 2.2.2.7} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {IQ-TREE Efficient software for phylogenomic inference} +} + +conflict iq-tree + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/iq-tree-2.2.2.7-btydlaw5r3eca4vcpyhujnu3fmftv2hd/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/iq-tree-2.2.2.7-btydlaw5r3eca4vcpyhujnu3fmftv2hd/.} +setenv IQ_TREE_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/iq-tree-2.2.2.7-btydlaw5r3eca4vcpyhujnu3fmftv2hd} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/iqtree2/2.2.2 b/modulefiles/hpccf/franklin/v0.21/software/iqtree2/2.2.2 new file mode 100644 index 00000000..7cdec436 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/iqtree2/2.2.2 @@ -0,0 +1,37 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:00.170988 +## +## iqtree2@2.2.2%gcc@11.4.0~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/riuyhyf +## + + +module-whatis {Efficient and versatile phylogenomic software by maximum likelihood} + +proc ModulesHelp { } { + puts stderr {Name : iqtree2} + puts stderr {Version: 2.2.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Efficient and versatile phylogenomic software by maximum likelihood} +} + +conflict iqtree2 + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/iqtree2-2.2.2-riuyhyfj77sdvcu7mgzrxxkt3xto6kw7/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/iqtree2-2.2.2-riuyhyfj77sdvcu7mgzrxxkt3xto6kw7/.} +setenv IQTREE2_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/iqtree2-2.2.2-riuyhyfj77sdvcu7mgzrxxkt3xto6kw7} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/jags/4.3.0 b/modulefiles/hpccf/franklin/v0.21/software/jags/4.3.0 new file mode 100644 index 00000000..de3840df --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/jags/4.3.0 @@ -0,0 +1,48 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:00.276463 +## +## jags@4.3.0%gcc@11.4.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/npkbl6k +## +## Configure options: --with-blas=-L/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-mkl-2020.4.304-gz76uuqigemcbedryzt22kcatjdsdryh/compilers_and_libraries_2020.4.304/linux/mkl/lib/intel64 -L/lib/x86_64-linux-gnu -lmkl_intel_lp64 -lmkl_sequential -lmkl_core -lm --with-lapack=-L/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-mkl-2020.4.304-gz76uuqigemcbedryzt22kcatjdsdryh/compilers_and_libraries_2020.4.304/linux/mkl/lib/intel64 -L/lib/x86_64-linux-gnu -lmkl_intel_lp64 -lmkl_sequential -lmkl_core -lm +## + + +module-whatis {JAGS is Just Another Gibbs Sampler. It is a program for analysis of Bayesian hierarchical models using Markov Chain Monte Carlo (MCMC) simulation not wholly unlike BUGS} + +proc ModulesHelp { } { + puts stderr {Name : jags} + puts stderr {Version: 4.3.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {JAGS is Just Another Gibbs Sampler. It is a program for analysis of} + puts stderr {Bayesian hierarchical models using Markov Chain Monte Carlo (MCMC)} + puts stderr {simulation not wholly unlike BUGS} +} + +conflict jags + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/jags-4.3.0-npkbl6ki6cyzxncqc3jqnlp4zdgrqd5y/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/jags-4.3.0-npkbl6ki6cyzxncqc3jqnlp4zdgrqd5y/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/jags-4.3.0-npkbl6ki6cyzxncqc3jqnlp4zdgrqd5y/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/jags-4.3.0-npkbl6ki6cyzxncqc3jqnlp4zdgrqd5y/include} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/jags-4.3.0-npkbl6ki6cyzxncqc3jqnlp4zdgrqd5y/bin} +prepend-path --delim {:} MANPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/jags-4.3.0-npkbl6ki6cyzxncqc3jqnlp4zdgrqd5y/share/man} +prepend-path --delim {:} PKG_CONFIG_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/jags-4.3.0-npkbl6ki6cyzxncqc3jqnlp4zdgrqd5y/lib/pkgconfig} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/jags-4.3.0-npkbl6ki6cyzxncqc3jqnlp4zdgrqd5y/.} +setenv JAGS_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/jags-4.3.0-npkbl6ki6cyzxncqc3jqnlp4zdgrqd5y} +append-path --delim {:} MANPATH {} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/jdk/17.0.1 b/modulefiles/hpccf/franklin/v0.21/software/jdk/17.0.1 new file mode 100644 index 00000000..a79be2bc --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/jdk/17.0.1 @@ -0,0 +1,47 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:00.337429 +## +## jdk@17.0.1%gcc@11.4.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/32qgx7v +## + + +module-whatis {The Java Development Kit (JDK) released by Oracle Corporation in the form of a binary product aimed at Java developers. Includes a complete JRE plus tools for developing, debugging, and monitoring Java applications.} + +proc ModulesHelp { } { + puts stderr {Name : jdk} + puts stderr {Version: 17.0.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The Java Development Kit (JDK) released by Oracle Corporation in the} + puts stderr {form of a binary product aimed at Java developers. Includes a complete} + puts stderr {JRE plus tools for developing, debugging, and monitoring Java} + puts stderr {applications.} +} + +conflict jdk + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/jdk-17.0.1-32qgx7v6uo6ewdoii2zgeyanoj2x23ng/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/jdk-17.0.1-32qgx7v6uo6ewdoii2zgeyanoj2x23ng/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/jdk-17.0.1-32qgx7v6uo6ewdoii2zgeyanoj2x23ng/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/jdk-17.0.1-32qgx7v6uo6ewdoii2zgeyanoj2x23ng/include} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/jdk-17.0.1-32qgx7v6uo6ewdoii2zgeyanoj2x23ng/bin} +prepend-path --delim {:} MANPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/jdk-17.0.1-32qgx7v6uo6ewdoii2zgeyanoj2x23ng/man} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/jdk-17.0.1-32qgx7v6uo6ewdoii2zgeyanoj2x23ng/.} +setenv JAVA_HOME {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/jdk-17.0.1-32qgx7v6uo6ewdoii2zgeyanoj2x23ng} +setenv JDK_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/jdk-17.0.1-32qgx7v6uo6ewdoii2zgeyanoj2x23ng} +append-path --delim {:} MANPATH {} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/jellyfish/1.1.11 b/modulefiles/hpccf/franklin/v0.21/software/jellyfish/1.1.11 new file mode 100644 index 00000000..24b4db24 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/jellyfish/1.1.11 @@ -0,0 +1,45 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:00.378334 +## +## jellyfish@1.1.11%gcc@11.4.0~ruby build_system=autotools patches=e729c13 arch=linux-ubuntu22.04-x86_64_v3/hvsay6t +## + + +module-whatis {JELLYFISH is a tool for fast, memory-efficient counting of k-mers in DNA.} + +proc ModulesHelp { } { + puts stderr {Name : jellyfish} + puts stderr {Version: 1.1.11} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {JELLYFISH is a tool for fast, memory-efficient counting of k-mers in} + puts stderr {DNA.} +} + +conflict jellyfish + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/jellyfish-1.1.11-hvsay6t26by7h4qz3jxrm6drcxssyr4d/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/jellyfish-1.1.11-hvsay6t26by7h4qz3jxrm6drcxssyr4d/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/jellyfish-1.1.11-hvsay6t26by7h4qz3jxrm6drcxssyr4d/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/jellyfish-1.1.11-hvsay6t26by7h4qz3jxrm6drcxssyr4d/include} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/jellyfish-1.1.11-hvsay6t26by7h4qz3jxrm6drcxssyr4d/bin} +prepend-path --delim {:} MANPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/jellyfish-1.1.11-hvsay6t26by7h4qz3jxrm6drcxssyr4d/share/man} +prepend-path --delim {:} PKG_CONFIG_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/jellyfish-1.1.11-hvsay6t26by7h4qz3jxrm6drcxssyr4d/lib/pkgconfig} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/jellyfish-1.1.11-hvsay6t26by7h4qz3jxrm6drcxssyr4d/.} +setenv JELLYFISH_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/jellyfish-1.1.11-hvsay6t26by7h4qz3jxrm6drcxssyr4d} +append-path --delim {:} MANPATH {} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/jellyfish/2.3.0 b/modulefiles/hpccf/franklin/v0.21/software/jellyfish/2.3.0 new file mode 100644 index 00000000..bfc40460 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/jellyfish/2.3.0 @@ -0,0 +1,45 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:00.428790 +## +## jellyfish@2.3.0%gcc@11.4.0~ruby build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/pzbyrmc +## + + +module-whatis {JELLYFISH is a tool for fast, memory-efficient counting of k-mers in DNA.} + +proc ModulesHelp { } { + puts stderr {Name : jellyfish} + puts stderr {Version: 2.3.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {JELLYFISH is a tool for fast, memory-efficient counting of k-mers in} + puts stderr {DNA.} +} + +conflict jellyfish + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/jellyfish-2.3.0-pzbyrmczez6ctabwgzz2icuecookp3zz/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/jellyfish-2.3.0-pzbyrmczez6ctabwgzz2icuecookp3zz/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/jellyfish-2.3.0-pzbyrmczez6ctabwgzz2icuecookp3zz/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/jellyfish-2.3.0-pzbyrmczez6ctabwgzz2icuecookp3zz/include} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/jellyfish-2.3.0-pzbyrmczez6ctabwgzz2icuecookp3zz/bin} +prepend-path --delim {:} MANPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/jellyfish-2.3.0-pzbyrmczez6ctabwgzz2icuecookp3zz/share/man} +prepend-path --delim {:} PKG_CONFIG_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/jellyfish-2.3.0-pzbyrmczez6ctabwgzz2icuecookp3zz/lib/pkgconfig} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/jellyfish-2.3.0-pzbyrmczez6ctabwgzz2icuecookp3zz/.} +setenv JELLYFISH_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/jellyfish-2.3.0-pzbyrmczez6ctabwgzz2icuecookp3zz} +append-path --delim {:} MANPATH {} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/kaiju/1.6.2 b/modulefiles/hpccf/franklin/v0.21/software/kaiju/1.6.2 new file mode 100644 index 00000000..145cf4a2 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/kaiju/1.6.2 @@ -0,0 +1,53 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:00.502530 +## +## kaiju@1.6.2%gcc@11.4.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/gnplutc +## + + +module-whatis {Kaiju is a program for the taxonomic classification of high-throughput sequencing reads.} + +proc ModulesHelp { } { + puts stderr {Name : kaiju} + puts stderr {Version: 1.6.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Kaiju is a program for the taxonomic classification of high-throughput} + puts stderr {sequencing reads.} +} + +conflict kaiju + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/kaiju-1.6.2-gnplutcsw4lpbgpn4q2eca2kfvtyqzsc/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/kaiju-1.6.2-gnplutcsw4lpbgpn4q2eca2kfvtyqzsc/.} +prepend-path --delim {:} PERL5LIB {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-io-compress-2.204-mb6d544vnjtsy2cfcn6p5v3bee2cns62/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-compress-raw-bzip2-2.204-eep2jc7grc5xrpqp2vs44wgfnr2ovxgk/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-compress-raw-zlib-2.204-zem4a7qaejfdy55vhsahzhausmsnmigh/lib/perl5} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-htseq-0.11.2-dc3zkgh7rzm4fxb7cnrykm55fu3e5s3t/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-matplotlib-3.8.0-qkq4nm72nrtixat7jsf26hsft7wobdxd/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-contourpy-1.0.7-j5nqmef7f6r2nwbxtjktkfuxwyf4rees/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-numpy-1.25.2-wnu35glxayp2uswy7dizfvgqytul6tcd/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-setuptools-63.4.3-gerjumbuhqoehxurdobbuortjepqbgdk/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-cycler-0.11.0-gkgfgboo7mxgso5ih7n5zzl3hp5xen6k/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-fonttools-4.39.4-szekdscngprthckt3z6glxl5mafkw62k/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-kiwisolver-1.4.4-t6sx4yqbdbg3xfgj7aerossyx5yq2gsu/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-packaging-23.1-pmrqnpodguoeqmo2ssqrydgdzc3qwrxe/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-pillow-10.0.0-vdehid7sbsy3rysf4keeajgv4s5qzejt/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-pyparsing-3.0.9-gxq3vmdndt3ovo5y4tsvdpq2piwyed3g/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-python-dateutil-2.8.2-vzjgfcxspf6uuaygw45cugx23xzjshco/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-six-1.16.0-wlmiepptfys2ktep3nj6z2t5ok3iw3vg/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-pysam-0.21.0-dxkkahurehxui55ui5piiv5hr3d6hwjx/lib/python3.11/site-packages} +setenv KAIJU_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/kaiju-1.6.2-gnplutcsw4lpbgpn4q2eca2kfvtyqzsc} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/kalign/3.3.1 b/modulefiles/hpccf/franklin/v0.21/software/kalign/3.3.1 new file mode 100644 index 00000000..76c8f8c7 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/kalign/3.3.1 @@ -0,0 +1,37 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:00.808395 +## +## kalign@3.3.1%gcc@11.4.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/yagw24r +## + + +module-whatis {A fast multiple sequence alignment program for biological sequences.} + +proc ModulesHelp { } { + puts stderr {Name : kalign} + puts stderr {Version: 3.3.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A fast multiple sequence alignment program for biological sequences.} +} + +conflict kalign + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/kalign-3.3.1-yagw24r3kjgx54wdtvdiwoodt3hsr6jk/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/kalign-3.3.1-yagw24r3kjgx54wdtvdiwoodt3hsr6jk/.} +setenv KALIGN_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/kalign-3.3.1-yagw24r3kjgx54wdtvdiwoodt3hsr6jk} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/kallisto/0.48.0 b/modulefiles/hpccf/franklin/v0.21/software/kallisto/0.48.0 new file mode 100644 index 00000000..7e44bbdf --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/kallisto/0.48.0 @@ -0,0 +1,38 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:00.879735 +## +## kallisto@0.48.0%gcc@11.4.0~hdf5~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/a35ywix +## + + +module-whatis {kallisto is a program for quantifying abundances of transcripts from RNA-Seq data.} + +proc ModulesHelp { } { + puts stderr {Name : kallisto} + puts stderr {Version: 0.48.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {kallisto is a program for quantifying abundances of transcripts from} + puts stderr {RNA-Seq data.} +} + +conflict kallisto + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/kallisto-0.48.0-a35ywixmvlzcbolfhrly4gryejqbiyha/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/kallisto-0.48.0-a35ywixmvlzcbolfhrly4gryejqbiyha/.} +setenv KALLISTO_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/kallisto-0.48.0-a35ywixmvlzcbolfhrly4gryejqbiyha} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/kmergenie/1.7051 b/modulefiles/hpccf/franklin/v0.21/software/kmergenie/1.7051 new file mode 100644 index 00000000..8b23f2fe --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/kmergenie/1.7051 @@ -0,0 +1,39 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:01.000103 +## +## kmergenie@1.7051%gcc@11.4.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/4lu4ya7 +## + + +module-whatis {KmerGenie estimates the best k-mer length for genome de novo assembly.} + +proc ModulesHelp { } { + puts stderr {Name : kmergenie} + puts stderr {Version: 1.7051} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {KmerGenie estimates the best k-mer length for genome de novo assembly.} +} + +conflict kmergenie + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/kmergenie-1.7051-4lu4ya7wdp3bfunv2ss343lc42adwxeg/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/kmergenie-1.7051-4lu4ya7wdp3bfunv2ss343lc42adwxeg/.} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-setuptools-68.0.0-dkyik7gcew2chhg4lijir22ne7fyl7t7/lib/python3.11/site-packages} +setenv R_HOME {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/r-4.3.0-odq5bdd2ieghfeux27ir4wq7qi53fmj3/rlib/R} +setenv KMERGENIE_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/kmergenie-1.7051-4lu4ya7wdp3bfunv2ss343lc42adwxeg} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/kraken/1.1.1 b/modulefiles/hpccf/franklin/v0.21/software/kraken/1.1.1 new file mode 100644 index 00000000..91a40073 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/kraken/1.1.1 @@ -0,0 +1,38 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:01.128433 +## +## kraken@1.1.1%gcc@11.4.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/x5x4gmg +## + + +module-whatis {Kraken is a system for assigning taxonomic labels to short DNA sequences, usually obtained through metagenomic studies.} + +proc ModulesHelp { } { + puts stderr {Name : kraken} + puts stderr {Version: 1.1.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Kraken is a system for assigning taxonomic labels to short DNA} + puts stderr {sequences, usually obtained through metagenomic studies.} +} + +conflict kraken + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/kraken-1.1.1-x5x4gmgnb56en7qe5nttjiymblz4hzjg/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/kraken-1.1.1-x5x4gmgnb56en7qe5nttjiymblz4hzjg/.} +setenv KRAKEN_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/kraken-1.1.1-x5x4gmgnb56en7qe5nttjiymblz4hzjg} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/kraken2/2.1.2 b/modulefiles/hpccf/franklin/v0.21/software/kraken2/2.1.2 new file mode 100644 index 00000000..c63a1552 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/kraken2/2.1.2 @@ -0,0 +1,38 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:01.215484 +## +## kraken2@2.1.2%gcc@11.4.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/k3fmwnh +## + + +module-whatis {Kraken2 is a system for assigning taxonomic labels to short DNA sequences, usually obtained through metagenomic studies.} + +proc ModulesHelp { } { + puts stderr {Name : kraken2} + puts stderr {Version: 2.1.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Kraken2 is a system for assigning taxonomic labels to short DNA} + puts stderr {sequences, usually obtained through metagenomic studies.} +} + +conflict kraken2 + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/kraken2-2.1.2-k3fmwnhen7fmto3rgarzoja5fuxtcycw/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/kraken2-2.1.2-k3fmwnhen7fmto3rgarzoja5fuxtcycw/.} +setenv KRAKEN2_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/kraken2-2.1.2-k3fmwnhen7fmto3rgarzoja5fuxtcycw} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/krakenuniq/1.0.4 b/modulefiles/hpccf/franklin/v0.21/software/krakenuniq/1.0.4 new file mode 100644 index 00000000..0b860dd2 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/krakenuniq/1.0.4 @@ -0,0 +1,44 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:01.386932 +## +## krakenuniq@1.0.4%gcc@11.4.0~jellyfish build_system=generic arch=linux-ubuntu22.04-x86_64_v3/rrutoqs +## + + +module-whatis {Metagenomics classifier with unique k-mer counting for more specific results.} + +proc ModulesHelp { } { + puts stderr {Name : krakenuniq} + puts stderr {Version: 1.0.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Metagenomics classifier with unique k-mer counting for more specific} + puts stderr {results.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load bzip2/1.0.8 +} else { + depends-on bzip2/1.0.8 +} +prereq bzip2/1.0.8 +conflict krakenuniq + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/krakenuniq-1.0.4-rrutoqseocqirca6xtrrgfnqtomjtqmm/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/krakenuniq-1.0.4-rrutoqseocqirca6xtrrgfnqtomjtqmm/.} +setenv KRAKENUNIQ_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/krakenuniq-1.0.4-rrutoqseocqirca6xtrrgfnqtomjtqmm} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/last/1499 b/modulefiles/hpccf/franklin/v0.21/software/last/1499 new file mode 100644 index 00000000..6a95b6db --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/last/1499 @@ -0,0 +1,39 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:01.466140 +## +## last@1499%gcc@11.4.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/zybz7uv +## + + +module-whatis {LAST finds similar regions between sequences, and aligns them. It is designed for comparing large datasets to each other (e.g. vertebrate genomes and/or large numbers of DNA reads).} + +proc ModulesHelp { } { + puts stderr {Name : last} + puts stderr {Version: 1499} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {LAST finds similar regions between sequences, and aligns them. It is} + puts stderr {designed for comparing large datasets to each other (e.g. vertebrate} + puts stderr {genomes and/or large numbers of DNA reads).} +} + +conflict last + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/last-1499-zybz7uvajrr2pgucjs7ucdewx4ddx3bb/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/last-1499-zybz7uvajrr2pgucjs7ucdewx4ddx3bb/.} +setenv LAST_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/last-1499-zybz7uvajrr2pgucjs7ucdewx4ddx3bb} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/lcov/1.16 b/modulefiles/hpccf/franklin/v0.21/software/lcov/1.16 new file mode 100644 index 00000000..8b25b713 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/lcov/1.16 @@ -0,0 +1,43 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:01.530535 +## +## lcov@1.16%gcc@11.4.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/rlquwdh +## + + +module-whatis {LCOV is a graphical front-end for GCC's coverage testing tool gcov. It collects gcov data for multiple source files and creates HTML pages containing the source code annotated with coverage information. It also adds overview pages for easy navigation within the file structure. LCOV supports statement, function and branch coverage measurement.} + +proc ModulesHelp { } { + puts stderr {Name : lcov} + puts stderr {Version: 1.16} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {LCOV is a graphical front-end for GCC's coverage testing tool gcov. It} + puts stderr {collects gcov data for multiple source files and creates HTML pages} + puts stderr {containing the source code annotated with coverage information. It also} + puts stderr {adds overview pages for easy navigation within the file structure. LCOV} + puts stderr {supports statement, function and branch coverage measurement.} +} + +conflict lcov + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/lcov-1.16-rlquwdh44eousyvfby3kogzezswitl6e/bin} +prepend-path --delim {:} MANPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/lcov-1.16-rlquwdh44eousyvfby3kogzezswitl6e/share/man} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/lcov-1.16-rlquwdh44eousyvfby3kogzezswitl6e/.} +setenv LCOV_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/lcov-1.16-rlquwdh44eousyvfby3kogzezswitl6e} +append-path --delim {:} MANPATH {} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/librsvg/2.51.0 b/modulefiles/hpccf/franklin/v0.21/software/librsvg/2.51.0 new file mode 100644 index 00000000..87b8bb81 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/librsvg/2.51.0 @@ -0,0 +1,57 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:01.703090 +## +## librsvg@2.51.0%gcc@11.4.0~doc build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/2cscnks +## +## Configure options: --disable-gtk-doc GTKDOC_MKPDF=/bin/true GTKDOC_REBASE=/bin/true GTKDOC_CHECK_PATH=/bin/true +## + + +module-whatis {Library to render SVG files using Cairo} + +proc ModulesHelp { } { + puts stderr {Name : librsvg} + puts stderr {Version: 2.51.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Library to render SVG files using Cairo} +} + +conflict librsvg + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/librsvg-2.51.0-2cscnksuvv6tyy4ipbivqgdw5d6ltlpp/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/librsvg-2.51.0-2cscnksuvv6tyy4ipbivqgdw5d6ltlpp/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/librsvg-2.51.0-2cscnksuvv6tyy4ipbivqgdw5d6ltlpp/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/librsvg-2.51.0-2cscnksuvv6tyy4ipbivqgdw5d6ltlpp/include} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/librsvg-2.51.0-2cscnksuvv6tyy4ipbivqgdw5d6ltlpp/bin} +prepend-path --delim {:} MANPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/librsvg-2.51.0-2cscnksuvv6tyy4ipbivqgdw5d6ltlpp/share/man} +prepend-path --delim {:} PKG_CONFIG_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/librsvg-2.51.0-2cscnksuvv6tyy4ipbivqgdw5d6ltlpp/lib/pkgconfig} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/librsvg-2.51.0-2cscnksuvv6tyy4ipbivqgdw5d6ltlpp/.} +prepend-path --delim {:} XLOCALEDIR {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libx11-1.8.4-zaqf7dicjkl3i2sg2ciot74vsehx7k47/share/X11/locale} +prepend-path --delim {:} XDG_DATA_DIRS {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gobject-introspection-1.76.1-p7ovpnwgkhdrynjsf2zetdapj4hwgkkr/share} +prepend-path --delim {:} GI_TYPELIB_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gobject-introspection-1.76.1-p7ovpnwgkhdrynjsf2zetdapj4hwgkkr/lib/girepository-1.0} +prepend-path --delim {:} XDG_DATA_DIRS {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/shared-mime-info-1.10-dstkd5iu3aqbrgwtgbaoz5dfg6sph33k/share} +prepend-path --delim {:} XDG_DATA_DIRS {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gdk-pixbuf-2.42.10-4acmq2ozgbu5gjch5p54fthaowwu43zf/share} +prepend-path --delim {:} GI_TYPELIB_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gdk-pixbuf-2.42.10-4acmq2ozgbu5gjch5p54fthaowwu43zf/lib/girepository-1.0} +prepend-path --delim {:} XDG_DATA_DIRS {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/harfbuzz-7.3.0-qydks2c5unty2nl6v6ppaloxifbjr6ov/share} +prepend-path --delim {:} GI_TYPELIB_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/harfbuzz-7.3.0-qydks2c5unty2nl6v6ppaloxifbjr6ov/lib/girepository-1.0} +prepend-path --delim {:} XDG_DATA_DIRS {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/pango-1.50.13-ulgoaxm2xovaz4xwfzaxj7vzs4mhlvpx/share} +prepend-path --delim {:} GI_TYPELIB_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/pango-1.50.13-ulgoaxm2xovaz4xwfzaxj7vzs4mhlvpx/lib/girepository-1.0} +prepend-path --delim {:} XDG_DATA_DIRS {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/librsvg-2.51.0-2cscnksuvv6tyy4ipbivqgdw5d6ltlpp/share} +setenv LIBRSVG_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/librsvg-2.51.0-2cscnksuvv6tyy4ipbivqgdw5d6ltlpp} +append-path --delim {:} MANPATH {} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/libsvm/323 b/modulefiles/hpccf/franklin/v0.21/software/libsvm/323 new file mode 100644 index 00000000..f0bf95df --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/libsvm/323 @@ -0,0 +1,39 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:02.085520 +## +## libsvm@323%gcc@11.4.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/istxk4p +## + + +module-whatis {Libsvm is a simple, easy-to-use, and efficient software for SVM classification and regression.} + +proc ModulesHelp { } { + puts stderr {Name : libsvm} + puts stderr {Version: 323} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Libsvm is a simple, easy-to-use, and efficient software for SVM} + puts stderr {classification and regression.} +} + +conflict libsvm + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libsvm-323-istxk4pf6737jitbjc43xvia3ecslndp/lib} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libsvm-323-istxk4pf6737jitbjc43xvia3ecslndp/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libsvm-323-istxk4pf6737jitbjc43xvia3ecslndp/.} +setenv LIBSVM_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libsvm-323-istxk4pf6737jitbjc43xvia3ecslndp} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/libszip/2.1.1 b/modulefiles/hpccf/franklin/v0.21/software/libszip/2.1.1 new file mode 100644 index 00000000..093b78d2 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/libszip/2.1.1 @@ -0,0 +1,44 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:02.121166 +## +## libszip@2.1.1%gcc@11.4.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/c77zbt6 +## +## Configure options: --enable-production --enable-shared --enable-static --enable-encoding +## + + +module-whatis {Szip is an implementation of the extended-Rice lossless compression algorithm.} + +proc ModulesHelp { } { + puts stderr {Name : libszip} + puts stderr {Version: 2.1.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Szip is an implementation of the extended-Rice lossless compression} + puts stderr {algorithm. It provides lossless compression of scientific data, and is} + puts stderr {provided with HDF software products.} +} + +conflict libszip + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libszip-2.1.1-c77zbt6mq36an6ippv5lmsmt27jvtnwb/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libszip-2.1.1-c77zbt6mq36an6ippv5lmsmt27jvtnwb/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libszip-2.1.1-c77zbt6mq36an6ippv5lmsmt27jvtnwb/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libszip-2.1.1-c77zbt6mq36an6ippv5lmsmt27jvtnwb/include} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libszip-2.1.1-c77zbt6mq36an6ippv5lmsmt27jvtnwb/.} +setenv LIBSZIP_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libszip-2.1.1-c77zbt6mq36an6ippv5lmsmt27jvtnwb} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/libxc/6.1.0 b/modulefiles/hpccf/franklin/v0.21/software/libxc/6.1.0 new file mode 100644 index 00000000..b70b68b0 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/libxc/6.1.0 @@ -0,0 +1,45 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:02.154520 +## +## libxc@6.1.0%gcc@11.4.0~cuda~kxc~lxc+shared build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/zg43i2r +## +## Configure options: --enable-shared --disable-cuda +## + + +module-whatis {Libxc is a library of exchange-correlation functionals for density-functional theory.} + +proc ModulesHelp { } { + puts stderr {Name : libxc} + puts stderr {Version: 6.1.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Libxc is a library of exchange-correlation functionals for density-} + puts stderr {functional theory.} +} + +conflict libxc + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxc-6.1.0-zg43i2rmenernzjzzd5idtosjc5yqq3m/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxc-6.1.0-zg43i2rmenernzjzzd5idtosjc5yqq3m/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxc-6.1.0-zg43i2rmenernzjzzd5idtosjc5yqq3m/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxc-6.1.0-zg43i2rmenernzjzzd5idtosjc5yqq3m/include} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxc-6.1.0-zg43i2rmenernzjzzd5idtosjc5yqq3m/bin} +prepend-path --delim {:} PKG_CONFIG_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxc-6.1.0-zg43i2rmenernzjzzd5idtosjc5yqq3m/lib/pkgconfig} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxc-6.1.0-zg43i2rmenernzjzzd5idtosjc5yqq3m/.} +setenv LIBXC_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxc-6.1.0-zg43i2rmenernzjzzd5idtosjc5yqq3m} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/mafft/7.505 b/modulefiles/hpccf/franklin/v0.21/software/mafft/7.505 new file mode 100644 index 00000000..23136546 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/mafft/7.505 @@ -0,0 +1,42 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:02.190121 +## +## mafft@7.505%gcc@11.4.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/lbfngpu +## + + +module-whatis {MAFFT is a multiple sequence alignment program for unix-like operating systems. It offers a range of multiple alignment methods, L-INS-i (accurate; for alignment of <~200 sequences), FFT-NS-2 (fast; for alignment of <~30,000 sequences), etc.} + +proc ModulesHelp { } { + puts stderr {Name : mafft} + puts stderr {Version: 7.505} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {MAFFT is a multiple sequence alignment program for unix-like operating} + puts stderr {systems. It offers a range of multiple alignment methods, L-INS-i} + puts stderr {(accurate; for alignment of <~200 sequences), FFT-NS-2 (fast; for} + puts stderr {alignment of <~30,000 sequences), etc.} +} + +conflict mafft + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mafft-7.505-lbfngpu4pys664brbjyyvsdlian5elqm/bin} +prepend-path --delim {:} MANPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mafft-7.505-lbfngpu4pys664brbjyyvsdlian5elqm/share/man} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mafft-7.505-lbfngpu4pys664brbjyyvsdlian5elqm/.} +setenv MAFFT_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mafft-7.505-lbfngpu4pys664brbjyyvsdlian5elqm} +append-path --delim {:} MANPATH {} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/maker/3.01.04 b/modulefiles/hpccf/franklin/v0.21/software/maker/3.01.04 new file mode 100644 index 00000000..969f9a53 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/maker/3.01.04 @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:02.406940 +## +## maker@3.01.04%gcc@11.4.0+mpi build_system=generic patches=4e875dd,77bd88b,92e6c02 arch=linux-ubuntu22.04-x86_64_v3/im6o7ev +## + + +module-whatis {MAKER is a portable and easily configurable genome annotation pipeline. It's purpose is to allow smaller eukaryotic and prokaryotic genomeprojects to independently annotate their genomes and to create genome databases. MAKER identifies repeats, aligns ESTs and proteins to a genome, produces ab-initio gene predictions and automatically synthesizes these data into gene annotations having evidence-based quality values. MAKER is also easily trainable: outputs of preliminary runs can be used to automatically retrain its gene prediction algorithm, producing higher quality gene-models on subsequent runs. MAKER's inputs are minimal and its ouputs can be directly loaded into a GMOD database. They can also be viewed in the Apollo genome browser; this feature of MAKER provides an easy means to annotate, view and edit individual contigs and BACs without the overhead of a database. MAKER should prove especially useful for emerging model organism projects with minimal bioinformatics expertise and computer resources.} + +proc ModulesHelp { } { + puts stderr {Name : maker} + puts stderr {Version: 3.01.04} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {MAKER is a portable and easily configurable genome annotation pipeline.} + puts stderr {It's purpose is to allow smaller eukaryotic and prokaryotic} + puts stderr {genomeprojects to independently annotate their genomes and to create} + puts stderr {genome databases. MAKER identifies repeats, aligns ESTs and proteins to} + puts stderr {a genome, produces ab-initio gene predictions and automatically} + puts stderr {synthesizes these data into gene annotations having evidence-based} + puts stderr {quality values. MAKER is also easily trainable: outputs of preliminary} + puts stderr {runs can be used to automatically retrain its gene prediction algorithm,} + puts stderr {producing higher quality gene-models on subsequent runs. MAKER's inputs} + puts stderr {are minimal and its ouputs can be directly loaded into a GMOD database.} + puts stderr {They can also be viewed in the Apollo genome browser; this feature of} + puts stderr {MAKER provides an easy means to annotate, view and edit individual} + puts stderr {contigs and BACs without the overhead of a database. MAKER should prove} + puts stderr {especially useful for emerging model organism projects with minimal} + puts stderr {bioinformatics expertise and computer resources. Note: MAKER requires} + puts stderr {registration. Fill out the form at} + puts stderr {http://yandell.topaz.genetics.utah.edu/cgi-bin/maker_license.cgi to get} + puts stderr {a download link. Spack will search your current directory for the} + puts stderr {download file. Alternatively, add this file to a mirror so that Spack} + puts stderr {can find it. For instructions on how to set up a mirror, see} + puts stderr {https://spack.readthedocs.io/en/latest/mirrors.html} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load exonerate/2.4.0 + module load interproscan/4.8 +} else { + depends-on exonerate/2.4.0 + depends-on interproscan/4.8 +} +prereq exonerate/2.4.0 +prereq interproscan/4.8 +conflict maker + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/maker-3.01.04-im6o7evc6uk2dy2nlnz2lfgzfw5tjcr4/lib} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/maker-3.01.04-im6o7evc6uk2dy2nlnz2lfgzfw5tjcr4/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/maker-3.01.04-im6o7evc6uk2dy2nlnz2lfgzfw5tjcr4/.} +prepend-path --delim {:} PERL5LIB {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-bioperl-1.7.6-xvvpo2gyobu4gfnsyeziz7a7wc4b5aun/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-data-stag-0.14-k6fuanok3ca5p74mdjnvgswjjbkn27zy/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-io-string-1.08-epoalwv5tibo3mq7l4zmb4vt3cy6ibaw/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-error-0.17029-iw6lcxi7qojbkaoz6yzgjt2hvz2zjs6h/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-graph-0.20105-xi3ocjnbgytacdpcp4gpgplvuqluiqlr/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-http-message-6.44-mogcd3b3u6h5scsfv5wqdhvgtrv26yrs/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-clone-0.46-qvghnmvcsvkjlenivukbbv5ea7zfh7sj/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-encode-locale-1.05-i3yu5cubfljgrfrn2jidhaooexy43d4l/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-http-date-6.02-uj7noibxo6m4lh5nyku7knjhl7xowazv/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-io-html-1.004-aznx2hxrouq2jhbbz2a73o4eb4txalty/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-lwp-mediatypes-6.02-ydjxjaywnstf7lawjacfjlyt5vlj7dhx/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-try-tiny-0.31-l2hiyji7bj3ou3fixu4ed42a3w7ia4kn/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-uri-5.08-m5ahizgcnwspsjcfnzryoy6rxhcf55bg/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-io-stringy-2.111-qwb6tnjliwgaup6vweh4vz45k5kc22qd/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-ipc-run-20220807.0-22ub7mr2u4q2dz47gn5xbab6kskp5rpb/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-io-tty-1.17-lmhjxx2ozg36z6bylz66m362pbuk6mmw/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-libwww-perl-6.68-hvqainaa2tmfic7fhrem7ubxm2yk45ij/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-file-listing-6.04-fq4m3rsfoc7mue7i6clsqzzgbeonv4ko/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-html-parser-3.72-gzf4cxbun4apc2u5jdpculaqsuqexmqu/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-html-tagset-3.20-ethpjczwe6s7uxm63h4umtjmje6abd2n/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-http-cookies-6.10-xh2s5vjlca6hfuxbete2622tij7gzpng/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-http-daemon-6.01-gfrosn3r4nbeach6j3wmqbldrmme5scl/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-http-negotiate-6.01-4coqv76cecnps6mkigbatvlnffxicnpn/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-net-http-6.22-pc245egcgt2yj5bljdxgyhvte2jbirsc/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-www-robotrules-6.02-uplnyrnxrngag76gexmcr3dipz4gksrj/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-libxml-perl-0.08-5baff73ofg4227rw7qac6iv6iqdtzde3/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-list-moreutils-0.430-fqd4dxakvhwjq4aequfrg2j32w52xmn4/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-exporter-tiny-1.006002-5c4wtrrgtfejj5i4fk3wxwfvqzpvwxss/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-list-moreutils-xs-0.430-gxciivr6sbvymj5qq7qcs5n5usbcjgmq/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-module-build-0.4232-p443q7sj7u7b2uqtjhbg4g7asgsqe5d3/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-set-scalar-1.29-c43a6w7bdxr7lce6kq4jwrf3g4h7yomi/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-test-most-0.38-xqoual3gikenshk2xc5ic5agt3gzuu2d/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-exception-class-1.45-idhnokikrzwsm3gvnac4o25byeuwokvz/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-class-data-inheritable-0.08-2tw2aabplu4s4etzbkznfwajfksjogog/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-devel-stacktrace-2.04-mmfni6wiw3z24io2quwhk3tk4xgvpdxi/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-test-deep-1.204-swsyswlnkozes3k5axy4h3l2ai2nhjid/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-test-differences-0.69-ouiugauwam6gn64nevbyrifa55bhmafq/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-capture-tiny-0.48-buwhsdnlgv5mg4xfdyws2in22fm5pl4q/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-text-diff-1.45-hk4vzeum4d45lzhhewqkhzuuz4n7cjly/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-algorithm-diff-1.1903-ntjqev2wdzvhc7sgfgximmeryrks2q67/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-test-exception-0.43-q6dchkcg76o2jpo2o6ibkuhy5czvtwwi/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-sub-uplevel-0.2800-n56v2p6rpuoyifwxhhehp3hvwzho7r2s/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-test-warn-0.30-ueztf6kuyajd7jwepng63nlfqtc5ssdx/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-test-requiresinternet-0.05-senkgchjlccw7wekudl23dn6ptoqscjz/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-xml-dom-1.46-ymefgrdp6ijfdmhm6ubepkm4lrmb2zwr/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-xml-parser-2.46-4s7gqlvv2qhuwaex7wu364cdy2kpoy7q/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-xml-regexp-0.04-po6a3kus6hl3fozzryxcv2mhp2ouy54y/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-xml-dom-xpath-0.14-m3735oobgyg7wmholxfud5nhkvkbs77c/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-xml-xpathengine-0.14-237tguaq24q5pczybs55vnpmynzagre7/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-xml-libxml-2.0201-445tdhy7k47nejovsudwaf53sxox4bsz/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-xml-namespacesupport-1.12_9-4tqvapoilqdpiah5mz4snebscs7dkwnu/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-xml-sax-1.02-abejbdlnljbojiyp4du3xag6rlwhzica/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-xml-sax-base-1.09-43jznrnzskeegfrdukry7x3wurcg4p4n/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-xml-sax-writer-0.57-oniddrf2xfc4t4254xn7b32ro4ybw4z7/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-xml-filter-buffertext-1.01-wbtfhbgqdyj5srhaya6zsid56kuncnu5/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-xml-twig-3.52-opu4gqjopyjwfctlhhal7y7mznywbd2u/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-xml-writer-0.900-kvc2b3rvauipwxcqqmlhj7vrzvaezwsj/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-yaml-1.30-7tappv5e3e7knhpadquuxq373nylcyt6/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-bit-vector-7.4-kof7pguvwqetydp2tktv7oelmibqks3b/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-carp-clan-6.06-7cm4wo3u5ilbgo3eo4lr6ulteb3mbvg7/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-dbd-pg-3.16.1-cv2gamgzn7b5d5jq2re7qenhzqt5tg3w/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-dbi-1.643-uzxn5rggo6c2shzx67t6ldnrgzidqzib/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-dbd-sqlite-1.72-utjmbhtyvahgvycnmueypjmddst3itt7/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-file-which-1.27-uc7lvhpskdnyg2r75rbna5wcunoosyrq/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-forks-0.36-s65q4wg2mbqewyt7b62zfufd3nlmfx7c/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-acme-damn-0.08-euea3iyqmzdmtu6usrp3i7qkbmrocy3z/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-devel-symdump-2.0604-5nsu33bmp46czx2en5h3l3vzbisk6qdt/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-sys-sigaction-0.23-wwk7cqyqmbpo7xgtwwyoyryfor4xtcyr/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-inline-c-0.81-ihjgdve7bify24irxhwc4nf5mywcxcu5/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-file-copy-recursive-0.45-tkg3khgcm25jlqeyanhlmsbdrj6f7u6t/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-inline-0.86-rfdlp36vqizzyvx5fwaz6gsfmb54circ/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-parse-recdescent-1.967015-fumtl6rpzoreyaudkrvueoxcrrk7suhc/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-pegex-0.75-4juflkcbkmqzvljv57n5b5q7sj7doslx/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-file-sharedir-install-0.14-5ll7dwdm74wmonqfx2xprqf7oinrlfci/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-yaml-libyaml-0.84-vifi6aaetewehvokkwouquf4jqcbiomw/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-io-all-0.87-jrfufurnb7sfplhfn6tvgm5hp7qbilw7/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-io-prompt-0.997004-dsvmkteeganlnpf3cyuk5lmajd2qw5me/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-termreadkey-2.38-3qbciljk6bygdtg2nld2gp5hymaf67c6/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-want-0.29-knacaaitxtpaqgktlqwqemckjdmh52kj/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-perl-unsafe-signals-0.03-tr2mma4hkc6n2bxtzhls34keoqznrhhm/lib/perl5} +setenv MAKER_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/maker-3.01.04-im6o7evc6uk2dy2nlnz2lfgzfw5tjcr4} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/mash/2.3 b/modulefiles/hpccf/franklin/v0.21/software/mash/2.3 new file mode 100644 index 00000000..f5271eb4 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/mash/2.3 @@ -0,0 +1,51 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:04.123800 +## +## mash@2.3%gcc@11.4.0 build_system=autotools patches=3e6d6ee arch=linux-ubuntu22.04-x86_64_v3/mbv5ig6 +## +## Configure options: --with-capnp=/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/capnproto-0.10.2-uvudyh2icqptur6qefuh4vkqrfc7wkc5 --with-gsl=/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gsl-2.7.1-62tbsonbxsd6dhe3jpct2jzlsvf7u5ev +## + + +module-whatis { Fast genome and metagenome distance estimation using MinHash. } + +proc ModulesHelp { } { + puts stderr {Name : mash} + puts stderr {Version: 2.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr { Fast genome and metagenome distance estimation using MinHash.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load gsl/2.7.1 +} else { + depends-on gsl/2.7.1 +} +prereq gsl/2.7.1 +conflict mash + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mash-2.3-mbv5ig6tkro46q2manop62rmouyzlrjp/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mash-2.3-mbv5ig6tkro46q2manop62rmouyzlrjp/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mash-2.3-mbv5ig6tkro46q2manop62rmouyzlrjp/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mash-2.3-mbv5ig6tkro46q2manop62rmouyzlrjp/include} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mash-2.3-mbv5ig6tkro46q2manop62rmouyzlrjp/bin} +prepend-path --delim {:} MANPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mash-2.3-mbv5ig6tkro46q2manop62rmouyzlrjp/share/man} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mash-2.3-mbv5ig6tkro46q2manop62rmouyzlrjp/.} +setenv MASH_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mash-2.3-mbv5ig6tkro46q2manop62rmouyzlrjp} +append-path --delim {:} MANPATH {} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/masurca/4.1.0 b/modulefiles/hpccf/franklin/v0.21/software/masurca/4.1.0 new file mode 100644 index 00000000..cb0530c4 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/masurca/4.1.0 @@ -0,0 +1,45 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:04.198626 +## +## masurca@4.1.0%gcc@11.4.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/jgphnzb +## + + +module-whatis {MaSuRCA is whole genome assembly software. It combines the efficiency of the de Bruijn graph and Overlap-Layout-Consensus (OLC) approaches.} + +proc ModulesHelp { } { + puts stderr {Name : masurca} + puts stderr {Version: 4.1.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {MaSuRCA is whole genome assembly software. It combines the efficiency of} + puts stderr {the de Bruijn graph and Overlap-Layout-Consensus (OLC) approaches.} +} + +conflict masurca + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/masurca-4.1.0-jgphnzbws7ndkzhxoqt62u3ntc2tjwbq/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/masurca-4.1.0-jgphnzbws7ndkzhxoqt62u3ntc2tjwbq/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/masurca-4.1.0-jgphnzbws7ndkzhxoqt62u3ntc2tjwbq/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/masurca-4.1.0-jgphnzbws7ndkzhxoqt62u3ntc2tjwbq/include} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/masurca-4.1.0-jgphnzbws7ndkzhxoqt62u3ntc2tjwbq/bin} +prepend-path --delim {:} MANPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/masurca-4.1.0-jgphnzbws7ndkzhxoqt62u3ntc2tjwbq/share/man} +prepend-path --delim {:} PKG_CONFIG_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/masurca-4.1.0-jgphnzbws7ndkzhxoqt62u3ntc2tjwbq/lib/pkgconfig} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/masurca-4.1.0-jgphnzbws7ndkzhxoqt62u3ntc2tjwbq/.} +setenv MASURCA_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/masurca-4.1.0-jgphnzbws7ndkzhxoqt62u3ntc2tjwbq} +append-path --delim {:} MANPATH {} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/maven/3.8.4 b/modulefiles/hpccf/franklin/v0.21/software/maven/3.8.4 new file mode 100644 index 00000000..f9fcf6ac --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/maven/3.8.4 @@ -0,0 +1,38 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:04.283198 +## +## maven@3.8.4%gcc@11.4.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/ipu3gb6 +## + + +module-whatis {Apache Maven is a software project management and comprehension tool.} + +proc ModulesHelp { } { + puts stderr {Name : maven} + puts stderr {Version: 3.8.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Apache Maven is a software project management and comprehension tool.} +} + +conflict maven + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/maven-3.8.4-ipu3gb6z6dvqcijyl5g5qtbhwxpfyl3f/lib} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/maven-3.8.4-ipu3gb6z6dvqcijyl5g5qtbhwxpfyl3f/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/maven-3.8.4-ipu3gb6z6dvqcijyl5g5qtbhwxpfyl3f/.} +setenv MAVEN_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/maven-3.8.4-ipu3gb6z6dvqcijyl5g5qtbhwxpfyl3f} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/mcl/14-137 b/modulefiles/hpccf/franklin/v0.21/software/mcl/14-137 new file mode 100644 index 00000000..04f3a1d6 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/mcl/14-137 @@ -0,0 +1,41 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:04.319778 +## +## mcl@14-137%gcc@11.4.0~blast build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/hih5utr +## + + +module-whatis {The MCL algorithm is short for the Markov Cluster Algorithm, a fast and scalable unsupervised cluster algorithm for graphs (also known as networks) based on simulation of (stochastic) flow in graphs.} + +proc ModulesHelp { } { + puts stderr {Name : mcl} + puts stderr {Version: 14-137} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The MCL algorithm is short for the Markov Cluster Algorithm, a fast and} + puts stderr {scalable unsupervised cluster algorithm for graphs (also known as} + puts stderr {networks) based on simulation of (stochastic) flow in graphs.} +} + +conflict mcl + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mcl-14-137-hih5utroj4nizc7erjx3x62ddamytvi3/bin} +prepend-path --delim {:} MANPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mcl-14-137-hih5utroj4nizc7erjx3x62ddamytvi3/share/man} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mcl-14-137-hih5utroj4nizc7erjx3x62ddamytvi3/.} +setenv MCL_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mcl-14-137-hih5utroj4nizc7erjx3x62ddamytvi3} +append-path --delim {:} MANPATH {} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/megahit/1.1.4 b/modulefiles/hpccf/franklin/v0.21/software/megahit/1.1.4 new file mode 100644 index 00000000..18608231 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/megahit/1.1.4 @@ -0,0 +1,38 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:04.358327 +## +## megahit@1.1.4%gcc@7.5.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/3w7v62z +## + + +module-whatis {MEGAHIT: An ultra-fast single-node solution for large and complex metagenomics assembly via succinct de Bruijn graph} + +proc ModulesHelp { } { + puts stderr {Name : megahit} + puts stderr {Version: 1.1.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {MEGAHIT: An ultra-fast single-node solution for large and complex} + puts stderr {metagenomics assembly via succinct de Bruijn graph} +} + +conflict megahit + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/megahit-1.1.4-3w7v62zlisixtu4o4lxj5yuro6b76kbf/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/megahit-1.1.4-3w7v62zlisixtu4o4lxj5yuro6b76kbf/.} +setenv MEGAHIT_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/megahit-1.1.4-3w7v62zlisixtu4o4lxj5yuro6b76kbf} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/meme/5.3.0 b/modulefiles/hpccf/franklin/v0.21/software/meme/5.3.0 new file mode 100644 index 00000000..2c8b62a0 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/meme/5.3.0 @@ -0,0 +1,44 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:04.442333 +## +## meme@5.3.0%gcc@11.4.0~magick+mpi build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/vdplatc +## + + +module-whatis {The MEME Suite allows the biologist to discover novel motifs in collections of unaligned nucleotide or protein sequences, and to perform a wide variety of other motif-based analyses.} + +proc ModulesHelp { } { + puts stderr {Name : meme} + puts stderr {Version: 5.3.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The MEME Suite allows the biologist to discover novel motifs in} + puts stderr {collections of unaligned nucleotide or protein sequences, and to perform} + puts stderr {a wide variety of other motif-based analyses.} +} + +conflict meme + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/meme-5.3.0-vdplatcmfondqpmsdk2ssvkszwtattlv/lib} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/meme-5.3.0-vdplatcmfondqpmsdk2ssvkszwtattlv/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/meme-5.3.0-vdplatcmfondqpmsdk2ssvkszwtattlv/.} +prepend-path --delim {:} XDG_DATA_DIRS {/usr/share} +prepend-path --delim {:} GI_TYPELIB_PATH {/usr/lib/girepository-1.0} +prepend-path --delim {:} PERL5LIB {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-xml-parser-2.46-4s7gqlvv2qhuwaex7wu364cdy2kpoy7q/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-libwww-perl-6.68-hvqainaa2tmfic7fhrem7ubxm2yk45ij/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-clone-0.46-qvghnmvcsvkjlenivukbbv5ea7zfh7sj/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-encode-locale-1.05-i3yu5cubfljgrfrn2jidhaooexy43d4l/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-file-listing-6.04-fq4m3rsfoc7mue7i6clsqzzgbeonv4ko/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-http-date-6.02-uj7noibxo6m4lh5nyku7knjhl7xowazv/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-html-parser-3.72-gzf4cxbun4apc2u5jdpculaqsuqexmqu/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-html-tagset-3.20-ethpjczwe6s7uxm63h4umtjmje6abd2n/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-http-cookies-6.10-xh2s5vjlca6hfuxbete2622tij7gzpng/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-http-message-6.44-mogcd3b3u6h5scsfv5wqdhvgtrv26yrs/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-io-html-1.004-aznx2hxrouq2jhbbz2a73o4eb4txalty/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-lwp-mediatypes-6.02-ydjxjaywnstf7lawjacfjlyt5vlj7dhx/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-try-tiny-0.31-l2hiyji7bj3ou3fixu4ed42a3w7ia4kn/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-uri-5.08-m5ahizgcnwspsjcfnzryoy6rxhcf55bg/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-http-daemon-6.01-gfrosn3r4nbeach6j3wmqbldrmme5scl/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-http-negotiate-6.01-4coqv76cecnps6mkigbatvlnffxicnpn/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-net-http-6.22-pc245egcgt2yj5bljdxgyhvte2jbirsc/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-www-robotrules-6.02-uplnyrnxrngag76gexmcr3dipz4gksrj/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-xml-simple-2.25-untvqawqxpact47tjomkwwgddfvp5sm6/lib/perl5} +prepend-path --delim {:} XLOCALEDIR {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libx11-1.8.4-zkd3h7btls3gx3c3akcrwrwqd46l43i6/share/X11/locale} +setenv MEME_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/meme-5.3.0-vdplatcmfondqpmsdk2ssvkszwtattlv} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/metaeuk/6-a5d39d9 b/modulefiles/hpccf/franklin/v0.21/software/metaeuk/6-a5d39d9 new file mode 100644 index 00000000..62dc39c1 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/metaeuk/6-a5d39d9 @@ -0,0 +1,38 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:04.698313 +## +## metaeuk@6-a5d39d9%gcc@11.4.0~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/dnv7cm6 +## + + +module-whatis {MetaEuk is a modular toolkit designed for large-scale gene discovery and annotation in eukaryotic metagenomic contigs. } + +proc ModulesHelp { } { + puts stderr {Name : metaeuk} + puts stderr {Version: 6-a5d39d9} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {MetaEuk is a modular toolkit designed for large-scale gene discovery and} + puts stderr {annotation in eukaryotic metagenomic contigs.} +} + +conflict metaeuk + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/metaeuk-6-a5d39d9-dnv7cm6vgjoefh7ciavfrajgnlztg4de/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/metaeuk-6-a5d39d9-dnv7cm6vgjoefh7ciavfrajgnlztg4de/.} +setenv METAEUK_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/metaeuk-6-a5d39d9-dnv7cm6vgjoefh7ciavfrajgnlztg4de} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/minced/0.4.2 b/modulefiles/hpccf/franklin/v0.21/software/minced/0.4.2 new file mode 100644 index 00000000..032ebe4e --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/minced/0.4.2 @@ -0,0 +1,40 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:04.741871 +## +## minced@0.4.2%gcc@11.4.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/av7pqls +## + + +module-whatis {MinCED is a program to find Clustered Regularly Interspaced Short Palindromic Repeats (CRISPRs) in full genomes or environmental datasets such as metagenomes, in which sequence size can be anywhere from 100 to 800 bp.} + +proc ModulesHelp { } { + puts stderr {Name : minced} + puts stderr {Version: 0.4.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {MinCED is a program to find Clustered Regularly Interspaced Short} + puts stderr {Palindromic Repeats (CRISPRs) in full genomes or environmental datasets} + puts stderr {such as metagenomes, in which sequence size can be anywhere from 100 to} + puts stderr {800 bp.} +} + +conflict minced + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/minced-0.4.2-av7pqlsd4paqllgh2edzadqbby5skrog/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/minced-0.4.2-av7pqlsd4paqllgh2edzadqbby5skrog/.} +setenv MINCED_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/minced-0.4.2-av7pqlsd4paqllgh2edzadqbby5skrog} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/miniasm/2018-3-30 b/modulefiles/hpccf/franklin/v0.21/software/miniasm/2018-3-30 new file mode 100644 index 00000000..ed2f2110 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/miniasm/2018-3-30 @@ -0,0 +1,37 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:04.797975 +## +## miniasm@2018-3-30%gcc@11.4.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/tcf4qlx +## + + +module-whatis {Miniasm is a very fast OLC-based de novo assembler for noisy long reads.} + +proc ModulesHelp { } { + puts stderr {Name : miniasm} + puts stderr {Version: 2018-3-30} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Miniasm is a very fast OLC-based de novo assembler for noisy long reads.} +} + +conflict miniasm + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/miniasm-2018-3-30-tcf4qlxstwnxi6v7afdizly5vkh6rax7/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/miniasm-2018-3-30-tcf4qlxstwnxi6v7afdizly5vkh6rax7/.} +setenv MINIASM_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/miniasm-2018-3-30-tcf4qlxstwnxi6v7afdizly5vkh6rax7} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/minimap2/2.26 b/modulefiles/hpccf/franklin/v0.21/software/minimap2/2.26 new file mode 100644 index 00000000..64011670 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/minimap2/2.26 @@ -0,0 +1,41 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:04.864107 +## +## minimap2@2.26%gcc@11.4.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/y3vmcty +## + + +module-whatis {Minimap2 is a versatile sequence alignment program that aligns DNA or mRNA sequences against a large reference database. Mappy provides a convenient interface to minimap2.} + +proc ModulesHelp { } { + puts stderr {Name : minimap2} + puts stderr {Version: 2.26} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Minimap2 is a versatile sequence alignment program that aligns DNA or} + puts stderr {mRNA sequences against a large reference database. Mappy provides a} + puts stderr {convenient interface to minimap2.} +} + +conflict minimap2 + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/minimap2-2.26-y3vmcty55ylj3pkfcqdyfwkcedow4oqq/lib} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/minimap2-2.26-y3vmcty55ylj3pkfcqdyfwkcedow4oqq/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/minimap2-2.26-y3vmcty55ylj3pkfcqdyfwkcedow4oqq/.} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/minimap2-2.26-y3vmcty55ylj3pkfcqdyfwkcedow4oqq/lib/python3.11/site-packages} +setenv MINIMAP2_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/minimap2-2.26-y3vmcty55ylj3pkfcqdyfwkcedow4oqq} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/mmseqs2/14-7e284 b/modulefiles/hpccf/franklin/v0.21/software/mmseqs2/14-7e284 new file mode 100644 index 00000000..7d54276c --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/mmseqs2/14-7e284 @@ -0,0 +1,40 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:04.965613 +## +## mmseqs2@14-7e284%gcc@11.4.0~ipo~mpi~openmp build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/wwjt2kf +## +## Configure options: -DVERSION_OVERRIDE=14-7e284 -DUSE_SYSTEM_ZSTD=1 -DREQUIRE_OPENMP=0 -DHAVE_MPI=0 +## + + +module-whatis {MMseqs2 (Many-against-Many sequence searching) is a software suite to search and cluster huge protein and nucleotide sequence sets} + +proc ModulesHelp { } { + puts stderr {Name : mmseqs2} + puts stderr {Version: 14-7e284} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {MMseqs2 (Many-against-Many sequence searching) is a software suite to} + puts stderr {search and cluster huge protein and nucleotide sequence sets} +} + +conflict mmseqs2 + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mmseqs2-14-7e284-wwjt2kfisjbj6elr2eyvvhz23rls54l5/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mmseqs2-14-7e284-wwjt2kfisjbj6elr2eyvvhz23rls54l5/.} +setenv MMSEQS2_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mmseqs2-14-7e284-wwjt2kfisjbj6elr2eyvvhz23rls54l5} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/module-index.yaml b/modulefiles/hpccf/franklin/v0.21/software/module-index.yaml new file mode 100644 index 00000000..e3acfe8f --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/module-index.yaml @@ -0,0 +1,640 @@ +module_index: + johbeawvmbhuywzlio7s7avw3i7fkys4: + path: /share/apps/22.04/modulefiles/spack/software/relion/cpu/3.1.3+amd + use_name: relion/cpu/3.1.3+amd + gqddm74nam7yc77ai5vrxkxgjxppz3qs: + path: /share/apps/22.04/modulefiles/spack/software/relion/gpu/3.1.3+amd + use_name: relion/gpu/3.1.3+amd + ybouckk6hzlak4hcwxo3e2kfpoftaeu4: + path: /share/apps/22.04/modulefiles/spack/software/relion/gpu/3.1.3+intel + use_name: relion/gpu/3.1.3+intel + j2cnoemolrwoouqftxeicr7p6zkhfvbr: + path: /share/apps/22.04/modulefiles/spack/software/relion/cpu/4.0.1+amd + use_name: relion/cpu/4.0.1+amd + unwyr74jbzccwruahzkwskj2wcm2o7ey: + path: /share/apps/22.04/modulefiles/spack/software/relion/gpu/4.0.1+amd + use_name: relion/gpu/4.0.1+amd + unrz65aeoymxlesb3plm4dzjmpsjgipv: + path: /share/apps/22.04/modulefiles/spack/software/relion/gpu/4.0.1+intel + use_name: relion/gpu/4.0.1+intel + xg4fubpioxg2c44tdniolmktsdslrh7h: + path: /share/apps/22.04/modulefiles/spack/software/abyss/2.3.5 + use_name: abyss/2.3.5 + dtzmsajk32g6xufraj4kga7qhwqntc4l: + path: /share/apps/22.04/modulefiles/spack/software/amdfftw/4.1+amd + use_name: amdfftw/4.1+amd + qdrcsu2cjawervpofi3pci7sjhmkdovp: + path: /share/apps/22.04/modulefiles/spack/software/angsd/0.935 + use_name: angsd/0.935 + pnveeed3npsefk226ppz7ogb6is6x3pl: + path: /share/apps/22.04/modulefiles/spack/software/aragorn/1.2.41 + use_name: aragorn/1.2.41 + t3wl4qur2nk2d2ufal3a2xwckroh7n5k: + path: /share/apps/22.04/modulefiles/spack/software/aria2/1.36.0 + use_name: aria2/1.36.0 + ilke725ydjfta5qq5hj56vurth2yp7v2: + path: /share/apps/22.04/modulefiles/spack/software/aspera-cli/3.7.7 + use_name: aspera-cli/3.7.7 + udjicidvvalzttval5hmcaqmsuunmswk: + path: /share/apps/22.04/modulefiles/spack/software/augustus/3.5.0 + use_name: augustus/3.5.0 + fg32zdj7swu2igkb5swbeojye2txcwow: + path: /share/apps/22.04/modulefiles/spack/software/awscli/1.29.41 + use_name: awscli/1.29.41 + mpcwsjcde2hxexageg7pr4b3xutvgzos: + path: /share/apps/22.04/modulefiles/spack/software/bayenv2/2.0 + use_name: bayenv2/2.0 + fautbixulbv44ncr5mqcv3kxgbmp3iip: + path: /share/apps/22.04/modulefiles/spack/software/bbmap/39.01 + use_name: bbmap/39.01 + ko4c5ts5lwxcg3f2z3beh26yibpzcimt: + path: /share/apps/22.04/modulefiles/spack/software/bcftools/1.16 + use_name: bcftools/1.16 + 2ijrtxhhubecu54jyecvav532kz3tbmk: + path: /share/apps/22.04/modulefiles/spack/software/beagle/5.4 + use_name: beagle/5.4 + zspxugcipkk3oick36z4vxmnjmptw43i: + path: /share/apps/22.04/modulefiles/spack/software/bedops/2.4.41 + use_name: bedops/2.4.41 + 4zmzllsotldo5bcpwtavvgja4drzxhgh: + path: /share/apps/22.04/modulefiles/spack/software/bedtools2/2.31.0 + use_name: bedtools2/2.31.0 + spcghx3zhezhl5xmrodhy26q52fwgrt5: + path: /share/apps/22.04/modulefiles/spack/software/blast-plus/2.13.0 + use_name: blast-plus/2.13.0 + t4ea2nl5pxsxejo5xkkxmzgejs52zvtf: + path: /share/apps/22.04/modulefiles/spack/software/blast2go/5.2.5 + use_name: blast2go/5.2.5 + i2ljonpzqhrz6sajb7mx4hbn6xayptsv: + path: /share/apps/22.04/modulefiles/spack/software/boost/1.82.0 + use_name: boost/1.82.0 + 5x5jkvr7khh6h7vx6qayaz677g7sxy37: + path: /share/apps/22.04/modulefiles/spack/software/bowtie/1.3.1 + use_name: bowtie/1.3.1 + belpcno47lzwxzvjp7hmg3lrobmqfqw3: + path: /share/apps/22.04/modulefiles/spack/software/bowtie2/2.5.1 + use_name: bowtie2/2.5.1 + opfddbwqtbzqsmekdqcx6bb57c36ybgr: + path: /share/apps/22.04/modulefiles/spack/software/braker/2.1.6 + use_name: braker/2.1.6 + ircblq4hyx565euukxx66qlo3q6pcw5p: + path: /share/apps/22.04/modulefiles/spack/software/busco/5.4.3 + use_name: busco/5.4.3 + y22jt6d7qm63i2tohmu7gqeedxytadky: + path: /share/apps/22.04/modulefiles/spack/software/bwa/0.7.17 + use_name: bwa/0.7.17 + 6c7yiazxomiybiid3e7qfu2qx5z73vhk: + path: /share/apps/22.04/modulefiles/spack/software/bwtool/1.0 + use_name: bwtool/1.0 + c3vnkum6unfohk23dfiw4avkknpmx74h: + path: /share/apps/22.04/modulefiles/spack/software/bzip2/1.0.8 + use_name: bzip2/1.0.8 + juv33lg4nca7tpzz6zdngw34pw52aexh: + path: /share/apps/22.04/modulefiles/spack/software/canu/2.2 + use_name: canu/2.2 + 62wj2sdwhztvtwvu2scbkcxvpoe2neoh: + path: /share/apps/22.04/modulefiles/spack/software/cap3/2015-02-11 + use_name: cap3/2015-02-11 + kauufslqxf67f74pbrrtv3w3f6iwq5zr: + path: /share/apps/22.04/modulefiles/spack/software/cdhit/4.8.1 + use_name: cdhit/4.8.1 + c3capt52tvmkftfonagdn33y5nxbmdtf: + path: /share/apps/22.04/modulefiles/spack/software/cgal/5.4.1 + use_name: cgal/5.4.1 + csche5beb4ncyqheoggxbchykahhyprk: + path: /share/apps/22.04/modulefiles/spack/software/circos/0.69-9 + use_name: circos/0.69-9 + dgofc5t2mbg742dxoubkblaezzag6wiq: + path: /share/apps/22.04/modulefiles/spack/software/clustal-omega/1.2.4 + use_name: clustal-omega/1.2.4 + fbusvz2ptnoolwakgwvovlyegiy5tvqv: + path: /share/apps/22.04/modulefiles/spack/software/clustalw/2.1 + use_name: clustalw/2.1 + xfbf4xbbdycszyafvwyxnfktn5oh5srg: + path: /share/apps/22.04/modulefiles/spack/software/cmake/3.27.7 + use_name: cmake/3.27.7 + 3lsqssaihwjacxh5moowm5g3lfxv3gnx: + path: /share/apps/22.04/modulefiles/spack/software/corset/1.09 + use_name: corset/1.09 + uqsjztnwxwbiznxk4y7hn25i6f5ycnjz: + path: /share/apps/22.04/modulefiles/spack/software/ctffind/4.1.14+amd + use_name: ctffind/4.1.14+amd + myhgc3zqfoozdugyysirndf5kbgt77ez: + path: /share/apps/22.04/modulefiles/spack/software/ctffind/4.1.14+intel + use_name: ctffind/4.1.14+intel + vlisunz67mjsmju4u4vv42fw2vyks4yy: + path: /share/apps/22.04/modulefiles/spack/software/cufflinks/2.2.1 + use_name: cufflinks/2.2.1 + x3illbaqcavhj6qlfi45gxvfcvp5mcgb: + path: /share/apps/22.04/modulefiles/spack/software/dashing/0.4.0 + use_name: dashing/0.4.0 + wyglftzsdv5rhtie4fdjzldddfaz4eba: + path: /share/apps/22.04/modulefiles/spack/software/diamond/2.1.7 + use_name: diamond/2.1.7 + ewfnc5bvzlvlp2vjqci5bkbhquftfxtz: + path: /share/apps/22.04/modulefiles/spack/software/doxygen/1.9.6 + use_name: doxygen/1.9.6 + feicgswcm2hinif3fc5gvnktszyw56ws: + path: /share/apps/22.04/modulefiles/spack/software/dssp/3.1.4 + use_name: dssp/3.1.4 + zonslfevleeezzwhuvw242cfhjrnctih: + path: /share/apps/22.04/modulefiles/spack/software/ea-utils/2021-10-20 + use_name: ea-utils/2021-10-20 + erbdmfohsxs5fwsclup67liy4br2xxcp: + path: /share/apps/22.04/modulefiles/spack/software/eigen/3.4.0 + use_name: eigen/3.4.0 + l7ssdewtpguv6fnwc6itsxuoouhu4hxs: + path: /share/apps/22.04/modulefiles/spack/software/elk/8.3.22 + use_name: elk/8.3.22 + rvvit2v3w65xfty5cpy7grvgwogqm6g5: + path: /share/apps/22.04/modulefiles/spack/software/emboss/6.6.0 + use_name: emboss/6.6.0 + 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ray/2.3.1 + w7zwknt2cib77ywygzdadkiinndeawfm: + path: /share/apps/22.04/modulefiles/spack/software/rclone/1.63.1 + use_name: rclone/1.63.1 + kas6a4pgm3gb7xdri74xr7rjd777fyh6: + path: /share/apps/22.04/modulefiles/spack/software/recon/1.05 + use_name: recon/1.05 + 3yij42ue5fposxukcjrzne6kvj42v7ky: + path: /share/apps/22.04/modulefiles/spack/software/repeatmasker/4.1.5 + use_name: repeatmasker/4.1.5 + epix5ibegxko73qljaz7voiqvx2at7ts: + path: /share/apps/22.04/modulefiles/spack/software/repeatmodeler/1.0.11 + use_name: repeatmodeler/1.0.11 + awlkjt63q7jfsf5op27zswicizmij6w2: + path: /share/apps/22.04/modulefiles/spack/software/repeatscout/1.0.5 + use_name: repeatscout/1.0.5 + az7bd7jvg2ftxaybgidluihsisy4hwxw: + path: /share/apps/22.04/modulefiles/spack/software/rnaquast/2.2.0 + use_name: rnaquast/2.2.0 + wqkgum4ca5gcom6wywno4j2tjfo73d2v: + path: /share/apps/22.04/modulefiles/spack/software/rsem/1.3.3 + use_name: rsem/1.3.3 + ywemrhcabo3336ezgwn7u2xnhnnuttz4: + path: /share/apps/22.04/modulefiles/spack/software/sabre/2013-09-27 + use_name: sabre/2013-09-27 + a2rxzkalcako6xay7y46f35tbnpa2zao: + path: /share/apps/22.04/modulefiles/spack/software/salmon/1.10.1 + use_name: salmon/1.10.1 + o5drh4avdcqmxamkfbu75paqnmujivy7: + path: /share/apps/22.04/modulefiles/spack/software/samtools/1.16.1 + use_name: samtools/1.16.1 + 6cdmrajqeslumt7sc6gxkknyue7pcc4s: + path: /share/apps/22.04/modulefiles/spack/software/satsuma2/2021-03-04 + use_name: satsuma2/2021-03-04 + aayp4y2fms7g7njn5mjf5wb4uy5mgr6s: + path: /share/apps/22.04/modulefiles/spack/software/scallop/0.10.5 + use_name: scallop/0.10.5 + wnplxtcjrhyaxgcctadxixuehg5v3vni: + path: /share/apps/22.04/modulefiles/spack/software/seqprep/1.3.2 + use_name: seqprep/1.3.2 + qrlwj24266wnmvlfapn73xzljvhkf5gi: + path: /share/apps/22.04/modulefiles/spack/software/seqtk/1.4 + use_name: seqtk/1.4 + fg3xg5rg6ahi7mafx3mz4gy56wl4mi4z: + path: /share/apps/22.04/modulefiles/spack/software/sickle/1.33 + use_name: sickle/1.33 + t2vph24q33vnx7nobxtkcpwksnahqgzd: + path: /share/apps/22.04/modulefiles/spack/software/slim/4.0.1 + use_name: slim/4.0.1 + prpqv4ieu543dex6lb6jwjwt3vymdvj3: + path: /share/apps/22.04/modulefiles/spack/software/smartdenovo/master + use_name: smartdenovo/master + pgkeg3upnjpme7wapqwtz7suw2h5xb4m: + path: /share/apps/22.04/modulefiles/spack/software/snap-korf/2021-11-04 + use_name: snap-korf/2021-11-04 + opdu6witmipbaq5ndzqp3vrdri455nv3: + path: /share/apps/22.04/modulefiles/spack/software/sortmerna/2017-07-13 + use_name: sortmerna/2017-07-13 + h2zjbdqp7ucyguglsreehixfuflq2miz: + path: /share/apps/22.04/modulefiles/spack/software/spades/3.15.5 + use_name: spades/3.15.5 + pgnzkm2lonylc7c6vh26u742gdggyta6: + path: /share/apps/22.04/modulefiles/spack/software/sratoolkit/3.0.0 + use_name: sratoolkit/3.0.0 + zo5nkicrfrerzhc5zksfqbdhvl4jxkn6: + path: /share/apps/22.04/modulefiles/spack/software/star/2.7.10b + use_name: star/2.7.10b + 2yiaq2e4vsskrbiqfhwd6frbe5ixotjm: + path: /share/apps/22.04/modulefiles/spack/software/stringtie/2.2.1 + use_name: stringtie/2.2.1 + occubno3rdusbn526i5nj7qfqsindrsg: + path: /share/apps/22.04/modulefiles/spack/software/subread/2.0.2 + use_name: subread/2.0.2 + nhdodty23wzksle7yqh2ptzzauann67b: + path: /share/apps/22.04/modulefiles/spack/software/tabix/2013-12-16 + use_name: tabix/2013-12-16 + fjuvads3skpamfj66xumh2iat4b4ynfr: + path: /share/apps/22.04/modulefiles/spack/software/tassel/5.2.86 + use_name: tassel/5.2.86 + 5cehxe5jqu624z47v3wmtqgi7ad7imov: + path: /share/apps/22.04/modulefiles/spack/software/tophat/2.1.2 + use_name: tophat/2.1.2 + mhi2idatenajed5dphd4rmf7vwpaxvec: + path: /share/apps/22.04/modulefiles/spack/software/trimgalore/0.6.10 + use_name: trimgalore/0.6.10 + n4gfv33sufoaiotxkdxz2c6z65wmtrfz: + path: /share/apps/22.04/modulefiles/spack/software/trimmomatic/0.39 + use_name: trimmomatic/0.39 + qibm27lbi54stpew5vmuya2g7kz4azgg: + path: /share/apps/22.04/modulefiles/spack/software/turbovnc/3.0.3 + use_name: turbovnc/3.0.3 + aygudd3bcttnihpdidb6e67cvkzfrglp: + path: /share/apps/22.04/modulefiles/spack/software/usearch/11.0.667 + use_name: usearch/11.0.667 + hkftdwrss2dvhhu73nvvhe7qazzk2cnd: + path: /share/apps/22.04/modulefiles/spack/software/valgrind/3.20.0 + use_name: valgrind/3.20.0 + rvel6c5ca65htqv3zkro3oq4bbdgru2x: + path: /share/apps/22.04/modulefiles/spack/software/vcftools/0.1.14 + use_name: vcftools/0.1.14 + ed3rraiq5alqcplr7yblshh4ol7renwp: + path: /share/apps/22.04/modulefiles/spack/software/velvet/1.2.10 + use_name: velvet/1.2.10 + hhv5yqaeilirnd4ngodj6xb5qmimwd2f: + path: /share/apps/22.04/modulefiles/spack/software/velvetoptimiser/2.2.6 + use_name: velvetoptimiser/2.2.6 + lmpdtgsmtmzh6tbrwbzpkkk5ssdck2od: + path: /share/apps/22.04/modulefiles/spack/software/virtualgl/2.5.2 + use_name: virtualgl/2.5.2 + m33uhdokezh6ihhgai5a3pmomatjuq7j: + path: /share/apps/22.04/modulefiles/spack/software/voropp/0.4.6 + use_name: voropp/0.4.6 + uv5aztj5zek5xmmclqqbjo4shz7pvbrj: + path: /share/apps/22.04/modulefiles/spack/software/vsearch/2.22.1 + use_name: vsearch/2.22.1 + r7l5pneiv4jgwamab6bwqj7socbaq75q: + path: /share/apps/22.04/modulefiles/spack/software/xerces-c/3.2.4 + use_name: xerces-c/3.2.4 + si2y7msin7a6fxo6sbhwc6mbf45m2pll: + path: /share/apps/22.04/modulefiles/spack/software/yasm/1.3.0 + use_name: yasm/1.3.0 + rubwmbyumz37c5uh4gnbealnodpguolm: + path: /share/apps/22.04/modulefiles/spack/software/zlib/1.2.13 + use_name: zlib/1.2.13 + 7qivncfbeb2loemvr3ntod457xlzrccs: + path: /share/apps/22.04/modulefiles/spack/software/gctf/1.06 + use_name: gctf/1.06 + liclxyt6xde324m4pj5h5efreimi7iih: + path: /share/apps/22.04/modulefiles/spack/software/motioncor2/1.5.0 + use_name: motioncor2/1.5.0 + knxfx2woum257i5jozl3s6yvqisjhcpb: + path: /share/apps/22.04/modulefiles/spack/software/alphafold/2.2.4 + use_name: alphafold/2.2.4 diff --git a/modulefiles/hpccf/franklin/v0.21/software/mothur/1.48.0 b/modulefiles/hpccf/franklin/v0.21/software/mothur/1.48.0 new file mode 100644 index 00000000..e68fbf38 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/mothur/1.48.0 @@ -0,0 +1,48 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:05.100955 +## +## mothur@1.48.0%gcc@11.4.0+boost~gsl~hdf5 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/zunahmc +## + + +module-whatis {This project seeks to develop a single piece of open-source, expandable software to fill the bioinformatics needs of the microbial ecology community.} + +proc ModulesHelp { } { + puts stderr {Name : mothur} + puts stderr {Version: 1.48.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {This project seeks to develop a single piece of open-source, expandable} + puts stderr {software to fill the bioinformatics needs of the microbial ecology} + puts stderr {community.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load usearch/11.0.667 +} else { + depends-on usearch/11.0.667 +} +prereq usearch/11.0.667 +conflict mothur + +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mothur-1.48.0-zunahmcmg44eizgkx3dvxj2gl6aikywr/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mothur-1.48.0-zunahmcmg44eizgkx3dvxj2gl6aikywr/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mothur-1.48.0-zunahmcmg44eizgkx3dvxj2gl6aikywr/include} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mothur-1.48.0-zunahmcmg44eizgkx3dvxj2gl6aikywr/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mothur-1.48.0-zunahmcmg44eizgkx3dvxj2gl6aikywr/.} +setenv MOTHUR_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mothur-1.48.0-zunahmcmg44eizgkx3dvxj2gl6aikywr} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/motioncor2/1.5.0 b/modulefiles/hpccf/franklin/v0.21/software/motioncor2/1.5.0 new file mode 100644 index 00000000..7f55559a --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/motioncor2/1.5.0 @@ -0,0 +1,43 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:05.299832 +## +## motioncor2@1.5.0%gcc@11.4.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/liclxyt +## + + +module-whatis {MotionCor2 is a multi-GPU program that corrects beam-induced sample motion recorded on dose fractionated movie stacks. It implements a robust iterative alignment algorithm that delivers precise measurement and correction of both global and non-uniform local motions at single pixel level, suitable for both single-particle and tomographic images. MotionCor2 is sufficiently fast to keep up with automated data collection.} + +proc ModulesHelp { } { + puts stderr {Name : motioncor2} + puts stderr {Version: 1.5.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {MotionCor2 is a multi-GPU program that corrects beam-induced sample} + puts stderr {motion recorded on dose fractionated movie stacks. It implements a} + puts stderr {robust iterative alignment algorithm that delivers precise measurement} + puts stderr {and correction of both global and non-uniform local motions at single} + puts stderr {pixel level, suitable for both single-particle and tomographic images.} + puts stderr {MotionCor2 is sufficiently fast to keep up with automated data} + puts stderr {collection.} +} + +conflict motioncor2 + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/motioncor2-1.5.0-liclxyt6xde324m4pj5h5efreimi7iih/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/motioncor2-1.5.0-liclxyt6xde324m4pj5h5efreimi7iih/.} +setenv MOTIONCOR2_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/motioncor2-1.5.0-liclxyt6xde324m4pj5h5efreimi7iih} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/mpfr/4.2.0 b/modulefiles/hpccf/franklin/v0.21/software/mpfr/4.2.0 new file mode 100644 index 00000000..f75d1de8 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/mpfr/4.2.0 @@ -0,0 +1,44 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:05.373440 +## +## mpfr@4.2.0%gcc@11.4.0 build_system=autotools libs=shared,static arch=linux-ubuntu22.04-x86_64_v3/ixzwbvh +## +## Configure options: --with-gmp=/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gmp-6.2.1-6vzcan3wt43o7khwtvbakwwv4mib6ilv --enable-shared --enable-static --with-pic +## + + +module-whatis {The MPFR library is a C library for multiple-precision floating-point computations with correct rounding.} + +proc ModulesHelp { } { + puts stderr {Name : mpfr} + puts stderr {Version: 4.2.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The MPFR library is a C library for multiple-precision floating-point} + puts stderr {computations with correct rounding.} +} + +conflict mpfr + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mpfr-4.2.0-ixzwbvh42mmndfth3fr6kojptuxnpktc/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mpfr-4.2.0-ixzwbvh42mmndfth3fr6kojptuxnpktc/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mpfr-4.2.0-ixzwbvh42mmndfth3fr6kojptuxnpktc/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mpfr-4.2.0-ixzwbvh42mmndfth3fr6kojptuxnpktc/include} +prepend-path --delim {:} PKG_CONFIG_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mpfr-4.2.0-ixzwbvh42mmndfth3fr6kojptuxnpktc/lib/pkgconfig} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mpfr-4.2.0-ixzwbvh42mmndfth3fr6kojptuxnpktc/.} +setenv MPFR_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mpfr-4.2.0-ixzwbvh42mmndfth3fr6kojptuxnpktc} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/mummer/3.23 b/modulefiles/hpccf/franklin/v0.21/software/mummer/3.23 new file mode 100644 index 00000000..fb86422c --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/mummer/3.23 @@ -0,0 +1,44 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:05.447657 +## +## mummer@3.23%gcc@11.4.0 build_system=generic patches=05f53ea,c23ea85 arch=linux-ubuntu22.04-x86_64_v3/qof6hft +## + + +module-whatis {MUMmer is a system for rapidly aligning entire genomes.} + +proc ModulesHelp { } { + puts stderr {Name : mummer} + puts stderr {Version: 3.23} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {MUMmer is a system for rapidly aligning entire genomes.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load gnuplot/5.4.3 +} else { + depends-on gnuplot/5.4.3 +} +prereq gnuplot/5.4.3 +conflict mummer + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mummer-3.23-qof6hftirtgtdrctlufkudmqe6sloqf7/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mummer-3.23-qof6hftirtgtdrctlufkudmqe6sloqf7/.} +prepend-path --delim {:} XLOCALEDIR {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libx11-1.8.4-zkd3h7btls3gx3c3akcrwrwqd46l43i6/share/X11/locale} +setenv MUMMER_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mummer-3.23-qof6hftirtgtdrctlufkudmqe6sloqf7} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/mummer4/4.0.0rc1 b/modulefiles/hpccf/franklin/v0.21/software/mummer4/4.0.0rc1 new file mode 100644 index 00000000..b8d175cf --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/mummer4/4.0.0rc1 @@ -0,0 +1,42 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:05.677082 +## +## mummer4@4.0.0rc1%gcc@11.4.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/7nmrdqb +## + + +module-whatis {MUMmer is a versatil alignment tool for DNA and protein sequences.} + +proc ModulesHelp { } { + puts stderr {Name : mummer4} + puts stderr {Version: 4.0.0rc1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {MUMmer is a versatil alignment tool for DNA and protein sequences.} +} + +conflict mummer4 + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mummer4-4.0.0rc1-7nmrdqb5baia4tex6bz2kdlkgwckhg5y/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mummer4-4.0.0rc1-7nmrdqb5baia4tex6bz2kdlkgwckhg5y/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mummer4-4.0.0rc1-7nmrdqb5baia4tex6bz2kdlkgwckhg5y/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mummer4-4.0.0rc1-7nmrdqb5baia4tex6bz2kdlkgwckhg5y/include} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mummer4-4.0.0rc1-7nmrdqb5baia4tex6bz2kdlkgwckhg5y/bin} +prepend-path --delim {:} PKG_CONFIG_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mummer4-4.0.0rc1-7nmrdqb5baia4tex6bz2kdlkgwckhg5y/lib/pkgconfig} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mummer4-4.0.0rc1-7nmrdqb5baia4tex6bz2kdlkgwckhg5y/.} +setenv MUMMER4_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mummer4-4.0.0rc1-7nmrdqb5baia4tex6bz2kdlkgwckhg5y} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/muscle/3.8.1551 b/modulefiles/hpccf/franklin/v0.21/software/muscle/3.8.1551 new file mode 100644 index 00000000..a73b4271 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/muscle/3.8.1551 @@ -0,0 +1,39 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:05.785009 +## +## muscle@3.8.1551%gcc@11.4.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/xfkjman +## + + +module-whatis {MUSCLE is one of the best-performing multiple alignment programs according to published benchmark tests, with accuracy and speed that are consistently better than CLUSTALW.} + +proc ModulesHelp { } { + puts stderr {Name : muscle} + puts stderr {Version: 3.8.1551} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {MUSCLE is one of the best-performing multiple alignment programs} + puts stderr {according to published benchmark tests, with accuracy and speed that are} + puts stderr {consistently better than CLUSTALW.} +} + +conflict muscle + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/muscle-3.8.1551-xfkjmanwtgxn5bvw5plm5d6knyy2ce4u/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/muscle-3.8.1551-xfkjmanwtgxn5bvw5plm5d6knyy2ce4u/.} +setenv MUSCLE_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/muscle-3.8.1551-xfkjmanwtgxn5bvw5plm5d6knyy2ce4u} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/muscle5/5.1.0 b/modulefiles/hpccf/franklin/v0.21/software/muscle5/5.1.0 new file mode 100644 index 00000000..16caca8c --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/muscle5/5.1.0 @@ -0,0 +1,38 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:05.809378 +## +## muscle5@5.1.0%gcc@11.4.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/czccbor +## + + +module-whatis {MUSCLE is widely-used software for making multiple alignments of biological sequences. } + +proc ModulesHelp { } { + puts stderr {Name : muscle5} + puts stderr {Version: 5.1.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {MUSCLE is widely-used software for making multiple alignments of} + puts stderr {biological sequences.} +} + +conflict muscle5 + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/muscle5-5.1.0-czccborswx4syvqgmziee4la2lbqrf6y/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/muscle5-5.1.0-czccborswx4syvqgmziee4la2lbqrf6y/.} +setenv MUSCLE5_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/muscle5-5.1.0-czccborswx4syvqgmziee4la2lbqrf6y} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/ncbi-rmblastn/2.14.0 b/modulefiles/hpccf/franklin/v0.21/software/ncbi-rmblastn/2.14.0 new file mode 100644 index 00000000..65aaff2b --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/ncbi-rmblastn/2.14.0 @@ -0,0 +1,49 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:05.864919 +## +## ncbi-rmblastn@2.14.0%gcc@11.4.0 build_system=autotools patches=cd083f2 arch=linux-ubuntu22.04-x86_64_v3/yt4rv4f +## +## Configure options: --with-mt --without-debug --without-krb5 --without-openssl --without-libuv --with-projects=scripts/projects/rmblastn/project.lst +## + + +module-whatis {RMBlast search engine for NCBI} + +proc ModulesHelp { } { + puts stderr {Name : ncbi-rmblastn} + puts stderr {Version: 2.14.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {RMBlast search engine for NCBI} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load bzip2/1.0.8 +} else { + depends-on bzip2/1.0.8 +} +prereq bzip2/1.0.8 +conflict ncbi-rmblastn + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ncbi-rmblastn-2.14.0-yt4rv4f7c3mljyw4sojgskrowfftw42o/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ncbi-rmblastn-2.14.0-yt4rv4f7c3mljyw4sojgskrowfftw42o/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ncbi-rmblastn-2.14.0-yt4rv4f7c3mljyw4sojgskrowfftw42o/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ncbi-rmblastn-2.14.0-yt4rv4f7c3mljyw4sojgskrowfftw42o/include} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ncbi-rmblastn-2.14.0-yt4rv4f7c3mljyw4sojgskrowfftw42o/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ncbi-rmblastn-2.14.0-yt4rv4f7c3mljyw4sojgskrowfftw42o/.} +setenv NCBI_RMBLASTN_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ncbi-rmblastn-2.14.0-yt4rv4f7c3mljyw4sojgskrowfftw42o} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/ncbi-toolkit/26_0_1 b/modulefiles/hpccf/franklin/v0.21/software/ncbi-toolkit/26_0_1 new file mode 100644 index 00000000..0ddccb3b --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/ncbi-toolkit/26_0_1 @@ -0,0 +1,49 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:06.006216 +## +## ncbi-toolkit@26_0_1%gcc@11.4.0~debug build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/2elqe6w +## +## Configure options: --without-sybase --without-fastcgi --without-debug +## + + +module-whatis {NCBI C++ Toolkit} + +proc ModulesHelp { } { + puts stderr {Name : ncbi-toolkit} + puts stderr {Version: 26_0_1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {NCBI C++ Toolkit} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load bzip2/1.0.8 +} else { + depends-on bzip2/1.0.8 +} +prereq bzip2/1.0.8 +conflict ncbi-toolkit + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ncbi-toolkit-26_0_1-2elqe6wsetmc52etvxjisys6xitgxj5r/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ncbi-toolkit-26_0_1-2elqe6wsetmc52etvxjisys6xitgxj5r/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ncbi-toolkit-26_0_1-2elqe6wsetmc52etvxjisys6xitgxj5r/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ncbi-toolkit-26_0_1-2elqe6wsetmc52etvxjisys6xitgxj5r/include} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ncbi-toolkit-26_0_1-2elqe6wsetmc52etvxjisys6xitgxj5r/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ncbi-toolkit-26_0_1-2elqe6wsetmc52etvxjisys6xitgxj5r/.} +setenv NCBI_TOOLKIT_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ncbi-toolkit-26_0_1-2elqe6wsetmc52etvxjisys6xitgxj5r} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/ncbi-vdb/3.0.2 b/modulefiles/hpccf/franklin/v0.21/software/ncbi-vdb/3.0.2 new file mode 100644 index 00000000..008dde57 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/ncbi-vdb/3.0.2 @@ -0,0 +1,42 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:06.325858 +## +## ncbi-vdb@3.0.2%gcc@11.4.0~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/uhy2f7a +## + + +module-whatis {The SRA Toolkit and SDK from NCBI is a collection of tools and libraries for using data in the INSDC Sequence Read Archives. This package contains the interface to the VDB.} + +proc ModulesHelp { } { + puts stderr {Name : ncbi-vdb} + puts stderr {Version: 3.0.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The SRA Toolkit and SDK from NCBI is a collection of tools and libraries} + puts stderr {for using data in the INSDC Sequence Read Archives. This package} + puts stderr {contains the interface to the VDB.} +} + +conflict ncbi-vdb + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ncbi-vdb-3.0.2-uhy2f7arc3ptknk3vhng2f76qxufo25e/lib64} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ncbi-vdb-3.0.2-uhy2f7arc3ptknk3vhng2f76qxufo25e/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ncbi-vdb-3.0.2-uhy2f7arc3ptknk3vhng2f76qxufo25e/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ncbi-vdb-3.0.2-uhy2f7arc3ptknk3vhng2f76qxufo25e/include} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ncbi-vdb-3.0.2-uhy2f7arc3ptknk3vhng2f76qxufo25e/.} +setenv NCBI_VDB_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ncbi-vdb-3.0.2-uhy2f7arc3ptknk3vhng2f76qxufo25e} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/nco/5.1.6 b/modulefiles/hpccf/franklin/v0.21/software/nco/5.1.6 new file mode 100644 index 00000000..e13b6106 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/nco/5.1.6 @@ -0,0 +1,52 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:06.537356 +## +## nco@5.1.6%gcc@11.4.0~doc build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/pd3n7b7 +## +## Configure options: --disable-doc +## + + +module-whatis {The NCO toolkit manipulates and analyzes data stored in netCDF-accessible formats} + +proc ModulesHelp { } { + puts stderr {Name : nco} + puts stderr {Version: 5.1.6} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The NCO toolkit manipulates and analyzes data stored in netCDF-} + puts stderr {accessible formats} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load gsl/2.7.1 + module load netcdf-c/4.9.2 +} else { + depends-on gsl/2.7.1 + depends-on netcdf-c/4.9.2 +} +prereq gsl/2.7.1 +prereq netcdf-c/4.9.2 +conflict nco + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/nco-5.1.6-pd3n7b7bmv4l4o4twffzgpos25keamnf/lib} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/nco-5.1.6-pd3n7b7bmv4l4o4twffzgpos25keamnf/bin} +prepend-path --delim {:} MANPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/nco-5.1.6-pd3n7b7bmv4l4o4twffzgpos25keamnf/share/man} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/nco-5.1.6-pd3n7b7bmv4l4o4twffzgpos25keamnf/.} +setenv NCO_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/nco-5.1.6-pd3n7b7bmv4l4o4twffzgpos25keamnf} +append-path --delim {:} MANPATH {} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/netcdf-c/4.9.2 b/modulefiles/hpccf/franklin/v0.21/software/netcdf-c/4.9.2 new file mode 100644 index 00000000..73b6fdd5 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/netcdf-c/4.9.2 @@ -0,0 +1,56 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:07.131787 +## +## netcdf-c@4.9.2%gcc@11.4.0+blosc~byterange~dap~fsync~hdf4~jna+mpi~nczarr_zip+optimize~parallel-netcdf+pic+shared+szip+zstd build_system=autotools patches=0161eb8 arch=linux-ubuntu22.04-x86_64_v3/hjgmf4q +## + + +module-whatis {NetCDF (network Common Data Form) is a set of software libraries and machine-independent data formats that support the creation, access, and sharing of array-oriented scientific data. This is the C distribution.} + +proc ModulesHelp { } { + puts stderr {Name : netcdf-c} + puts stderr {Version: 4.9.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {NetCDF (network Common Data Form) is a set of software libraries and} + puts stderr {machine-independent data formats that support the creation, access, and} + puts stderr {sharing of array-oriented scientific data. This is the C distribution.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load bzip2/1.0.8 + module load libszip/2.1.1 +} else { + depends-on bzip2/1.0.8 + depends-on libszip/2.1.1 +} +prereq bzip2/1.0.8 +prereq libszip/2.1.1 +conflict netcdf-c + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/netcdf-c-4.9.2-hjgmf4qnwzoyitqw72njohbdki26zi6g/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/netcdf-c-4.9.2-hjgmf4qnwzoyitqw72njohbdki26zi6g/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/netcdf-c-4.9.2-hjgmf4qnwzoyitqw72njohbdki26zi6g/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/netcdf-c-4.9.2-hjgmf4qnwzoyitqw72njohbdki26zi6g/include} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/netcdf-c-4.9.2-hjgmf4qnwzoyitqw72njohbdki26zi6g/bin} +prepend-path --delim {:} MANPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/netcdf-c-4.9.2-hjgmf4qnwzoyitqw72njohbdki26zi6g/share/man} +prepend-path --delim {:} PKG_CONFIG_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/netcdf-c-4.9.2-hjgmf4qnwzoyitqw72njohbdki26zi6g/lib/pkgconfig} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/netcdf-c-4.9.2-hjgmf4qnwzoyitqw72njohbdki26zi6g/.} +append-path --delim {:} HDF5_PLUGIN_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/netcdf-c-4.9.2-hjgmf4qnwzoyitqw72njohbdki26zi6g/plugins} +setenv NETCDF_C_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/netcdf-c-4.9.2-hjgmf4qnwzoyitqw72njohbdki26zi6g} +append-path --delim {:} MANPATH {} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/netcdf-cxx4/4.3.1 b/modulefiles/hpccf/franklin/v0.21/software/netcdf-cxx4/4.3.1 new file mode 100644 index 00000000..a40738d8 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/netcdf-cxx4/4.3.1 @@ -0,0 +1,52 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:07.270027 +## +## netcdf-cxx4@4.3.1%gcc@11.4.0~doc+pic+shared build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/piz5al6 +## +## Configure options: --enable-shared --disable-doxygen --disable-filter-testing +## + + +module-whatis {NetCDF (network Common Data Form) is a set of software libraries and machine-independent data formats that support the creation, access, and sharing of array-oriented scientific data. This is the C++ distribution.} + +proc ModulesHelp { } { + puts stderr {Name : netcdf-cxx4} + puts stderr {Version: 4.3.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {NetCDF (network Common Data Form) is a set of software libraries and} + puts stderr {machine-independent data formats that support the creation, access, and} + puts stderr {sharing of array-oriented scientific data. This is the C++ distribution.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load netcdf-c/4.9.2 +} else { + depends-on netcdf-c/4.9.2 +} +prereq netcdf-c/4.9.2 +conflict netcdf-cxx4 + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/netcdf-cxx4-4.3.1-piz5al6i62fzfermf3ukibg7hppbibbh/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/netcdf-cxx4-4.3.1-piz5al6i62fzfermf3ukibg7hppbibbh/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/netcdf-cxx4-4.3.1-piz5al6i62fzfermf3ukibg7hppbibbh/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/netcdf-cxx4-4.3.1-piz5al6i62fzfermf3ukibg7hppbibbh/include} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/netcdf-cxx4-4.3.1-piz5al6i62fzfermf3ukibg7hppbibbh/bin} +prepend-path --delim {:} PKG_CONFIG_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/netcdf-cxx4-4.3.1-piz5al6i62fzfermf3ukibg7hppbibbh/lib/pkgconfig} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/netcdf-cxx4-4.3.1-piz5al6i62fzfermf3ukibg7hppbibbh/.} +setenv NETCDF_CXX4_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/netcdf-cxx4-4.3.1-piz5al6i62fzfermf3ukibg7hppbibbh} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/netcdf-fortran/4.6.0 b/modulefiles/hpccf/franklin/v0.21/software/netcdf-fortran/4.6.0 new file mode 100644 index 00000000..b79450be --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/netcdf-fortran/4.6.0 @@ -0,0 +1,55 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:07.373497 +## +## netcdf-fortran@4.6.0%gcc@11.4.0~doc+pic+shared build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/xsz7cjg +## +## Configure options: --enable-static --enable-shared --disable-doxygen --disable-parallel-tests +## + + +module-whatis {NetCDF (network Common Data Form) is a set of software libraries and machine-independent data formats that support the creation, access, and sharing of array-oriented scientific data. This is the Fortran distribution.} + +proc ModulesHelp { } { + puts stderr {Name : netcdf-fortran} + puts stderr {Version: 4.6.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {NetCDF (network Common Data Form) is a set of software libraries and} + puts stderr {machine-independent data formats that support the creation, access, and} + puts stderr {sharing of array-oriented scientific data. This is the Fortran} + puts stderr {distribution.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load netcdf-c/4.9.2 +} else { + depends-on netcdf-c/4.9.2 +} +prereq netcdf-c/4.9.2 +conflict netcdf-fortran + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/netcdf-fortran-4.6.0-xsz7cjgihikyyfv2zbgnx4rz67ssf5wh/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/netcdf-fortran-4.6.0-xsz7cjgihikyyfv2zbgnx4rz67ssf5wh/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/netcdf-fortran-4.6.0-xsz7cjgihikyyfv2zbgnx4rz67ssf5wh/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/netcdf-fortran-4.6.0-xsz7cjgihikyyfv2zbgnx4rz67ssf5wh/include} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/netcdf-fortran-4.6.0-xsz7cjgihikyyfv2zbgnx4rz67ssf5wh/bin} +prepend-path --delim {:} MANPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/netcdf-fortran-4.6.0-xsz7cjgihikyyfv2zbgnx4rz67ssf5wh/share/man} +prepend-path --delim {:} PKG_CONFIG_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/netcdf-fortran-4.6.0-xsz7cjgihikyyfv2zbgnx4rz67ssf5wh/lib/pkgconfig} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/netcdf-fortran-4.6.0-xsz7cjgihikyyfv2zbgnx4rz67ssf5wh/.} +setenv NETCDF_FORTRAN_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/netcdf-fortran-4.6.0-xsz7cjgihikyyfv2zbgnx4rz67ssf5wh} +append-path --delim {:} MANPATH {} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/netlib-lapack/3.11.0 b/modulefiles/hpccf/franklin/v0.21/software/netlib-lapack/3.11.0 new file mode 100644 index 00000000..93cffac4 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/netlib-lapack/3.11.0 @@ -0,0 +1,45 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:07.470683 +## +## netlib-lapack@3.11.0%gcc@11.4.0~external-blas~ipo+lapacke+shared~xblas build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/g77nxmz +## + + +module-whatis {LAPACK version 3.X is a comprehensive FORTRAN library that does linear algebra operations including matrix inversions, least squared solutions to linear sets of equations, eigenvector analysis, singular value decomposition, etc. It is a very comprehensive and reputable package that has found extensive use in the scientific community.} + +proc ModulesHelp { } { + puts stderr {Name : netlib-lapack} + puts stderr {Version: 3.11.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {LAPACK version 3.X is a comprehensive FORTRAN library that does linear} + puts stderr {algebra operations including matrix inversions, least squared solutions} + puts stderr {to linear sets of equations, eigenvector analysis, singular value} + puts stderr {decomposition, etc. It is a very comprehensive and reputable package} + puts stderr {that has found extensive use in the scientific community.} +} + +conflict netlib-lapack + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/netlib-lapack-3.11.0-g77nxmzqylask34pdk5nwvm7p7zx5esn/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/netlib-lapack-3.11.0-g77nxmzqylask34pdk5nwvm7p7zx5esn/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/netlib-lapack-3.11.0-g77nxmzqylask34pdk5nwvm7p7zx5esn/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/netlib-lapack-3.11.0-g77nxmzqylask34pdk5nwvm7p7zx5esn/include} +prepend-path --delim {:} PKG_CONFIG_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/netlib-lapack-3.11.0-g77nxmzqylask34pdk5nwvm7p7zx5esn/lib/pkgconfig} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/netlib-lapack-3.11.0-g77nxmzqylask34pdk5nwvm7p7zx5esn/.} +setenv NETLIB_LAPACK_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/netlib-lapack-3.11.0-g77nxmzqylask34pdk5nwvm7p7zx5esn} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/netlib-xblas/1.0.248 b/modulefiles/hpccf/franklin/v0.21/software/netlib-xblas/1.0.248 new file mode 100644 index 00000000..85adb3dc --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/netlib-xblas/1.0.248 @@ -0,0 +1,49 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:07.519856 +## +## netlib-xblas@1.0.248%gcc@11.4.0+fortran+plain_blas build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/dripasn +## + + +module-whatis {XBLAS is a reference implementation for extra precision BLAS.} + +proc ModulesHelp { } { + puts stderr {Name : netlib-xblas} + puts stderr {Version: 1.0.248} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {XBLAS is a reference implementation for extra precision BLAS. XBLAS is a} + puts stderr {reference implementation for the dense and banded BLAS routines, along} + puts stderr {with extended and mixed precision version. Extended precision is only} + puts stderr {used internally; input and output arguments remain the same as in the} + puts stderr {existing BLAS. Extra precisions is implemented as double-double (i.e.,} + puts stderr {128-bit total, 106-bit significand). Mixed precision permits some} + puts stderr {input/output arguments of different types (mixing real and complex) or} + puts stderr {precisions (mixing single and double). This implementation is proof of} + puts stderr {concept, and no attempt was made to optimize performance; performance} + puts stderr {should be as good as straightforward but careful code written by hand.} +} + +conflict netlib-xblas + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/netlib-xblas-1.0.248-dripasniip4y4basljwvcx3ifipupufg/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/netlib-xblas-1.0.248-dripasniip4y4basljwvcx3ifipupufg/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/netlib-xblas-1.0.248-dripasniip4y4basljwvcx3ifipupufg/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/netlib-xblas-1.0.248-dripasniip4y4basljwvcx3ifipupufg/include} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/netlib-xblas-1.0.248-dripasniip4y4basljwvcx3ifipupufg/.} +setenv NETLIB_XBLAS_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/netlib-xblas-1.0.248-dripasniip4y4basljwvcx3ifipupufg} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/nextflow/23.04.3 b/modulefiles/hpccf/franklin/v0.21/software/nextflow/23.04.3 new file mode 100644 index 00000000..8867bc4a --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/nextflow/23.04.3 @@ -0,0 +1,37 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:07.571629 +## +## nextflow@23.04.3%gcc@11.4.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/2icfqau +## + + +module-whatis {Data-driven computational pipelines.} + +proc ModulesHelp { } { + puts stderr {Name : nextflow} + puts stderr {Version: 23.04.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Data-driven computational pipelines.} +} + +conflict nextflow + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/nextflow-23.04.3-2icfqauxq25sm5bssi5knqodddu7fbir/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/nextflow-23.04.3-2icfqauxq25sm5bssi5knqodddu7fbir/.} +setenv NEXTFLOW_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/nextflow-23.04.3-2icfqauxq25sm5bssi5knqodddu7fbir} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/ngsadmix/2018-03-19 b/modulefiles/hpccf/franklin/v0.21/software/ngsadmix/2018-03-19 new file mode 100644 index 00000000..ff94a5f3 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/ngsadmix/2018-03-19 @@ -0,0 +1,37 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:07.630993 +## +## ngsadmix@2018-03-19%gcc@11.4.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/uvybhif +## + + +module-whatis {Inferring admixture proportions from NGS data.} + +proc ModulesHelp { } { + puts stderr {Name : ngsadmix} + puts stderr {Version: 2018-03-19} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Inferring admixture proportions from NGS data.} +} + +conflict ngsadmix + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ngsadmix-2018-03-19-uvybhif5zemn5zrfkdlqpc553q36klxy/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ngsadmix-2018-03-19-uvybhif5zemn5zrfkdlqpc553q36klxy/.} +setenv NGSADMIX_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ngsadmix-2018-03-19-uvybhif5zemn5zrfkdlqpc553q36klxy} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/ngstools/2023-04-05 b/modulefiles/hpccf/franklin/v0.21/software/ngstools/2023-04-05 new file mode 100644 index 00000000..e39af981 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/ngstools/2023-04-05 @@ -0,0 +1,61 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:07.760482 +## +## ngstools@2023-04-05%gcc@11.4.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/2zjs4o2 +## + + +module-whatis {ngsTools is a collection of programs for population genetics analyses from NGS data, taking into account data statistical uncertainty. The methods implemented in these programs do not rely on SNP or genotype calling, and are particularly suitable for low sequencing depth data. An application note illustrating its application has published (Fumagalli et al. 2014).} + +proc ModulesHelp { } { + puts stderr {Name : ngstools} + puts stderr {Version: 2023-04-05} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {ngsTools is a collection of programs for population genetics analyses} + puts stderr {from NGS data, taking into account data statistical uncertainty. The} + puts stderr {methods implemented in these programs do not rely on SNP or genotype} + puts stderr {calling, and are particularly suitable for low sequencing depth data. An} + puts stderr {application note illustrating its application has published (Fumagalli} + puts stderr {et al. 2014).} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load bzip2/1.0.8 + module load gsl/2.7.1 + module load htslib/1.17 +} else { + depends-on bzip2/1.0.8 + depends-on gsl/2.7.1 + depends-on htslib/1.17 +} +prereq bzip2/1.0.8 +prereq gsl/2.7.1 +prereq htslib/1.17 +conflict ngstools + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ngstools-2023-04-05-2zjs4o2jcrp5zed7rkk5q6szvpu7sdl7/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ngstools-2023-04-05-2zjs4o2jcrp5zed7rkk5q6szvpu7sdl7/.} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ngstools-2023-04-05-2zjs4o2jcrp5zed7rkk5q6szvpu7sdl7/bin/ngsSim} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ngstools-2023-04-05-2zjs4o2jcrp5zed7rkk5q6szvpu7sdl7/bin/ngsPopGen} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ngstools-2023-04-05-2zjs4o2jcrp5zed7rkk5q6szvpu7sdl7/bin/ngsUtils} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ngstools-2023-04-05-2zjs4o2jcrp5zed7rkk5q6szvpu7sdl7/bin/ngsDist} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ngstools-2023-04-05-2zjs4o2jcrp5zed7rkk5q6szvpu7sdl7/bin/ngsLD} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ngstools-2023-04-05-2zjs4o2jcrp5zed7rkk5q6szvpu7sdl7/bin/ngsF} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ngstools-2023-04-05-2zjs4o2jcrp5zed7rkk5q6szvpu7sdl7/bin/ngsF-HMM} +setenv NGSTOOLS_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ngstools-2023-04-05-2zjs4o2jcrp5zed7rkk5q6szvpu7sdl7} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/nlohmann-json/3.11.2 b/modulefiles/hpccf/franklin/v0.21/software/nlohmann-json/3.11.2 new file mode 100644 index 00000000..c31077aa --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/nlohmann-json/3.11.2 @@ -0,0 +1,42 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:07.911944 +## +## nlohmann-json@3.11.2%gcc@11.4.0~ipo+multiple_headers build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/xld6o7u +## +## Configure options: -DJSON_MultipleHeaders:BOOL=ON -DJSON_BuildTests:BOOL=OFF +## + + +module-whatis {JSON for Modern C++} + +proc ModulesHelp { } { + puts stderr {Name : nlohmann-json} + puts stderr {Version: 3.11.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {JSON for Modern C++} +} + +conflict nlohmann-json + +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/nlohmann-json-3.11.2-xld6o7uzgaeqwhaxfk7yy3jbpqpenmk4/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/nlohmann-json-3.11.2-xld6o7uzgaeqwhaxfk7yy3jbpqpenmk4/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/nlohmann-json-3.11.2-xld6o7uzgaeqwhaxfk7yy3jbpqpenmk4/include} +prepend-path --delim {:} PKG_CONFIG_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/nlohmann-json-3.11.2-xld6o7uzgaeqwhaxfk7yy3jbpqpenmk4/share/pkgconfig} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/nlohmann-json-3.11.2-xld6o7uzgaeqwhaxfk7yy3jbpqpenmk4/.} +setenv NLOHMANN_JSON_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/nlohmann-json-3.11.2-xld6o7uzgaeqwhaxfk7yy3jbpqpenmk4} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/numactl/2.0.14 b/modulefiles/hpccf/franklin/v0.21/software/numactl/2.0.14 new file mode 100644 index 00000000..12811fb1 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/numactl/2.0.14 @@ -0,0 +1,44 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:07.965535 +## +## numactl@2.0.14%gcc@11.4.0 build_system=autotools patches=4e1d78c,62fc8a8,ff37630 arch=linux-ubuntu22.04-x86_64_v3/jh637qp +## + + +module-whatis {NUMA support for Linux} + +proc ModulesHelp { } { + puts stderr {Name : numactl} + puts stderr {Version: 2.0.14} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {NUMA support for Linux} +} + +conflict numactl + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/numactl-2.0.14-jh637qpg3ay6eu4bxtkggxyjrkptescu/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/numactl-2.0.14-jh637qpg3ay6eu4bxtkggxyjrkptescu/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/numactl-2.0.14-jh637qpg3ay6eu4bxtkggxyjrkptescu/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/numactl-2.0.14-jh637qpg3ay6eu4bxtkggxyjrkptescu/include} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/numactl-2.0.14-jh637qpg3ay6eu4bxtkggxyjrkptescu/bin} +prepend-path --delim {:} MANPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/numactl-2.0.14-jh637qpg3ay6eu4bxtkggxyjrkptescu/share/man} +prepend-path --delim {:} PKG_CONFIG_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/numactl-2.0.14-jh637qpg3ay6eu4bxtkggxyjrkptescu/lib/pkgconfig} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/numactl-2.0.14-jh637qpg3ay6eu4bxtkggxyjrkptescu/.} +setenv NUMACTL_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/numactl-2.0.14-jh637qpg3ay6eu4bxtkggxyjrkptescu} +append-path --delim {:} MANPATH {} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/ont-guppy/6.1.7 b/modulefiles/hpccf/franklin/v0.21/software/ont-guppy/6.1.7 new file mode 100644 index 00000000..198e256a --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/ont-guppy/6.1.7 @@ -0,0 +1,38 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:08.026741 +## +## ont-guppy@6.1.7%gcc@11.4.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/oo4tlst +## + + +module-whatis {Guppy: local accelerated basecalling for Nanopore data} + +proc ModulesHelp { } { + puts stderr {Name : ont-guppy} + puts stderr {Version: 6.1.7} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Guppy: local accelerated basecalling for Nanopore data} +} + +conflict ont-guppy + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ont-guppy-6.1.7-oo4tlstexpwienjmqeki4hoic7s4ygox/lib} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ont-guppy-6.1.7-oo4tlstexpwienjmqeki4hoic7s4ygox/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ont-guppy-6.1.7-oo4tlstexpwienjmqeki4hoic7s4ygox/.} +setenv ONT_GUPPY_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ont-guppy-6.1.7-oo4tlstexpwienjmqeki4hoic7s4ygox} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/openblas/0.3.23 b/modulefiles/hpccf/franklin/v0.21/software/openblas/0.3.23 new file mode 100644 index 00000000..fc0de522 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/openblas/0.3.23 @@ -0,0 +1,42 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:08.061896 +## +## openblas@0.3.23%gcc@11.4.0~bignuma~consistent_fpcsr+fortran~ilp64+locking+pic+shared build_system=makefile symbol_suffix=none threads=none arch=linux-ubuntu22.04-x86_64_v3/xvmd2ww +## + + +module-whatis {OpenBLAS: An optimized BLAS library} + +proc ModulesHelp { } { + puts stderr {Name : openblas} + puts stderr {Version: 0.3.23} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {OpenBLAS: An optimized BLAS library} +} + +conflict openblas + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/openblas-0.3.23-xvmd2ww5vnwge3dmyzknnajssocfbgi7/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/openblas-0.3.23-xvmd2ww5vnwge3dmyzknnajssocfbgi7/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/openblas-0.3.23-xvmd2ww5vnwge3dmyzknnajssocfbgi7/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/openblas-0.3.23-xvmd2ww5vnwge3dmyzknnajssocfbgi7/include} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/openblas-0.3.23-xvmd2ww5vnwge3dmyzknnajssocfbgi7/bin} +prepend-path --delim {:} PKG_CONFIG_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/openblas-0.3.23-xvmd2ww5vnwge3dmyzknnajssocfbgi7/lib/pkgconfig} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/openblas-0.3.23-xvmd2ww5vnwge3dmyzknnajssocfbgi7/.} +setenv OPENBLAS_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/openblas-0.3.23-xvmd2ww5vnwge3dmyzknnajssocfbgi7} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/openjdk/11.0.17_8 b/modulefiles/hpccf/franklin/v0.21/software/openjdk/11.0.17_8 new file mode 100644 index 00000000..ee7431e2 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/openjdk/11.0.17_8 @@ -0,0 +1,44 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:08.098221 +## +## openjdk@11.0.17_8%gcc@11.4.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/oyru4nt +## + + +module-whatis {The free and opensource java implementation} + +proc ModulesHelp { } { + puts stderr {Name : openjdk} + puts stderr {Version: 11.0.17_8} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The free and opensource java implementation} +} + +conflict openjdk + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/openjdk-11.0.17_8-oyru4ntcyjjtjpfzftqeaokikeakmo4t/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/openjdk-11.0.17_8-oyru4ntcyjjtjpfzftqeaokikeakmo4t/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/openjdk-11.0.17_8-oyru4ntcyjjtjpfzftqeaokikeakmo4t/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/openjdk-11.0.17_8-oyru4ntcyjjtjpfzftqeaokikeakmo4t/include} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/openjdk-11.0.17_8-oyru4ntcyjjtjpfzftqeaokikeakmo4t/bin} +prepend-path --delim {:} MANPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/openjdk-11.0.17_8-oyru4ntcyjjtjpfzftqeaokikeakmo4t/man} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/openjdk-11.0.17_8-oyru4ntcyjjtjpfzftqeaokikeakmo4t/.} +setenv JAVA_HOME {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/openjdk-11.0.17_8-oyru4ntcyjjtjpfzftqeaokikeakmo4t} +setenv OPENJDK_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/openjdk-11.0.17_8-oyru4ntcyjjtjpfzftqeaokikeakmo4t} +append-path --delim {:} MANPATH {} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/openjdk/16.0.2 b/modulefiles/hpccf/franklin/v0.21/software/openjdk/16.0.2 new file mode 100644 index 00000000..3ca3fe5d --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/openjdk/16.0.2 @@ -0,0 +1,42 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:08.131230 +## +## openjdk@16.0.2%gcc@11.4.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/ewwlhbt +## + + +module-whatis {The free and opensource java implementation} + +proc ModulesHelp { } { + puts stderr {Name : openjdk} + puts stderr {Version: 16.0.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The free and opensource java implementation} +} + +conflict openjdk + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/openjdk-16.0.2-ewwlhbtqp6kbvnl5vomk2lmbwfpidv5u/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/openjdk-16.0.2-ewwlhbtqp6kbvnl5vomk2lmbwfpidv5u/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/openjdk-16.0.2-ewwlhbtqp6kbvnl5vomk2lmbwfpidv5u/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/openjdk-16.0.2-ewwlhbtqp6kbvnl5vomk2lmbwfpidv5u/include} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/openjdk-16.0.2-ewwlhbtqp6kbvnl5vomk2lmbwfpidv5u/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/openjdk-16.0.2-ewwlhbtqp6kbvnl5vomk2lmbwfpidv5u/.} +setenv JAVA_HOME {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/openjdk-16.0.2-ewwlhbtqp6kbvnl5vomk2lmbwfpidv5u} +setenv OPENJDK_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/openjdk-16.0.2-ewwlhbtqp6kbvnl5vomk2lmbwfpidv5u} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/openldap/2.4.49 b/modulefiles/hpccf/franklin/v0.21/software/openldap/2.4.49 new file mode 100644 index 00000000..435c076a --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/openldap/2.4.49 @@ -0,0 +1,48 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:08.188064 +## +## openldap@2.4.49%gcc@11.4.0+client_only+dynamic~icu~perl+sasl+shared~static build_system=autotools tls=gnutls arch=linux-ubuntu22.04-x86_64_v3/ujzgxo7 +## +## Configure options: CPPFLAGS=-D_GNU_SOURCE --disable-debug --disable-slapd --with-cyrus-sasl --disable-static --enable-shared --enable-dynamic +## + + +module-whatis { OpenLDAP Software is an open source implementation of the Lightweight Directory Access Protocol. The suite includes:} + +proc ModulesHelp { } { + puts stderr {Name : openldap} + puts stderr {Version: 2.4.49} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr { OpenLDAP Software is an open source implementation of the Lightweight} + puts stderr {Directory Access Protocol. The suite includes: slapd - stand-alone LDAP} + puts stderr {daemon (server) libraries implementing the LDAP protocol, and utilities,} + puts stderr {tools, and sample clients.} +} + +conflict openldap + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/openldap-2.4.49-ujzgxo7nwdrvq7v3w6xckvacv2rxau6a/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/openldap-2.4.49-ujzgxo7nwdrvq7v3w6xckvacv2rxau6a/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/openldap-2.4.49-ujzgxo7nwdrvq7v3w6xckvacv2rxau6a/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/openldap-2.4.49-ujzgxo7nwdrvq7v3w6xckvacv2rxau6a/include} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/openldap-2.4.49-ujzgxo7nwdrvq7v3w6xckvacv2rxau6a/bin} +prepend-path --delim {:} MANPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/openldap-2.4.49-ujzgxo7nwdrvq7v3w6xckvacv2rxau6a/share/man} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/openldap-2.4.49-ujzgxo7nwdrvq7v3w6xckvacv2rxau6a/.} +setenv OPENLDAP_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/openldap-2.4.49-ujzgxo7nwdrvq7v3w6xckvacv2rxau6a} +append-path --delim {:} MANPATH {} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/orthofinder/2.5.5 b/modulefiles/hpccf/franklin/v0.21/software/orthofinder/2.5.5 new file mode 100644 index 00000000..1c2b7172 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/orthofinder/2.5.5 @@ -0,0 +1,57 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:08.375306 +## +## orthofinder@2.5.5%gcc@11.4.0~blast~iqtree~mmseqs2~muscle~raxml~raxml-ng build_system=generic arch=linux-ubuntu22.04-x86_64_v3/nzgilbi +## + + +module-whatis {OrthoFinder is a fast, accurate and comprehensive analysis tool for comparative genomics.} + +proc ModulesHelp { } { + puts stderr {Name : orthofinder} + puts stderr {Version: 2.5.5} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {OrthoFinder is a fast, accurate and comprehensive analysis tool for} + puts stderr {comparative genomics. It finds orthologues and orthogroups infers rooted} + puts stderr {gene trees for all orthogroups and infers a rooted species tree for the} + puts stderr {species being analysed. OrthoFinder also provides comprehensive} + puts stderr {statistics for comparative genomic analyses. OrthoFinder is simple to} + puts stderr {use and all you need to run it is a set of protein sequence files (one} + puts stderr {per species) in FASTA format.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load fasttree/2.1.11 + module load mafft/7.505 +} else { + depends-on fasttree/2.1.11 + depends-on mafft/7.505 +} +prereq fasttree/2.1.11 +prereq mafft/7.505 +conflict orthofinder + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/orthofinder-2.5.5-nzgilbilwee4bei4xlchrnjy75e5tkiw/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/orthofinder-2.5.5-nzgilbilwee4bei4xlchrnjy75e5tkiw/.} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-numpy-1.25.2-vcmulzidmbvifm7idcfedcwkrf4p2w44/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-setuptools-63.4.3-hsixzjesbrxime2qpwqaxwdkrwbz22vq/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-scipy-1.11.2-p46kbevbvkrsbexurcsxzv7huk3tbot6/lib/python3.11/site-packages} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/orthofinder-2.5.5-nzgilbilwee4bei4xlchrnjy75e5tkiw/bin} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/orthofinder-2.5.5-nzgilbilwee4bei4xlchrnjy75e5tkiw/bin/tools} +setenv ORTHOFINDER_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/orthofinder-2.5.5-nzgilbilwee4bei4xlchrnjy75e5tkiw} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/orthomcl/2.0.9 b/modulefiles/hpccf/franklin/v0.21/software/orthomcl/2.0.9 new file mode 100644 index 00000000..c5898703 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/orthomcl/2.0.9 @@ -0,0 +1,40 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:08.724660 +## +## orthomcl@2.0.9%gcc@11.4.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/ylcmhqo +## + + +module-whatis {OrthoMCL is a genome-scale algorithm for grouping orthologous protein sequences.} + +proc ModulesHelp { } { + puts stderr {Name : orthomcl} + puts stderr {Version: 2.0.9} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {OrthoMCL is a genome-scale algorithm for grouping orthologous protein} + puts stderr {sequences.} +} + +conflict orthomcl + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/orthomcl-2.0.9-ylcmhqoi44j26mxkc32227iyaoybdacu/lib} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/orthomcl-2.0.9-ylcmhqoi44j26mxkc32227iyaoybdacu/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/orthomcl-2.0.9-ylcmhqoi44j26mxkc32227iyaoybdacu/.} +prepend-path --delim {:} PERL5LIB {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/orthomcl-2.0.9-ylcmhqoi44j26mxkc32227iyaoybdacu/lib} +setenv ORTHOMCL_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/orthomcl-2.0.9-ylcmhqoi44j26mxkc32227iyaoybdacu} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/parallel/20220522 b/modulefiles/hpccf/franklin/v0.21/software/parallel/20220522 new file mode 100644 index 00000000..56d7e2c1 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/parallel/20220522 @@ -0,0 +1,41 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:08.908935 +## +## parallel@20220522%gcc@11.4.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/rdq2jwf +## + + +module-whatis {GNU parallel is a shell tool for executing jobs in parallel using one or more computers. A job can be a single command or a small script that has to be run for each of the lines in the input. } + +proc ModulesHelp { } { + puts stderr {Name : parallel} + puts stderr {Version: 20220522} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {GNU parallel is a shell tool for executing jobs in parallel using one or} + puts stderr {more computers. A job can be a single command or a small script that has} + puts stderr {to be run for each of the lines in the input.} +} + +conflict parallel + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/parallel-20220522-rdq2jwfipzfxcazu5l3hpk4pao2vytlu/bin} +prepend-path --delim {:} MANPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/parallel-20220522-rdq2jwfipzfxcazu5l3hpk4pao2vytlu/share/man} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/parallel-20220522-rdq2jwfipzfxcazu5l3hpk4pao2vytlu/.} +setenv PARALLEL_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/parallel-20220522-rdq2jwfipzfxcazu5l3hpk4pao2vytlu} +append-path --delim {:} MANPATH {} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/paraview/5.11.1 b/modulefiles/hpccf/franklin/v0.21/software/paraview/5.11.1 new file mode 100644 index 00000000..580e611b --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/paraview/5.11.1 @@ -0,0 +1,65 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:09.365491 +## +## paraview@5.11.1%gcc@11.4.0~adios2~advanced_debug~catalyst~cuda+development_files~examples~eyedomelighting~fortran~hdf5~ipo+kits~libcatalyst+mpi+opengl2~osmesa~pagosa~python~qt~raytracing~rocm+shared~tbb~visitbridge build_edition=canonical build_system=cmake build_type=Release generator=ninja patches=02253c7,acb3805 use_vtkm=default arch=linux-ubuntu22.04-x86_64_v3/4g7fe7v +## +## Configure options: -DVTK_OPENGL_HAS_OSMESA:BOOL=OFF -DVTK_USE_X:BOOL=ON -DPARAVIEW_INSTALL_DEVELOPMENT_FILES:BOOL=ON -DBUILD_TESTING:BOOL=OFF -DOpenGL_GL_PREFERENCE:STRING=LEGACY -DPARAVIEW_ENABLE_VISITBRIDGE:BOOL=OFF -DVISIT_BUILD_READER_Silo:BOOL=OFF -DVTK_MODULE_USE_EXTERNAL_VTK_verdict:BOOL=OFF -DVTK_MODULE_USE_EXTERNAL_ParaView_vtkcatalyst:BOOL=OFF -DVTK_MODULE_USE_EXTERNAL_VTK_ioss:BOOL=OFF -DVTK_MODULE_USE_EXTERNAL_VTK_exprtk:BOOL=OFF -DVTK_MODULE_USE_EXTERNAL_VTK_fmt:BOOL=OFF -DPARAVIEW_BUILD_EDITION:STRING=CANONICAL -DPARAVIEW_USE_QT:BOOL=OFF -DPARAVIEW_BUILD_WITH_EXTERNAL=ON -DPARAVIEW_ENABLE_EXAMPLES:BOOL=OFF -DVTK_MODULE_USE_EXTERNAL_ParaView_cgns=OFF -DVTK_MODULE_USE_EXTERNAL_VTK_gl2ps=OFF -DVTK_MODULE_USE_EXTERNAL_VTK_libharu=OFF -DVTK_MODULE_USE_EXTERNAL_VTK_utf8=OFF -DPARAVIEW_ENABLE_PYTHON:BOOL=OFF -DPARAVIEW_USE_MPI:BOOL=ON -DMPIEXEC:FILEPATH=/share/apps/22.04/spack/environments/core/view/generic/openmpi-4.1.5/bin/mpiexec -DMPI_CXX_COMPILER:PATH=/share/apps/22.04/spack/environments/core/view/generic/openmpi-4.1.5/bin/mpic++ -DMPI_C_COMPILER:PATH=/share/apps/22.04/spack/environments/core/view/generic/openmpi-4.1.5/bin/mpicc -DMPI_Fortran_COMPILER:PATH=/share/apps/22.04/spack/environments/core/view/generic/openmpi-4.1.5/bin/mpif90 -DPARAVIEW_BUILD_SHARED_LIBS:BOOL=ON -DPARAVIEW_USE_CUDA:BOOL=OFF -DPARAVIEW_BUILD_WITH_KITS:BOOL=ON -DPARAVIEW_USE_HIP:BOOL=OFF -DPARAVIEW_ENABLE_RAYTRACING:BOOL=OFF -DVTK_ENABLE_OSPRAY:BOOL=OFF -DVTKOSPRAY_ENABLE_DENOISER:BOOL=OFF +## + + +module-whatis {ParaView is an open-source, multi-platform data analysis and visualization application. This package includes the Catalyst in-situ library for versions 5.7 and greater, otherwise use the catalyst package.} + +proc ModulesHelp { } { + puts stderr {Name : paraview} + puts stderr {Version: 5.11.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {ParaView is an open-source, multi-platform data analysis and} + puts stderr {visualization application. This package includes the Catalyst in-situ} + puts stderr {library for versions 5.7 and greater, otherwise use the catalyst} + puts stderr {package.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load bzip2/1.0.8 + module load eigen/3.4.0 + module load nlohmann-json/3.11.2 +} else { + depends-on bzip2/1.0.8 + depends-on eigen/3.4.0 + depends-on nlohmann-json/3.11.2 +} +prereq bzip2/1.0.8 +prereq eigen/3.4.0 +prereq nlohmann-json/3.11.2 +conflict paraview + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/paraview-5.11.1-4g7fe7vzmypadcsobomtwtdcbyjkexnd/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/paraview-5.11.1-4g7fe7vzmypadcsobomtwtdcbyjkexnd/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/paraview-5.11.1-4g7fe7vzmypadcsobomtwtdcbyjkexnd/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/paraview-5.11.1-4g7fe7vzmypadcsobomtwtdcbyjkexnd/include} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/paraview-5.11.1-4g7fe7vzmypadcsobomtwtdcbyjkexnd/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/paraview-5.11.1-4g7fe7vzmypadcsobomtwtdcbyjkexnd/.} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/paraview-5.11.1-4g7fe7vzmypadcsobomtwtdcbyjkexnd/lib/python3.11/site-packages} +prepend-path --delim {:} XLOCALEDIR {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libx11-1.8.4-zaqf7dicjkl3i2sg2ciot74vsehx7k47/share/X11/locale} +setenv PROJ_LIB {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/proj-8.1.0-nrswii6eg6hrbrmqgfc6muprpwufg5j5/share/proj} +setenv ParaView_DIR {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/paraview-5.11.1-4g7fe7vzmypadcsobomtwtdcbyjkexnd} +setenv PARAVIEW_VTK_DIR {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/paraview-5.11.1-4g7fe7vzmypadcsobomtwtdcbyjkexnd/lib/cmake/paraview-5.11/vtk} +prepend-path --delim {:} LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/paraview-5.11.1-4g7fe7vzmypadcsobomtwtdcbyjkexnd/lib} +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/paraview-5.11.1-4g7fe7vzmypadcsobomtwtdcbyjkexnd/lib} +setenv PARAVIEW_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/paraview-5.11.1-4g7fe7vzmypadcsobomtwtdcbyjkexnd} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/phylip/3.697 b/modulefiles/hpccf/franklin/v0.21/software/phylip/3.697 new file mode 100644 index 00000000..7a2c80fc --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/phylip/3.697 @@ -0,0 +1,38 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:09.988174 +## +## phylip@3.697%gcc@11.4.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/dbaphhy +## + + +module-whatis {PHYLIP (the PHYLogeny Inference Package) is a package of programs for inferring phylogenies (evolutionary trees).} + +proc ModulesHelp { } { + puts stderr {Name : phylip} + puts stderr {Version: 3.697} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {PHYLIP (the PHYLogeny Inference Package) is a package of programs for} + puts stderr {inferring phylogenies (evolutionary trees).} +} + +conflict phylip + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/phylip-3.697-dbaphhyfkf2c7p63klmaxqitutxvm4zr/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/phylip-3.697-dbaphhyfkf2c7p63klmaxqitutxvm4zr/.} +setenv PHYLIP_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/phylip-3.697-dbaphhyfkf2c7p63klmaxqitutxvm4zr} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/picard/3.0.0 b/modulefiles/hpccf/franklin/v0.21/software/picard/3.0.0 new file mode 100644 index 00000000..8327c489 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/picard/3.0.0 @@ -0,0 +1,39 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:10.039132 +## +## picard@3.0.0%gcc@11.4.0~parameters build_system=generic arch=linux-ubuntu22.04-x86_64_v3/yfymvgt +## + + +module-whatis {Picard is a set of command line tools for manipulating high-throughput sequencing (HTS) data and formats such as SAM/BAM/CRAM and VCF. } + +proc ModulesHelp { } { + puts stderr {Name : picard} + puts stderr {Version: 3.0.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Picard is a set of command line tools for manipulating high-throughput} + puts stderr {sequencing (HTS) data and formats such as SAM/BAM/CRAM and VCF.} +} + +conflict picard + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/picard-3.0.0-yfymvgtuyyvh5jct4kehwifpdslradnf/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/picard-3.0.0-yfymvgtuyyvh5jct4kehwifpdslradnf/.} +prepend-path --delim {:} PICARD {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/picard-3.0.0-yfymvgtuyyvh5jct4kehwifpdslradnf/bin/picard.jar} +setenv PICARD_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/picard-3.0.0-yfymvgtuyyvh5jct4kehwifpdslradnf} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/pigz/2.7 b/modulefiles/hpccf/franklin/v0.21/software/pigz/2.7 new file mode 100644 index 00000000..2429cf10 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/pigz/2.7 @@ -0,0 +1,40 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:10.093710 +## +## pigz@2.7%gcc@11.4.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/3xfy43g +## + + +module-whatis {A parallel implementation of gzip for modern multi-processor, multi-core machines.} + +proc ModulesHelp { } { + puts stderr {Name : pigz} + puts stderr {Version: 2.7} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A parallel implementation of gzip for modern multi-processor, multi-core} + puts stderr {machines.} +} + +conflict pigz + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/pigz-2.7-3xfy43gjezixgyht2j7a3l5kqseugwbi/bin} +prepend-path --delim {:} MANPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/pigz-2.7-3xfy43gjezixgyht2j7a3l5kqseugwbi/man} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/pigz-2.7-3xfy43gjezixgyht2j7a3l5kqseugwbi/.} +setenv PIGZ_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/pigz-2.7-3xfy43gjezixgyht2j7a3l5kqseugwbi} +append-path --delim {:} MANPATH {} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/pilon/1.22 b/modulefiles/hpccf/franklin/v0.21/software/pilon/1.22 new file mode 100644 index 00000000..ee08b19c --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/pilon/1.22 @@ -0,0 +1,38 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:10.145073 +## +## pilon@1.22%gcc@11.4.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/qsvwvjt +## + + +module-whatis {Pilon is an automated genome assembly improvement and variant detection tool.} + +proc ModulesHelp { } { + puts stderr {Name : pilon} + puts stderr {Version: 1.22} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Pilon is an automated genome assembly improvement and variant detection} + puts stderr {tool.} +} + +conflict pilon + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/pilon-1.22-qsvwvjtalla2nkntdygtwjv4fr3gayxu/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/pilon-1.22-qsvwvjtalla2nkntdygtwjv4fr3gayxu/.} +setenv PILON_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/pilon-1.22-qsvwvjtalla2nkntdygtwjv4fr3gayxu} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/plink/1.07 b/modulefiles/hpccf/franklin/v0.21/software/plink/1.07 new file mode 100644 index 00000000..21056e4a --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/plink/1.07 @@ -0,0 +1,39 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:10.197498 +## +## plink@1.07%gcc@11.4.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/xw4vhig +## + + +module-whatis {PLINK is a free, open-source whole genome association analysis toolset, designed to perform a range of basic, large-scale analyses in a computationally efficient manner.} + +proc ModulesHelp { } { + puts stderr {Name : plink} + puts stderr {Version: 1.07} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {PLINK is a free, open-source whole genome association analysis toolset,} + puts stderr {designed to perform a range of basic, large-scale analyses in a} + puts stderr {computationally efficient manner.} +} + +conflict plink + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/plink-1.07-xw4vhig4twkuzyic7uuhji7y7vu2qiyp/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/plink-1.07-xw4vhig4twkuzyic7uuhji7y7vu2qiyp/.} +setenv PLINK_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/plink-1.07-xw4vhig4twkuzyic7uuhji7y7vu2qiyp} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/plumed/2.8.2 b/modulefiles/hpccf/franklin/v0.21/software/plumed/2.8.2 new file mode 100644 index 00000000..67f83e25 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/plumed/2.8.2 @@ -0,0 +1,57 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:10.287287 +## +## plumed@2.8.2%gcc@11.4.0+gsl+mpi+shared arrayfire=none build_system=autotools optional_modules=all arch=linux-ubuntu22.04-x86_64_v3/ckuff42 +## +## Configure options: --disable-ld-r --enable-mpi CXX=/share/apps/22.04/spack/environments/core/view/generic/openmpi-4.1.5/bin/mpic++ LDFLAGS=-L/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gsl-2.7.1-62tbsonbxsd6dhe3jpct2jzlsvf7u5ev/lib -L/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/openblas-0.3.24-bv4fuxbeduct24x23kf4c4ep4gex7avc/lib -lgsl -lopenblas --enable-shared=yes --enable-gsl=yes --enable-af_cpu=no --enable-af_cuda=no --enable-af_ocl=no --enable-modules=all +## + + +module-whatis {PLUMED is an open source library for free energy calculations in molecular systems which works together with some of the most popular molecular dynamics engines.} + +proc ModulesHelp { } { + puts stderr {Name : plumed} + puts stderr {Version: 2.8.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {PLUMED is an open source library for free energy calculations in} + puts stderr {molecular systems which works together with some of the most popular} + puts stderr {molecular dynamics engines. Free energy calculations can be performed as} + puts stderr {a function of many order parameters with a particular focus on} + puts stderr {biological problems, using state of the art methods such as} + puts stderr {metadynamics, umbrella sampling and Jarzynski-equation based steered MD.} + puts stderr {The software, written in C++, can be easily interfaced with both fortran} + puts stderr {and C/C++ codes.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load gsl/2.7.1 +} else { + depends-on gsl/2.7.1 +} +prereq gsl/2.7.1 +conflict plumed + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/plumed-2.8.2-ckuff4235jmqkzzwjtp6qqo5pgjaqhu4/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/plumed-2.8.2-ckuff4235jmqkzzwjtp6qqo5pgjaqhu4/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/plumed-2.8.2-ckuff4235jmqkzzwjtp6qqo5pgjaqhu4/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/plumed-2.8.2-ckuff4235jmqkzzwjtp6qqo5pgjaqhu4/include} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/plumed-2.8.2-ckuff4235jmqkzzwjtp6qqo5pgjaqhu4/bin} +prepend-path --delim {:} PKG_CONFIG_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/plumed-2.8.2-ckuff4235jmqkzzwjtp6qqo5pgjaqhu4/lib/pkgconfig} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/plumed-2.8.2-ckuff4235jmqkzzwjtp6qqo5pgjaqhu4/.} +setenv PLUMED_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/plumed-2.8.2-ckuff4235jmqkzzwjtp6qqo5pgjaqhu4} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/pplacer/1.1.alpha19 b/modulefiles/hpccf/franklin/v0.21/software/pplacer/1.1.alpha19 new file mode 100644 index 00000000..643af966 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/pplacer/1.1.alpha19 @@ -0,0 +1,41 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:10.402941 +## +## pplacer@1.1.alpha19%gcc@11.4.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/3zidmid +## + + +module-whatis {Pplacer places query sequences on a fixed reference phylogenetic tree to maximize phylogenetic likelihood or posterior probability according to a reference alignment. Pplacer is designed to be fast, to give useful information about uncertainty, and to offer advanced visualization and downstream analysis. } + +proc ModulesHelp { } { + puts stderr {Name : pplacer} + puts stderr {Version: 1.1.alpha19} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Pplacer places query sequences on a fixed reference phylogenetic tree to} + puts stderr {maximize phylogenetic likelihood or posterior probability according to a} + puts stderr {reference alignment. Pplacer is designed to be fast, to give useful} + puts stderr {information about uncertainty, and to offer advanced visualization and} + puts stderr {downstream analysis.} +} + +conflict pplacer + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/pplacer-1.1.alpha19-3zidmidfa5lj3bpbmge54hmwevzfxbzp/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/pplacer-1.1.alpha19-3zidmidfa5lj3bpbmge54hmwevzfxbzp/.} +setenv PPLACER_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/pplacer-1.1.alpha19-3zidmidfa5lj3bpbmge54hmwevzfxbzp} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/prodigal/2.6.3 b/modulefiles/hpccf/franklin/v0.21/software/prodigal/2.6.3 new file mode 100644 index 00000000..26d23d4c --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/prodigal/2.6.3 @@ -0,0 +1,37 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:10.438587 +## +## prodigal@2.6.3%gcc@11.4.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/nryjhvm +## + + +module-whatis {Fast, reliable protein-coding gene prediction for prokaryotic genomes.} + +proc ModulesHelp { } { + puts stderr {Name : prodigal} + puts stderr {Version: 2.6.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Fast, reliable protein-coding gene prediction for prokaryotic genomes.} +} + +conflict prodigal + +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/prodigal-2.6.3-nryjhvm445v3t3a6y7aurp53hkwcmzwz/.} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/prodigal-2.6.3-nryjhvm445v3t3a6y7aurp53hkwcmzwz} +setenv PRODIGAL_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/prodigal-2.6.3-nryjhvm445v3t3a6y7aurp53hkwcmzwz} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/prokka/1.14.6 b/modulefiles/hpccf/franklin/v0.21/software/prokka/1.14.6 new file mode 100644 index 00000000..dcac90de --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/prokka/1.14.6 @@ -0,0 +1,48 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:10.557089 +## +## prokka@1.14.6%gcc@11.4.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/gcu4ose +## + + +module-whatis {Prokka is a software tool to annotate bacterial, archaeal and viral genomes quickly and produce standards-compliant output files.} + +proc ModulesHelp { } { + puts stderr {Name : prokka} + puts stderr {Version: 1.14.6} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Prokka is a software tool to annotate bacterial, archaeal and viral} + puts stderr {genomes quickly and produce standards-compliant output files.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load hmmer/3.4 + module load prodigal/2.6.3 +} else { + depends-on hmmer/3.4 + depends-on prodigal/2.6.3 +} +prereq hmmer/3.4 +prereq prodigal/2.6.3 +conflict prokka + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/prokka-1.14.6-gcu4oset5tujg3htcgeb6bsg6ino3432/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/prokka-1.14.6-gcu4oset5tujg3htcgeb6bsg6ino3432/.} +prepend-path --delim {:} PERL5LIB {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-bio-searchio-hmmer-1.7.3-v5kbndaqd3cd6v2xrsppldd6tzv3y6df/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-bioperl-1.7.6-xvvpo2gyobu4gfnsyeziz7a7wc4b5aun/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-data-stag-0.14-k6fuanok3ca5p74mdjnvgswjjbkn27zy/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-io-string-1.08-epoalwv5tibo3mq7l4zmb4vt3cy6ibaw/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-error-0.17029-iw6lcxi7qojbkaoz6yzgjt2hvz2zjs6h/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-graph-0.20105-xi3ocjnbgytacdpcp4gpgplvuqluiqlr/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-http-message-6.44-mogcd3b3u6h5scsfv5wqdhvgtrv26yrs/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-clone-0.46-qvghnmvcsvkjlenivukbbv5ea7zfh7sj/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-encode-locale-1.05-i3yu5cubfljgrfrn2jidhaooexy43d4l/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-http-date-6.02-uj7noibxo6m4lh5nyku7knjhl7xowazv/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-io-html-1.004-aznx2hxrouq2jhbbz2a73o4eb4txalty/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-lwp-mediatypes-6.02-ydjxjaywnstf7lawjacfjlyt5vlj7dhx/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-try-tiny-0.31-l2hiyji7bj3ou3fixu4ed42a3w7ia4kn/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-uri-5.08-m5ahizgcnwspsjcfnzryoy6rxhcf55bg/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-io-stringy-2.111-qwb6tnjliwgaup6vweh4vz45k5kc22qd/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-ipc-run-20220807.0-22ub7mr2u4q2dz47gn5xbab6kskp5rpb/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-io-tty-1.17-lmhjxx2ozg36z6bylz66m362pbuk6mmw/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-libwww-perl-6.68-hvqainaa2tmfic7fhrem7ubxm2yk45ij/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-file-listing-6.04-fq4m3rsfoc7mue7i6clsqzzgbeonv4ko/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-html-parser-3.72-gzf4cxbun4apc2u5jdpculaqsuqexmqu/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-html-tagset-3.20-ethpjczwe6s7uxm63h4umtjmje6abd2n/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-http-cookies-6.10-xh2s5vjlca6hfuxbete2622tij7gzpng/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-http-daemon-6.01-gfrosn3r4nbeach6j3wmqbldrmme5scl/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-http-negotiate-6.01-4coqv76cecnps6mkigbatvlnffxicnpn/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-net-http-6.22-pc245egcgt2yj5bljdxgyhvte2jbirsc/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-www-robotrules-6.02-uplnyrnxrngag76gexmcr3dipz4gksrj/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-libxml-perl-0.08-5baff73ofg4227rw7qac6iv6iqdtzde3/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-list-moreutils-0.430-fqd4dxakvhwjq4aequfrg2j32w52xmn4/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-exporter-tiny-1.006002-5c4wtrrgtfejj5i4fk3wxwfvqzpvwxss/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-list-moreutils-xs-0.430-gxciivr6sbvymj5qq7qcs5n5usbcjgmq/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-module-build-0.4232-p443q7sj7u7b2uqtjhbg4g7asgsqe5d3/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-set-scalar-1.29-c43a6w7bdxr7lce6kq4jwrf3g4h7yomi/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-test-most-0.38-xqoual3gikenshk2xc5ic5agt3gzuu2d/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-exception-class-1.45-idhnokikrzwsm3gvnac4o25byeuwokvz/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-class-data-inheritable-0.08-2tw2aabplu4s4etzbkznfwajfksjogog/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22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+setenv PROKKA_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/prokka-1.14.6-gcu4oset5tujg3htcgeb6bsg6ino3432} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/py-alphafold/2.2.4 b/modulefiles/hpccf/franklin/v0.21/software/py-alphafold/2.2.4 new file mode 100644 index 00000000..0207a65d --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/py-alphafold/2.2.4 @@ -0,0 +1,122 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-20 15:24:35.956161 +## +## py-alphafold@2.2.4%gcc@11.4.0~cuda build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/knxfx2w +## + + +module-whatis {AlphaFold is an AI system developed by DeepMind that predicts a protein's 3D structure from its amino acid sequence. It regularly achieves accuracy competitive with experiment.} + +proc ModulesHelp { } { + puts stderr {Name : py-alphafold} + puts stderr {Version: 2.2.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {AlphaFold is an AI system developed by DeepMind that predicts a} + puts stderr {protein's 3D structure from its amino acid sequence. It regularly} + puts stderr {achieves accuracy competitive with experiment.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load hh-suite/3.3.0 + module load hmmer/3.4 + module load kalign/3.3.1 +} else { + depends-on hh-suite/3.3.0 + depends-on hmmer/3.4 + depends-on kalign/3.3.1 +} +prereq hh-suite/3.3.0 +prereq hmmer/3.4 +prereq kalign/3.3.1 +conflict py-alphafold + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-alphafold-2.2.4-knxfx2woum257i5jozl3s6yvqisjhcpb/lib} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-alphafold-2.2.4-knxfx2woum257i5jozl3s6yvqisjhcpb/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-alphafold-2.2.4-knxfx2woum257i5jozl3s6yvqisjhcpb/.} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-alphafold-2.2.4-knxfx2woum257i5jozl3s6yvqisjhcpb/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/openmm-7.5.1-3glgilajmpukczvtpxxscq6g7ghb72xj/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-numpy-1.22.4-7bmhfuxzgomebebnpowq3emn5yf3jqvk/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-setuptools-57.4.0-pimnnnhysdfbtj3dwvjvjtebblzx6ije/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-absl-py-1.4.0-i2xc5za3l24fa6nqbo2s4jcuxhed7p6a/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-biopython-1.81-hujswz3fyvgtea3bz23yhymwnfgjgyvc/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-chex-0.1.5-ge7oxtr7rhicm7afqcxwpwsv2w3ttlhd/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-dm-tree-0.1.8-n25vf77hcgl4eoqvnoz4gxj3g53py4xp/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-jax-0.4.3-4ltcwvziamay6c4wj3qnu6xt26ikdtz7/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-jaxlib-0.4.3-mnnluawx6i2nozcmhhaw3i6q424rzgau/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-scipy-1.7.1-qtojezc5kcva4ifikpibirrk3ajpwowr/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-opt-einsum-3.3.0-htuc7e2rcqkte32p36zpwzufkpl5tofd/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-toolz-0.12.0-edft4oyzq6fnyr7evdbieonew63jnidq/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-dm-haiku-0.0.7-gpbttvxi56fl6o7sqe2ukayawbt3fhpp/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-jmp-0.0.2-inl2rays4ai4oxamx3fisu2dv2g3ttrx/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-tabulate-0.8.9-y5zrgfiiz6qs2i6jtcwwtosaf63v3dsv/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-docker-6.0.1-qnwvu4mxfazv36lywwdvh4nmonuhj6m6/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-packaging-23.1-vq6b5juajesj2fgc6swuigbxqwywndpx/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-requests-2.31.0-6kmtsdd7nkuonklo6pfws2otc56wp4vd/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-certifi-2023.5.7-xamj4efwmktpnigoh7f7hbdjfqwibyoy/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-charset-normalizer-3.1.0-kxadpd5s2mgdxwbcynqfixy3vzfq5p52/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-idna-3.4-jfvixjgbiu3yaxk7ewymur6xcda6tkkn/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-urllib3-1.26.12-desywkokcmcceaaemvcpuofiyf2zmz7f/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-websocket-client-1.6.3-a6kndndnab2n5hc5gcevxbw2kj7eb3if/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-immutabledict-2.2.1-xg3qn2cdo2nir46rclirbd6uwlk6j4sg/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-ml-collections-0.1.1-6mgo3kuh5jm32e5tptaqm76v25tjkyis/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-contextlib2-21.6.0-qbbsp2oevyxc3stive2vm2yikamfvrj3/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-pyyaml-6.0-tus2zz2s32bahh3woyezk2paceti7kwx/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-six-1.16.0-dudvqq4ja57ewta5t7umlcqgqeihoqom/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-pandas-2.1.1-tt2jxz2fljiy7hehfntus4hshjpf2cjt/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-bottleneck-1.3.7-6jvl25em4hqvbi7e4t7oxfutcxjxhis4/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-numba-0.57.0-3dbktbnelv3pq63yk6pljfal3ddlejhn/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-llvmlite-0.40.0-6uwxptnyoewr3pcjstar7cmlab3bzehi/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-numexpr-2.8.4-v5wwi6kitwtvkz3juzt47jowue25vkt7/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-python-dateutil-2.8.2-q7m6gwiizl2weuchpz7pv4m4gyaddk3x/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-pytz-2023.3-daqian5uqfmcdfe5drookezae3274xvz/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-tzdata-2023.3-6j3vuexnmr7thoh7gxoyeri4axw7mj2b/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-pdbfixer-1.7-dm7ilsjw5dveczsxfy6abrd7zvf5csv2/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-protobuf-4.24.3-abwlhfiz5ugfns3gtdsg5e2d6od24v4y/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-tensorflow-2.13.0-wjccdupkmtj73gisq7hh2y7jyt52mazu/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-astunparse-1.6.3-5spi5mgqsztmszsv4xfu7r7okrvzo7q7/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-wheel-0.37.1-thxqc5k75zjxqxs6ujg455bdi4vlv76w/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-flatbuffers-23.5.26-bp6z2qpucshqnbwgbbecajosi4by3n7y/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-gast-0.4.0-foym6lcouduvalihlou3mur6tsmrmzkq/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-google-pasta-0.2.0-t7jbyounlai2sej4qabk5zomzsy5uejo/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-grpcio-1.52.0-w5peil2gshmchordlnkh76sihhwzn3na/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-h5py-3.8.0-2zi5gif62gbzxmcjrpbgyeyoqgzpllsk/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-libclang-14.0.6-e7ejm2y7lssnzmzf7i7al5fniq6rir65/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-tensorboard-2.13.0-ddabwhdjl7zywhvzgdeq5fbt4soy2ang/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-google-auth-2.20.0-opmno2gxp4kzi3xhljomubq4f57bzwia/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-cachetools-5.2.0-oifwt6vi2lqn5dxi7oyvgawdrvvh44g3/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-pyasn1-modules-0.2.8-qmhvmgyuibyrb764yg24aebfkcygpo4z/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-pyasn1-0.4.8-rczlb4ekuzoh2akdwvc7qveew7ajhktj/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-rsa-4.9-mjhfgvmmnbo6memylrxanhgntsoynuxu/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-google-auth-oauthlib-0.5.2-ejy65q2zj2ji2bbhsjkj6uh5rsl4e3x2/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-requests-oauthlib-1.3.1-oklc2cy2dkq2hujbbhvbja4jdybxv3rz/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-oauthlib-3.2.1-u3u2wt6dx5bhclyn5upgbows5vdj7fvy/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-markdown-3.4.1-yjbiocipllteacj7wugx2c464yuiqjvj/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-importlib-metadata-6.6.0-ogn5hhewct2zr7juwpui5aivzfpt55yr/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-zipp-3.17.0-twtypdparmu3gca7jw56ik7h4vvx6lxb/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-tensorboard-data-server-0.7.0-5dcctcwqm3u7apind3e47ug5bw6w5ekc/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-tensorboard-plugin-wit-1.8.1-t6rvc35vsipbb3gnsyaw224avtrb74h3/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-werkzeug-3.0.0-taj6z67ftfdrru6xyczzh5cz5vxtfff5/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-markupsafe-2.1.3-mg4rpbj6rozituispmclzlalgg3p2fev/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-termcolor-1.1.0-n7o4cdqu36pak63wawzji3ia3fjpusvg/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-typing-extensions-4.5.0-rq63xqsktmnnp6tnk4z4oxqfb3pvlkbi/lib/python3.9/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-wrapt-1.15.0-oerfaygs762kudxdhpgfnntklnuuglgy/lib/python3.9/site-packages} +setenv OPENMM_CUDA_COMPILER {/share/apps/22.04/spack/environments/core/view/generic/cuda-11.7.1/bin/nvcc} +setenv CUDA_HOST_COMPILER {/share/apps/22.04/spack/environments/core/view/compilers/gcc-11.4.0/bin/g++} +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/cudnn-8.7.0.84-11.8-qqvfagyyqmlcx27zya2jkydysap3fgov/lib} +setenv PY_ALPHAFOLD_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-alphafold-2.2.4-knxfx2woum257i5jozl3s6yvqisjhcpb} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/py-biopython/1.81 b/modulefiles/hpccf/franklin/v0.21/software/py-biopython/1.81 new file mode 100644 index 00000000..040629b8 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/py-biopython/1.81 @@ -0,0 +1,42 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:11.036943 +## +## py-biopython@1.81%gcc@11.4.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/7iijmih +## + + +module-whatis {A distributed collaborative effort to develop Python libraries and applications which address the needs of current and future work in bioinformatics. } + +proc ModulesHelp { } { + puts stderr {Name : py-biopython} + puts stderr {Version: 1.81} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A distributed collaborative effort to develop Python libraries and} + puts stderr {applications which address the needs of current and future work in} + puts stderr {bioinformatics.} +} + +conflict py-biopython + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-biopython-1.81-7iijmih4jenjipgsejhaumjs4mzk6ovn/lib} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-biopython-1.81-7iijmih4jenjipgsejhaumjs4mzk6ovn/.} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-biopython-1.81-7iijmih4jenjipgsejhaumjs4mzk6ovn/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-numpy-1.25.2-jo74ex4g5wj34kt6jryzzn2yrazv5vsq/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-setuptools-63.4.3-oafgc6zoyob2y2qxjelba4p3ykz7b34r/lib/python3.11/site-packages} +setenv PY_BIOPYTHON_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-biopython-1.81-7iijmih4jenjipgsejhaumjs4mzk6ovn} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/py-checkm-genome/1.2.1 b/modulefiles/hpccf/franklin/v0.21/software/py-checkm-genome/1.2.1 new file mode 100644 index 00000000..98cfd559 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/py-checkm-genome/1.2.1 @@ -0,0 +1,67 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:11.228728 +## +## py-checkm-genome@1.2.1%gcc@11.4.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/brnzbs7 +## + + +module-whatis {Assess the quality of microbial genomes recovered from isolates, single cells, and metagenomes} + +proc ModulesHelp { } { + puts stderr {Name : py-checkm-genome} + puts stderr {Version: 1.2.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Assess the quality of microbial genomes recovered from isolates, single} + puts stderr {cells, and metagenomes} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load hmmer/3.4 + module load pplacer/1.1.alpha19 + module load prodigal/2.6.3 +} else { + depends-on hmmer/3.4 + depends-on pplacer/1.1.alpha19 + depends-on prodigal/2.6.3 +} +prereq hmmer/3.4 +prereq pplacer/1.1.alpha19 +prereq prodigal/2.6.3 +conflict py-checkm-genome + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-checkm-genome-1.2.1-brnzbs7kpeb6kkb2ienbpdvuuqvimlic/lib} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-checkm-genome-1.2.1-brnzbs7kpeb6kkb2ienbpdvuuqvimlic/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-checkm-genome-1.2.1-brnzbs7kpeb6kkb2ienbpdvuuqvimlic/.} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-checkm-genome-1.2.1-brnzbs7kpeb6kkb2ienbpdvuuqvimlic/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-dendropy-4.5.2-qhblwim3xjcp75oyeba5ljfie7qfszas/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-setuptools-63.4.3-hsixzjesbrxime2qpwqaxwdkrwbz22vq/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-matplotlib-3.8.0-q3vzghfqar5zszaoxcvlfyqopzfz4nfu/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-contourpy-1.0.7-yi5fmamx4kzzhhgdpecazmjhus7xaqa3/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-numpy-1.25.2-vcmulzidmbvifm7idcfedcwkrf4p2w44/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-cycler-0.11.0-rfzhhw4jtannqtrn5mvvx4e2qeda734c/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-fonttools-4.39.4-5wsgyvqunfocfxlae43mc3ozrkls44in/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-kiwisolver-1.4.4-3inmf4glthgyddhf27nleqgegt3epj36/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-packaging-23.1-puj7vheyx7gkeal4irplmxtrhtxmd6gh/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-pillow-10.0.0-hwqzyvwnrywspq5admjcbzhosg4tsmvy/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-pyparsing-3.0.9-g75v3dpuye46sgmuhsrqhbowqf6r4b4h/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-python-dateutil-2.8.2-xskts2iq7eftwceczwhelweftoeqrkfa/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-six-1.16.0-krosed5wbuefnc6rrkoynveb6x73u4cl/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-pysam-0.21.0-rlrkbttg3lty46jvfa6aqayzokfss6tz/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-scipy-1.11.2-p46kbevbvkrsbexurcsxzv7huk3tbot6/lib/python3.11/site-packages} +setenv PY_CHECKM_GENOME_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-checkm-genome-1.2.1-brnzbs7kpeb6kkb2ienbpdvuuqvimlic} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/py-cutadapt/4.4 b/modulefiles/hpccf/franklin/v0.21/software/py-cutadapt/4.4 new file mode 100644 index 00000000..a129919e --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/py-cutadapt/4.4 @@ -0,0 +1,45 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:11.566705 +## +## py-cutadapt@4.4%gcc@11.4.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/t4yyleg +## + + +module-whatis {Cutadapt finds and removes adapter sequences, primers, poly-A tails and other types of unwanted sequence from your high-throughput sequencing reads.} + +proc ModulesHelp { } { + puts stderr {Name : py-cutadapt} + puts stderr {Version: 4.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Cutadapt finds and removes adapter sequences, primers, poly-A tails and} + puts stderr {other types of unwanted sequence from your high-throughput sequencing} + puts stderr {reads.} +} + +conflict py-cutadapt + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-cutadapt-4.4-t4yyleg4rehhdmuqnlmzi5oiht5j7cj5/lib} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-cutadapt-4.4-t4yyleg4rehhdmuqnlmzi5oiht5j7cj5/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-cutadapt-4.4-t4yyleg4rehhdmuqnlmzi5oiht5j7cj5/.} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-cutadapt-4.4-t4yyleg4rehhdmuqnlmzi5oiht5j7cj5/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-dnaio-0.10.0-xahc7zrz27qxkaug2v43s6ztflagt4s3/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-setuptools-68.0.0-hvwaln64nmuvlkpv6xwqs5cvdhmzygfl/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-xopen-1.6.0-jzuviut4vknvqvgdzipov2djnhb5k6al/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-isal-1.1.0-hzvavlz26bp7bkxdg4zzqchqkg7cy7f2/lib/python3.11/site-packages} +setenv PY_CUTADAPT_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-cutadapt-4.4-t4yyleg4rehhdmuqnlmzi5oiht5j7cj5} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/py-deeptools/3.5.2 b/modulefiles/hpccf/franklin/v0.21/software/py-deeptools/3.5.2 new file mode 100644 index 00000000..74a73b6e --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/py-deeptools/3.5.2 @@ -0,0 +1,80 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:11.893968 +## +## py-deeptools@3.5.2%gcc@11.4.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/j5u7ey6 +## + + +module-whatis {deepTools addresses the challenge of handling the large amounts of data that are now routinely generated from DNA sequencing centers.} + +proc ModulesHelp { } { + puts stderr {Name : py-deeptools} + puts stderr {Version: 3.5.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {deepTools addresses the challenge of handling the large amounts of data} + puts stderr {that are now routinely generated from DNA sequencing centers.} +} + +conflict py-deeptools + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-deeptools-3.5.2-j5u7ey6lwidw46uazk5nllcn5shhg5kb/lib} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-deeptools-3.5.2-j5u7ey6lwidw46uazk5nllcn5shhg5kb/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-deeptools-3.5.2-j5u7ey6lwidw46uazk5nllcn5shhg5kb/.} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-deeptools-3.5.2-j5u7ey6lwidw46uazk5nllcn5shhg5kb/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-deeptoolsintervals-0.1.9-xmd6xbpzu7ciw2cf72zpve6bdblxdcrh/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-matplotlib-3.8.0-k4cisvbify3f3xhetm74nm6vneg4fgvt/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-contourpy-1.0.7-rm6tzjqf26mkje6fsdwvpfpnilf5t7bg/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-numpy-1.25.2-sea6nxl6f7ouvehts6rrglqvtw6uptwk/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-setuptools-63.4.3-wu7zlrxli6qirnf6obrfi7syncw2m4aj/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-cycler-0.11.0-hk3oqjbvaznex5rc44o6gkfidxesabfa/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-fonttools-4.39.4-wa7df6hbgtemswk7csoumv25xuj6ijcu/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-kiwisolver-1.4.4-olajlkpm2wlrgyehhlz555qk3ysuybha/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-packaging-23.1-qdlu6do4cjatzqyfuaw3tkiewybdwafg/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-pillow-10.0.0-wd6ujtmbolx73zckqry3wbivafvax2k5/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-pyparsing-3.0.9-jlxr7ofc6xdovrtsjtin5xwmyyhkyukh/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-python-dateutil-2.8.2-sbetw75cxpnaxb7uce7dc5hu5wkjjz6a/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-six-1.16.0-2gamlcd664yp27ikhazg2nnaq2oexzde/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-numpydoc-1.5.0-pfuur3bhjd7jdw7gzibbkzdp73dsbwod/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-jinja2-3.1.2-va5qws5asl4pz5auw2yr5df6sss2nl53/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-markupsafe-2.1.3-zjqft7plhj5os457x67qegbnghgdpbgw/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-sphinx-7.2.3-z5nfrxzt4owsux2fxspjqtemjlltrp5w/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-alabaster-0.7.13-jikhoa4mhq4rqr6huyp5mgx45djncbfx/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-babel-2.12.1-sp6mkqe6xfup76nf6a7owp7ec2kaz7pd/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-docutils-0.20.1-ehdldvsqvp5mzx77e67zt5fc3vv4hbnc/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-imagesize-1.4.1-cevzioqvinvpkmscc4oeqmhbegs6mt7r/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-pygments-2.16.1-opyvscqhcl3yc4c7fsugtuzo35qthp65/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-requests-2.31.0-y6uxwq26p46ylgcct332yrhgt356nbwc/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-certifi-2023.5.7-wdzhfkc57lxv26ujzxmskxq2rri44vhx/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-charset-normalizer-3.1.0-byhiqw6w7rhn7rtjft5n3z4g6dtzd4nm/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-idna-3.4-izb2loym2p2t3die7hwanihvaw5kfkyg/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-urllib3-1.26.12-ba3jk7zyfbocusyn3utz6eafcdmtskag/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-snowballstemmer-2.2.0-5tpkphod72l5egj7eoho5eu2i3or3ply/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-sphinxcontrib-applehelp-1.0.4-6s4dw2vz5acmyn2ry5oaxzjozibkqiao/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-sphinxcontrib-devhelp-1.0.2-fmeiaft3njmwoj6vlxzrfa7tn473kx2w/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-sphinxcontrib-htmlhelp-2.0.1-ltjthks3colkligrmizqboybdibe4b77/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-sphinxcontrib-jsmath-1.0.1-d3a3youofpbzr4lfzafl7y2z6uhy3obg/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-sphinxcontrib-qthelp-1.0.3-rqaw2nxowjdtb2hqzovxg4ijnac3zfhj/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-sphinxcontrib-serializinghtml-1.1.9-z3syfik4acy4b27lbtdznc4vqlawpmor/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-plotly-5.14.1-daqh5k2cpq637mgqofzhxt3742w2wik4/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-tenacity-8.2.2-32bbj2oqqfa5mndz322f5fq7gaada5hx/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-py2bit-0.2.1-yrsgpvh72yg2jwohtgsotm3xb4n3gbuc/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-pybigwig-0.3.12-5wbp37xhiwsz6jay6g7t2wzq2dljbhhk/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-pysam-0.21.0-ettyx3ik35axtlbu5tclos3uh6tlyn5p/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-scipy-1.11.2-pln6ofdwupkvvxkadeqrc7olujqxhq3h/lib/python3.11/site-packages} +setenv PY_DEEPTOOLS_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-deeptools-3.5.2-j5u7ey6lwidw46uazk5nllcn5shhg5kb} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/py-htseq/2.0.3 b/modulefiles/hpccf/franklin/v0.21/software/py-htseq/2.0.3 new file mode 100644 index 00000000..51487ff9 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/py-htseq/2.0.3 @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:12.773024 +## +## py-htseq@2.0.3%gcc@11.4.0+h5ad+loom+mtx+qa build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/wzbkloc +## + + +module-whatis {HTSeq is a Python package that provides infrastructure to process data from high-throughput sequencing assays.} + +proc ModulesHelp { } { + puts stderr {Name : py-htseq} + puts stderr {Version: 2.0.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {HTSeq is a Python package that provides infrastructure to process data} + puts stderr {from high-throughput sequencing assays.} +} + +conflict py-htseq + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-htseq-2.0.3-wzbkloc3f6o4p3qemcrvikks3zpytnwa/lib} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-htseq-2.0.3-wzbkloc3f6o4p3qemcrvikks3zpytnwa/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-htseq-2.0.3-wzbkloc3f6o4p3qemcrvikks3zpytnwa/.} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-htseq-2.0.3-wzbkloc3f6o4p3qemcrvikks3zpytnwa/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-anndata-0.8.0-i576ezfahkt62utch5mibel5fn7eiugj/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-h5py-3.8.0-eb6zcaa5vqhsed6nxlldwgavpg2imx5s/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-mpi4py-3.1.4-atslkburqy6hz6u5t5k6fmsvlmfc2h66/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-numpy-1.24.4-jhyio2hsudyx2cd7znxdu2tb42x6xmxv/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-setuptools-63.4.3-hsixzjesbrxime2qpwqaxwdkrwbz22vq/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-natsort-7.1.1-vvnqikgfcondkr4etybs3jkyczv4amyd/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-packaging-23.1-puj7vheyx7gkeal4irplmxtrhtxmd6gh/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-pandas-2.1.1-l5kp4ryc2pvkvb2hpcazdzkvf46gzrdb/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-bottleneck-1.3.7-7p3y3xsdlxjzqmvxrcwrvpogon2cpfl2/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-numba-0.57.0-dasaylkzcarlryfrumcozhk6sgme6axo/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-llvmlite-0.40.0-ltaswfhcaoxptad3h26qzt634d4kxfq4/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-numexpr-2.8.4-yca37scboawcokguyvtraf5l5sa5f3a7/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-python-dateutil-2.8.2-xskts2iq7eftwceczwhelweftoeqrkfa/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-six-1.16.0-krosed5wbuefnc6rrkoynveb6x73u4cl/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-pytz-2023.3-yolv5egtzsyfcrao27xx3a22udguh6ya/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-tzdata-2023.3-d7u2wvfdka3dh3prcg27r7krohy6f4fz/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-scipy-1.11.2-evdv2agbja332juseh5xvb7wkrrvxijd/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-loompy-3.0.7-kxpdivkbtvihstleicolpylkowup5j3f/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-click-8.1.3-jvyddv4enmzoovs7ujl44eucazbc7act/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-numpy-groupies-0.9.20-b6cmwivb2nxatj7pdtpt5q7lxghsyyfx/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-matplotlib-3.8.0-l3sb6b54ivp2fuusb7v4clndyyqio63w/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-contourpy-1.0.7-e6rd5p32wlc3g4tmznrg4j227wxu3rkl/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-cycler-0.11.0-rfzhhw4jtannqtrn5mvvx4e2qeda734c/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-fonttools-4.39.4-5wsgyvqunfocfxlae43mc3ozrkls44in/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-kiwisolver-1.4.4-3inmf4glthgyddhf27nleqgegt3epj36/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-pillow-10.0.0-hwqzyvwnrywspq5admjcbzhosg4tsmvy/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-pyparsing-3.0.9-g75v3dpuye46sgmuhsrqhbowqf6r4b4h/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-pysam-0.21.0-3mv4ho55ugxtmpsy7zjex5znn5mico5t/lib/python3.11/site-packages} +setenv PY_HTSEQ_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-htseq-2.0.3-wzbkloc3f6o4p3qemcrvikks3zpytnwa} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/py-ipython/8.14.0 b/modulefiles/hpccf/franklin/v0.21/software/py-ipython/8.14.0 new file mode 100644 index 00000000..4355b1af --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/py-ipython/8.14.0 @@ -0,0 +1,60 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:13.305884 +## +## py-ipython@8.14.0%gcc@11.4.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/7ytczmt +## + + +module-whatis {IPython provides a rich toolkit to help you make the most out of using Python interactively.} + +proc ModulesHelp { } { + puts stderr {Name : py-ipython} + puts stderr {Version: 8.14.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {IPython provides a rich toolkit to help you make the most out of using} + puts stderr {Python interactively.} +} + +conflict py-ipython + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-ipython-8.14.0-7ytczmtnjlmeiw2b7xh3kt5wadki424k/lib} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-ipython-8.14.0-7ytczmtnjlmeiw2b7xh3kt5wadki424k/bin} +prepend-path --delim {:} MANPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-ipython-8.14.0-7ytczmtnjlmeiw2b7xh3kt5wadki424k/share/man} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-ipython-8.14.0-7ytczmtnjlmeiw2b7xh3kt5wadki424k/.} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-ipython-8.14.0-7ytczmtnjlmeiw2b7xh3kt5wadki424k/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-backcall-0.2.0-ru5tilvijeabatnmqpmlggnrykqyj3ih/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-decorator-5.1.1-w4s4zroa3o37clngsjexxdimh55v4uig/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-jedi-0.18.2-2oql5tnmcnrru5o4c4krtrxjdiplblqi/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-parso-0.8.3-udy74zvvjnd4sardjjjrph6lwvn4gsr5/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-setuptools-68.0.0-dkyik7gcew2chhg4lijir22ne7fyl7t7/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-matplotlib-inline-0.1.6-gne7ho4kcglxayjbn7mpgeruczhuvxn4/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-traitlets-5.9.0-wrtzvzqcsjxcdr3mvmwfpc2kmc5dfg5n/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-pexpect-4.8.0-fsib2vdd3eiw3s34q5rh7qqjz23ealsw/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-ptyprocess-0.7.0-z5gmfdrtllwavyqpqngsukq2vj6z2oyy/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-pickleshare-0.7.5-gvda5agohwukxqjtkx577z4zbmxzuboz/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-prompt-toolkit-3.0.38-t33a5xw3iyok2rprfoljjuqes5vq2byp/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-wcwidth-0.2.7-gdt4f3mzqa4qakiylhjfmr4isxtifb62/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-pygments-2.16.1-vsxes4r6i7gjeqxucc53wtb4tafsgo3m/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-stack-data-0.6.2-tu3yawig5zuduisb3di4scgxp6kbc5a6/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-asttokens-2.4.0-wtwmok5jtz7tuiipzqjzq2aqyczr5iek/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-six-1.16.0-oidvgjb3d7yptdqfpuxvp5zrst3yu4qr/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-executing-1.2.0-jgxsvsynkeu7ulnn7ju7i7vzwlb3frr7/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-pure-eval-0.2.2-ulc663ksqls2j4rye54vobpvgvoq56h2/lib/python3.11/site-packages} +setenv PY_IPYTHON_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-ipython-8.14.0-7ytczmtnjlmeiw2b7xh3kt5wadki424k} +append-path --delim {:} MANPATH {} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/py-multiqc/1.15 b/modulefiles/hpccf/franklin/v0.21/software/py-multiqc/1.15 new file mode 100644 index 00000000..ada07a2b --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/py-multiqc/1.15 @@ -0,0 +1,76 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:13.953822 +## +## py-multiqc@1.15%gcc@11.4.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/kc5enzd +## + + +module-whatis {MultiQC is a tool to aggregate bioinformatics results across many samples into a single report. It is written in Python and contains modules for a large number of common bioinformatics tools.} + +proc ModulesHelp { } { + puts stderr {Name : py-multiqc} + puts stderr {Version: 1.15} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {MultiQC is a tool to aggregate bioinformatics results across many} + puts stderr {samples into a single report. It is written in Python and contains} + puts stderr {modules for a large number of common bioinformatics tools.} +} + +conflict py-multiqc + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-multiqc-1.15-kc5enzd6ftzxdilgvoqpvnwogcthodek/lib} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-multiqc-1.15-kc5enzd6ftzxdilgvoqpvnwogcthodek/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-multiqc-1.15-kc5enzd6ftzxdilgvoqpvnwogcthodek/.} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-multiqc-1.15-kc5enzd6ftzxdilgvoqpvnwogcthodek/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-click-8.1.3-mx7ccjisfa2rin5hu6putsvjbxvg4lb5/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-coloredlogs-15.0.1-ugykrtb467mvebjfphczmhxdvhtcwf5u/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-humanfriendly-10.0-o6csja7ibykdazrx4xfhvznfzxr7j3f4/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-future-0.18.3-nokrwzlriqyk2iul6fnxrw23flzyydji/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-jinja2-3.1.2-43gufytbvrpibxainltottcrrrkf26r7/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-markupsafe-2.1.3-ge6btcoep7ukn2q4ow3n545qruvb4jvw/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-lzstring-1.0.3-ky4mlnmqm6nhd6lefjeydble7mpgzorp/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-markdown-3.4.1-fcaztfiyutntlmm5ygle6yjha2k2ldxj/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-matplotlib-3.8.0-qkq4nm72nrtixat7jsf26hsft7wobdxd/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-contourpy-1.0.7-j5nqmef7f6r2nwbxtjktkfuxwyf4rees/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-numpy-1.25.2-wnu35glxayp2uswy7dizfvgqytul6tcd/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-setuptools-63.4.3-gerjumbuhqoehxurdobbuortjepqbgdk/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-cycler-0.11.0-gkgfgboo7mxgso5ih7n5zzl3hp5xen6k/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-fonttools-4.39.4-szekdscngprthckt3z6glxl5mafkw62k/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-kiwisolver-1.4.4-t6sx4yqbdbg3xfgj7aerossyx5yq2gsu/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-packaging-23.1-pmrqnpodguoeqmo2ssqrydgdzc3qwrxe/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-pillow-10.0.0-vdehid7sbsy3rysf4keeajgv4s5qzejt/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-pyparsing-3.0.9-gxq3vmdndt3ovo5y4tsvdpq2piwyed3g/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-python-dateutil-2.8.2-vzjgfcxspf6uuaygw45cugx23xzjshco/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-six-1.16.0-wlmiepptfys2ktep3nj6z2t5ok3iw3vg/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-networkx-2.7.1-lnen6ywqrcq74lweqjcqyqrry5mfx5ob/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-pyyaml-6.0-depulkcczuljmiromw63p2cbwjuneoe2/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-requests-2.31.0-hcu4y6ypvgi4iieugxo76j4inyikskks/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-certifi-2023.5.7-xy45753hb7cp55wkwv4oqqp2kz7hcocg/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-charset-normalizer-3.1.0-33a6px35ifphm6wvfxhne6dhv4mhddun/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-idna-3.4-zvfu6pwqcrsixa3jr3a3um2brzy4z72o/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-urllib3-1.26.12-mmztu7drafaonva4halwhxwjqfbh6xl2/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-rich-13.4.2-k2oydkwnfq37e2tvjwanu4nhnq7jdtkb/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-markdown-it-py-3.0.0-yiptxvo5vtwppndesqsopxq3hfvvqfsd/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-mdurl-0.1.2-tt5nfue2xhvf67elkb6r4ses3jhdnlvk/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-pygments-2.16.1-grjnbluruxi5zniqconcy7ji5hxvllij/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-rich-click-1.5.2-vc2lf4x4hfbw7m66ioyd5lvl3bcz3tvg/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-simplejson-3.19.1-23u7yii5gcyjcqpej63btqn2pejwo5t2/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-spectra-0.0.11-kytsb6f7phneegk2ntqpy4lxtckk2c6y/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-colormath-3.0.0-rmuvrrrl627j4yasi6ucvbfesma5ixm4/lib/python3.11/site-packages} +setenv PY_MULTIQC_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-multiqc-1.15-kc5enzd6ftzxdilgvoqpvnwogcthodek} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/qualimap/2.2.1 b/modulefiles/hpccf/franklin/v0.21/software/qualimap/2.2.1 new file mode 100644 index 00000000..ef7799f4 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/qualimap/2.2.1 @@ -0,0 +1,41 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:14.831047 +## +## qualimap@2.2.1%gcc@11.4.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/4yr3tg4 +## + + +module-whatis {Qualimap 2 is a platform-independent application written in Java and R that provides both a Graphical User Inteface (GUI) and a command-line interface to facilitate the quality control of alignment sequencing data and its derivatives like feature counts.} + +proc ModulesHelp { } { + puts stderr {Name : qualimap} + puts stderr {Version: 2.2.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Qualimap 2 is a platform-independent application written in Java and R} + puts stderr {that provides both a Graphical User Inteface (GUI) and a command-line} + puts stderr {interface to facilitate the quality control of alignment sequencing data} + puts stderr {and its derivatives like feature counts.} +} + +conflict qualimap + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/qualimap-2.2.1-4yr3tg4io4qkicwe3wljiue5joiujegp/lib} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/qualimap-2.2.1-4yr3tg4io4qkicwe3wljiue5joiujegp/.} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/qualimap-2.2.1-4yr3tg4io4qkicwe3wljiue5joiujegp} +setenv QUALIMAP_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/qualimap-2.2.1-4yr3tg4io4qkicwe3wljiue5joiujegp} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/raxml-ng/1.1.0 b/modulefiles/hpccf/franklin/v0.21/software/raxml-ng/1.1.0 new file mode 100644 index 00000000..0fce74c1 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/raxml-ng/1.1.0 @@ -0,0 +1,45 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:14.983686 +## +## raxml-ng@1.1.0%gcc@11.4.0~ipo+mpi build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/2xqrrjb +## +## Configure options: -DUSE_MPI:BOOL=ON +## + + +module-whatis {RAxML-NG is a phylogenetic tree inference tool which uses maximum-likelihood (ML) optimality criterion.} + +proc ModulesHelp { } { + puts stderr {Name : raxml-ng} + puts stderr {Version: 1.1.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {RAxML-NG is a phylogenetic tree inference tool which uses maximum-} + puts stderr {likelihood (ML) optimality criterion. Its search heuristic is based on} + puts stderr {iteratively performing a series of Subtree Pruning and Regrafting (SPR)} + puts stderr {moves, which allows to quickly navigate to the best-known ML tree.} + puts stderr {RAxML-NG is a successor of RAxML (Stamatakis 2014) and leverages the} + puts stderr {highly optimized likelihood computation implemented in libpll (Flouri et} + puts stderr {al. 2014).} +} + +conflict raxml-ng + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/raxml-ng-1.1.0-2xqrrjbaiwj2zlgusl4b2us3pbij4ws7/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/raxml-ng-1.1.0-2xqrrjbaiwj2zlgusl4b2us3pbij4ws7/.} +setenv RAXML_NG_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/raxml-ng-1.1.0-2xqrrjbaiwj2zlgusl4b2us3pbij4ws7} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/raxml/8.2.12 b/modulefiles/hpccf/franklin/v0.21/software/raxml/8.2.12 new file mode 100644 index 00000000..0089c097 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/raxml/8.2.12 @@ -0,0 +1,39 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:14.891394 +## +## raxml@8.2.12%gcc@11.4.0+mpi~pthreads build_system=generic patches=8ba0510 arch=linux-ubuntu22.04-x86_64_v3/sueoxmt +## + + +module-whatis {RAxML (Randomized Axelerated Maximum Likelihood) is a program for sequential and parallel Maximum Likelihood based inference of large phylogenetic trees. } + +proc ModulesHelp { } { + puts stderr {Name : raxml} + puts stderr {Version: 8.2.12} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {RAxML (Randomized Axelerated Maximum Likelihood) is a program for} + puts stderr {sequential and parallel Maximum Likelihood based inference of large} + puts stderr {phylogenetic trees.} +} + +conflict raxml + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/raxml-8.2.12-sueoxmte5kxrhk6e5v7igjqva6bwreqg/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/raxml-8.2.12-sueoxmte5kxrhk6e5v7igjqva6bwreqg/.} +setenv RAXML_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/raxml-8.2.12-sueoxmte5kxrhk6e5v7igjqva6bwreqg} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/ray/2.3.1 b/modulefiles/hpccf/franklin/v0.21/software/ray/2.3.1 new file mode 100644 index 00000000..fafb5953 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/ray/2.3.1 @@ -0,0 +1,37 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:15.097338 +## +## ray@2.3.1%gcc@11.4.0~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/tb4ogfx +## + + +module-whatis {Parallel genome assemblies for parallel DNA sequencing} + +proc ModulesHelp { } { + puts stderr {Name : ray} + puts stderr {Version: 2.3.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Parallel genome assemblies for parallel DNA sequencing} +} + +conflict ray + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ray-2.3.1-tb4ogfxdg4wxctrile5kc6l2wbmxb3yi/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ray-2.3.1-tb4ogfxdg4wxctrile5kc6l2wbmxb3yi/.} +setenv RAY_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ray-2.3.1-tb4ogfxdg4wxctrile5kc6l2wbmxb3yi} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/rclone/1.63.1 b/modulefiles/hpccf/franklin/v0.21/software/rclone/1.63.1 new file mode 100644 index 00000000..2fc42b8e --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/rclone/1.63.1 @@ -0,0 +1,38 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:15.155580 +## +## rclone@1.63.1%gcc@11.4.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/w7zwknt +## + + +module-whatis {Rclone is a command line program to sync files and directories to and from various cloud storage providers} + +proc ModulesHelp { } { + puts stderr {Name : rclone} + puts stderr {Version: 1.63.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Rclone is a command line program to sync files and directories to and} + puts stderr {from various cloud storage providers} +} + +conflict rclone + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/rclone-1.63.1-w7zwknt2cib77ywygzdadkiinndeawfm/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/rclone-1.63.1-w7zwknt2cib77ywygzdadkiinndeawfm/.} +setenv RCLONE_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/rclone-1.63.1-w7zwknt2cib77ywygzdadkiinndeawfm} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/recon/1.05 b/modulefiles/hpccf/franklin/v0.21/software/recon/1.05 new file mode 100644 index 00000000..8767373c --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/recon/1.05 @@ -0,0 +1,38 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:15.221204 +## +## recon@1.05%gcc@11.4.0~repeatmasker build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/kas6a4p +## + + +module-whatis {RECON: a package for automated de novo identification of repeat families from genomic sequences.} + +proc ModulesHelp { } { + puts stderr {Name : recon} + puts stderr {Version: 1.05} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {RECON: a package for automated de novo identification of repeat families} + puts stderr {from genomic sequences.} +} + +conflict recon + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/recon-1.05-kas6a4pgm3gb7xdri74xr7rjd777fyh6/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/recon-1.05-kas6a4pgm3gb7xdri74xr7rjd777fyh6/.} +setenv RECON_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/recon-1.05-kas6a4pgm3gb7xdri74xr7rjd777fyh6} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/relion-bbr/gpu/3.1.2+intel b/modulefiles/hpccf/franklin/v0.21/software/relion-bbr/gpu/3.1.2+intel new file mode 100644 index 00000000..8dcf8e7e --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/relion-bbr/gpu/3.1.2+intel @@ -0,0 +1,47 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-17 09:21:13.953657 +## +## relion-bbr@3.1.2%gcc@7.5.0+allow_ctf_in_sagd+cuda+double~double-gpu~external_motioncor2+gui~ipo+mklfft build_system=cmake build_type=RelWithDebInfo cuda_arch=75 generator=make patches=c1b74ee purpose=cluster arch=linux-ubuntu22.04-skylake_avx512/pkrrenn +## +## Configure options: -DCMAKE_C_FLAGS=-g -DCMAKE_CXX_FLAGS=-g -DGUI=True -DDoublePrec_CPU=True -DDoublePrec_GPU=False -DALLOW_CTF_IN_SAGD=True -DMKLFFT=True -DALTCPU=False -DCUDA=ON -DCudaTexture=ON -DCUDA_ARCH=75 +## + + +module-whatis {A modified version of Relion supporting block-based-reconstruction as described in 10.1038/s41467-018-04051-9.} + +proc ModulesHelp { } { + puts stderr {Name : relion-bbr} + puts stderr {Version: 3.1.2} + puts stderr {Target : skylake_avx512} + puts stderr {} + puts stderr {A modified version of Relion supporting block-based-reconstruction as} + puts stderr {described in 10.1038/s41467-018-04051-9.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load intel-oneapi-mkl/2023.2.0+intel +} else { + depends-on intel-oneapi-mkl/2023.2.0+intel +} +prereq intel-oneapi-mkl/2023.2.0+intel +conflict relion-bbr + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-skylake_avx512/gcc-7.5.0/relion-bbr-3.1.2-pkrrenn23y56vykulbwpivdzjdzstvbl/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-skylake_avx512/gcc-7.5.0/relion-bbr-3.1.2-pkrrenn23y56vykulbwpivdzjdzstvbl/.} +prepend-path --delim {:} XLOCALEDIR {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/libx11-1.8.4-dicsz42adjvdqkoeagojkni23levveez/share/X11/locale} +setenv RELION_BBR_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-skylake_avx512/gcc-7.5.0/relion-bbr-3.1.2-pkrrenn23y56vykulbwpivdzjdzstvbl} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/relion-helper/0.3 b/modulefiles/hpccf/franklin/v0.21/software/relion-helper/0.3 new file mode 100644 index 00000000..fd504dc3 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/relion-helper/0.3 @@ -0,0 +1,55 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:14.605229 +## +## py-relion-helper@0.3%gcc@11.4.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/7vws7rh +## + + +module-whatis {Utilities for Relion Cryo-EM data processing on clusters. } + +proc ModulesHelp { } { + puts stderr {Name : py-relion-helper} + puts stderr {Version: 0.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Utilities for Relion Cryo-EM data processing on clusters.} +} + +conflict py-relion-helper + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-relion-helper-0.3-7vws7rhdeh3nobr3e4y6vabv3kgv656m/lib} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-relion-helper-0.3-7vws7rhdeh3nobr3e4y6vabv3kgv656m/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-relion-helper-0.3-7vws7rhdeh3nobr3e4y6vabv3kgv656m/.} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-relion-helper-0.3-7vws7rhdeh3nobr3e4y6vabv3kgv656m/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-rich-13.4.2-wzpqkuoakqm5u46skwom3gxlqcjoehj6/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-markdown-it-py-3.0.0-meu4qbvbidyaiej3eq7unvze3gbiml5v/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-mdurl-0.1.2-mgtbcsxxu7duayfzpds2ck4slbnwcyzi/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-pygments-2.16.1-qoo462ifsesjlrfmuiazo5ga2zxursvy/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-setuptools-63.4.3-oafgc6zoyob2y2qxjelba4p3ykz7b34r/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-starfile-0.4.12-ofjqybwh3a6suhhg5vsasxmue5edkoze/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-pandas-2.1.1-4cgmxwtdtmbtv6aad3cg5ze7bsxgndji/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-bottleneck-1.3.7-jmxawbzbohyb6t4x4z77pyvrct6x77s2/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-numpy-1.24.4-gqhf3jrnoz4vrpgb7avi3ssngri2he55/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-numba-0.57.0-nzeol76lyepf32u3bdrqbni3euq45hey/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-llvmlite-0.40.0-qn7amwsctelqahij4gfbj5xuru7jhznk/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-numexpr-2.8.4-7s2sgfs7ndkmhincnbscwxkdnynyi4fc/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-python-dateutil-2.8.2-mwvmxcwo5nzbamt65gyonchcauubkbum/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-six-1.16.0-r7xqlbvbmshxcwijmfdoyu5oorh7qbfi/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-pytz-2023.3-3cy5dsw2fuh632ptnngrvzg6jqo2mohz/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-tzdata-2023.3-tjxfagktdu5k6c6p4wmplr3qi76oroqu/lib/python3.11/site-packages} +setenv PY_RELION_HELPER_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-relion-helper-0.3-7vws7rhdeh3nobr3e4y6vabv3kgv656m} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/relion/3.1.3+intel b/modulefiles/hpccf/franklin/v0.21/software/relion/3.1.3+intel new file mode 100644 index 00000000..53f0929a --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/relion/3.1.3+intel @@ -0,0 +1,49 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-13 17:47:51.665787 +## +## relion@3.1.3%gcc@11.4.0+allow_ctf_in_sagd+cuda+double~double-gpu~external_motioncor2+gpu_delay+gui~ipo+mklfft build_system=cmake build_type=RelWithDebInfo cuda_arch=75 generator=make purpose=cluster arch=linux-ubuntu22.04-skylake_avx512/ybouckk +## +## Configure options: -DCMAKE_C_FLAGS=-g -DCMAKE_CXX_FLAGS=-g -DGUI=True -DDoublePrec_CPU=True -DDoublePrec_GPU=False -DALLOW_CTF_IN_SAGD=True -DMKLFFT=True -DALTCPU=False -DCUDA=ON -DCudaTexture=ON -DCUDA_ARCH=75 +## + + +module-whatis {RELION (for REgularised LIkelihood OptimisatioN, pronounce rely-on) is a stand-alone computer program that employs an empirical Bayesian approach to refinement of (multiple) 3D reconstructions or 2D class averages in electron cryo-microscopy (cryo-EM).} + +proc ModulesHelp { } { + puts stderr {Name : relion} + puts stderr {Version: 3.1.3} + puts stderr {Target : skylake_avx512} + puts stderr {} + puts stderr {RELION (for REgularised LIkelihood OptimisatioN, pronounce rely-on) is a} + puts stderr {stand-alone computer program that employs an empirical Bayesian approach} + puts stderr {to refinement of (multiple) 3D reconstructions or 2D class averages in} + puts stderr {electron cryo-microscopy (cryo-EM).} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load intel-oneapi-mkl/2023.2.0+intel +} else { + depends-on intel-oneapi-mkl/2023.2.0+intel +} +prereq intel-oneapi-mkl/2023.2.0+intel +conflict relion + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-skylake_avx512/gcc-11.4.0/relion-3.1.3-ybouckk6hzlak4hcwxo3e2kfpoftaeu4/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-skylake_avx512/gcc-11.4.0/relion-3.1.3-ybouckk6hzlak4hcwxo3e2kfpoftaeu4/.} +prepend-path --delim {:} XLOCALEDIR {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libx11-1.8.4-zkd3h7btls3gx3c3akcrwrwqd46l43i6/share/X11/locale} +setenv RELION_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-skylake_avx512/gcc-11.4.0/relion-3.1.3-ybouckk6hzlak4hcwxo3e2kfpoftaeu4} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/relion/4.0.1+intel b/modulefiles/hpccf/franklin/v0.21/software/relion/4.0.1+intel new file mode 100644 index 00000000..9634c394 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/relion/4.0.1+intel @@ -0,0 +1,49 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-13 17:47:51.308226 +## +## relion@4.0.1%gcc@11.4.0+allow_ctf_in_sagd+cuda+double~double-gpu~external_motioncor2+gpu_delay+gui~ipo+mklfft build_system=cmake build_type=RelWithDebInfo cuda_arch=75 generator=make patches=21b9c2c purpose=cluster arch=linux-ubuntu22.04-skylake_avx512/unrz65a +## +## Configure options: -DCMAKE_C_FLAGS=-g -DCMAKE_CXX_FLAGS=-g -DGUI=True -DDoublePrec_CPU=True -DDoublePrec_GPU=False -DALLOW_CTF_IN_SAGD=True -DMKLFFT=True -DALTCPU=False -DCUDA=ON -DCudaTexture=ON -DCUDA_ARCH=75 +## + + +module-whatis {RELION (for REgularised LIkelihood OptimisatioN, pronounce rely-on) is a stand-alone computer program that employs an empirical Bayesian approach to refinement of (multiple) 3D reconstructions or 2D class averages in electron cryo-microscopy (cryo-EM).} + +proc ModulesHelp { } { + puts stderr {Name : relion} + puts stderr {Version: 4.0.1} + puts stderr {Target : skylake_avx512} + puts stderr {} + puts stderr {RELION (for REgularised LIkelihood OptimisatioN, pronounce rely-on) is a} + puts stderr {stand-alone computer program that employs an empirical Bayesian approach} + puts stderr {to refinement of (multiple) 3D reconstructions or 2D class averages in} + puts stderr {electron cryo-microscopy (cryo-EM).} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load intel-oneapi-mkl/2023.2.0+intel +} else { + depends-on intel-oneapi-mkl/2023.2.0+intel +} +prereq intel-oneapi-mkl/2023.2.0+intel +conflict relion + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-skylake_avx512/gcc-11.4.0/relion-4.0.1-unrz65aeoymxlesb3plm4dzjmpsjgipv/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-skylake_avx512/gcc-11.4.0/relion-4.0.1-unrz65aeoymxlesb3plm4dzjmpsjgipv/.} +prepend-path --delim {:} XLOCALEDIR {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libx11-1.8.4-zkd3h7btls3gx3c3akcrwrwqd46l43i6/share/X11/locale} +setenv RELION_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-skylake_avx512/gcc-11.4.0/relion-4.0.1-unrz65aeoymxlesb3plm4dzjmpsjgipv} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/relion/cpu/3.1.3+amd b/modulefiles/hpccf/franklin/v0.21/software/relion/cpu/3.1.3+amd new file mode 100644 index 00000000..01453841 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/relion/cpu/3.1.3+amd @@ -0,0 +1,91 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:15.374465 +## +## relion@3.1.3%gcc@11.4.0+allow_ctf_in_sagd+altcpu~cuda+double~double-gpu~external_motioncor2~gpu_delay+gui~ipo~mklfft build_system=cmake build_type=RelWithDebInfo generator=make purpose=cluster arch=linux-ubuntu22.04-zen2/johbeaw +## +## Configure options: -DCMAKE_C_FLAGS=-g -DCMAKE_CXX_FLAGS=-g -DGUI=True -DDoublePrec_CPU=True -DDoublePrec_GPU=False -DALLOW_CTF_IN_SAGD=True -DMKLFFT=False -DALTCPU=True -DAMDFFTW=ON -DFORCE_OWN_TBB=OFF -DTBB_INCLUDE_DIR:STRING=/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/intel-oneapi-tbb-2021.10.0-7rffg26lfrohi6hgwgtm4v36kn7zcr6m/tbb/2021.10.0/include -DTBB_LIBRARY:STRING=/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/intel-oneapi-tbb-2021.10.0-7rffg26lfrohi6hgwgtm4v36kn7zcr6m/tbb/2021.10.0/lib/intel64/gcc4.8 +## + + +module-whatis {RELION (for REgularised LIkelihood OptimisatioN, pronounce rely-on) is a stand-alone computer program that employs an empirical Bayesian approach to refinement of (multiple) 3D reconstructions or 2D class averages in electron cryo-microscopy (cryo-EM).} + +proc ModulesHelp { } { + puts stderr {Name : relion} + puts stderr {Version: 3.1.3} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {RELION (for REgularised LIkelihood OptimisatioN, pronounce rely-on) is a} + puts stderr {stand-alone computer program that employs an empirical Bayesian approach} + puts stderr {to refinement of (multiple) 3D reconstructions or 2D class averages in} + puts stderr {electron cryo-microscopy (cryo-EM).} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load ctffind/4.1.14+amd + module load intel-oneapi-tbb/2021.10.0+amd +} else { + depends-on ctffind/4.1.14+amd + depends-on intel-oneapi-tbb/2021.10.0+amd +} +prereq ctffind/4.1.14+amd +prereq intel-oneapi-tbb/2021.10.0+amd +conflict relion + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/relion-3.1.3-johbeawvmbhuywzlio7s7avw3i7fkys4/lib} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/relion-3.1.3-johbeawvmbhuywzlio7s7avw3i7fkys4/bin} +prepend-path --delim {:} PKG_CONFIG_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/relion-3.1.3-johbeawvmbhuywzlio7s7avw3i7fkys4/lib/pkgconfig} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/relion-3.1.3-johbeawvmbhuywzlio7s7avw3i7fkys4/.} +prepend-path --delim {:} XLOCALEDIR {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libx11-1.8.4-zaqf7dicjkl3i2sg2ciot74vsehx7k47/share/X11/locale} +setenv RELION_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/relion-3.1.3-johbeawvmbhuywzlio7s7avw3i7fkys4} +setenv RELION_TOPAZ_EXECUTABLE {/share/apps/spack/spack-ucdavis/bin/wrappers/topaz} +setenv RELION_CTFFIND_EXECUTABLE {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/ctffind-4.1.14-uqsjztnwxwbiznxk4y7hn25i6f5ycnjz/bin/ctffind} +setenv RELION_QSUB_TEMPLATE {/share/apps/22.04/spack/spack-ucdavis/templates/hpccf/franklin/relion.3.1.3.cpu.slurm.template.sh} +setenv RELION_QSUB_COMMAND {sbatch --constraint=amd} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + + + +prereq motioncor2 +prereq gctf/1.06 +prereq ghostscript + +setenv RELION_MOTIONCOR2_EXECUTABLE [file join [getenv MOTIONCOR2_ROOT] "bin/MotionCor2"] +#setenv RELION_CTFFIND_EXECUTABLE [file join [getenv CTFFIND_ROOT] "bin/ctffind"] +setenv RELION_GCTF_EXECUTABLE [file join [getenv GCTF_ROOT] "bin/Gctf-v1.06_sm_30_cu8.0_x86_64"] + +setenv RELION_QSUB_EXTRA_COUNT "4" + +setenv RELION_QSUB_EXTRA1 "Email:" +setenv RELION_QSUB_EXTRA1_DEFAULT $user_email +setenv RELION_QSUB_EXTRA1_HELP "The email address to use for slurm notifications." + +setenv RELION_QSUB_EXTRA2 "Memory per CPU (MB):" +setenv RELION_QSUB_EXTRA2_DEFAULT "10000" +setenv RELION_QSUB_EXTRA2_HELP "Memory used per CPU thread, in MiB. Total memory can be calculated as (number of MPI tasks) * (memory per CPU)." + +setenv RELION_QSUB_EXTRA3 "Job Time:" +setenv RELION_QSUB_EXTRA3_DEFAULT "12:00:00" +setenv RELION_QSUB_EXTRA3_HELP "SLURM job time limit in format HH:MM:SS or DAYS-HH:MM:SS." + +setenv RELION_QSUB_EXTRA4 "Account:" +setenv RELION_QSUB_EXTRA4_HELP "SLURM --account parameter." + +setenv RELION_QUEUE_USE "yes" +#setenv RELION_QSUB_COMMAND "sbatch" +setenv RELION_SHELL "bash" +setenv RELION_SCRATCH_DIR "/tmp/" +setenv RELION_QUEUE_NAME "low" + diff --git a/modulefiles/hpccf/franklin/v0.21/software/relion/cpu/4.0.1+amd b/modulefiles/hpccf/franklin/v0.21/software/relion/cpu/4.0.1+amd new file mode 100644 index 00000000..8f2e4f51 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/relion/cpu/4.0.1+amd @@ -0,0 +1,88 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:16.099808 +## +## relion@4.0.1%gcc@11.4.0+allow_ctf_in_sagd+altcpu~cuda+double~double-gpu~external_motioncor2~gpu_delay+gui~ipo~mklfft build_system=cmake build_type=RelWithDebInfo generator=make purpose=cluster arch=linux-ubuntu22.04-zen2/j2cnoem +## +## Configure options: -DCMAKE_C_FLAGS=-g -DCMAKE_CXX_FLAGS=-g -DGUI=True -DDoublePrec_CPU=True -DDoublePrec_GPU=False -DALLOW_CTF_IN_SAGD=True -DMKLFFT=False -DALTCPU=True -DAMDFFTW=ON -DFORCE_OWN_TBB=OFF -DTBB_INCLUDE_DIR:STRING=/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/intel-oneapi-tbb-2021.10.0-7rffg26lfrohi6hgwgtm4v36kn7zcr6m/tbb/2021.10.0/include -DTBB_LIBRARY:STRING=/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/intel-oneapi-tbb-2021.10.0-7rffg26lfrohi6hgwgtm4v36kn7zcr6m/tbb/2021.10.0/lib/intel64/gcc4.8 +## + + +module-whatis {RELION (for REgularised LIkelihood OptimisatioN, pronounce rely-on) is a stand-alone computer program that employs an empirical Bayesian approach to refinement of (multiple) 3D reconstructions or 2D class averages in electron cryo-microscopy (cryo-EM).} + +proc ModulesHelp { } { + puts stderr {Name : relion} + puts stderr {Version: 4.0.1} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {RELION (for REgularised LIkelihood OptimisatioN, pronounce rely-on) is a} + puts stderr {stand-alone computer program that employs an empirical Bayesian approach} + puts stderr {to refinement of (multiple) 3D reconstructions or 2D class averages in} + puts stderr {electron cryo-microscopy (cryo-EM).} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load intel-oneapi-tbb/2021.10.0+amd +} else { + depends-on intel-oneapi-tbb/2021.10.0+amd +} +prereq intel-oneapi-tbb/2021.10.0+amd +conflict relion + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/relion-4.0.1-j2cnoemolrwoouqftxeicr7p6zkhfvbr/lib} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/relion-4.0.1-j2cnoemolrwoouqftxeicr7p6zkhfvbr/bin} +prepend-path --delim {:} PKG_CONFIG_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/relion-4.0.1-j2cnoemolrwoouqftxeicr7p6zkhfvbr/lib/pkgconfig} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/relion-4.0.1-j2cnoemolrwoouqftxeicr7p6zkhfvbr/.} +prepend-path --delim {:} XLOCALEDIR {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libx11-1.8.4-zkd3h7btls3gx3c3akcrwrwqd46l43i6/share/X11/locale} +setenv RELION_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/relion-4.0.1-j2cnoemolrwoouqftxeicr7p6zkhfvbr} +setenv RELION_TOPAZ_EXECUTABLE {/share/apps/spack/spack-ucdavis/bin/wrappers/topaz} +setenv RELION_CTFFIND_EXECUTABLE {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/ctffind-4.1.14-mcco7yaew52w3gkj5yod3ceoj2gzc6sd/bin/ctffind} +setenv RELION_QSUB_TEMPLATE {/share/apps/22.04/spack/spack-ucdavis/templates/hpccf/franklin/relion.4.0.1.cpu.slurm.template.sh} +setenv RELION_QSUB_COMMAND {sbatch --constraint=amd} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + + + +prereq motioncor2 +prereq gctf/1.06 +prereq ghostscript + +setenv RELION_MOTIONCOR2_EXECUTABLE [file join [getenv MOTIONCOR2_ROOT] "bin/MotionCor2"] +#setenv RELION_CTFFIND_EXECUTABLE [file join [getenv CTFFIND_ROOT] "bin/ctffind"] +setenv RELION_GCTF_EXECUTABLE [file join [getenv GCTF_ROOT] "bin/Gctf-v1.06_sm_30_cu8.0_x86_64"] + +setenv RELION_QSUB_EXTRA_COUNT "4" + +setenv RELION_QSUB_EXTRA1 "Email:" +setenv RELION_QSUB_EXTRA1_DEFAULT $user_email +setenv RELION_QSUB_EXTRA1_HELP "The email address to use for slurm notifications." + +setenv RELION_QSUB_EXTRA2 "Memory per CPU (MB):" +setenv RELION_QSUB_EXTRA2_DEFAULT "10000" +setenv RELION_QSUB_EXTRA2_HELP "Memory used per CPU thread, in MiB. Total memory can be calculated as (number of MPI tasks) * (memory per CPU)." + +setenv RELION_QSUB_EXTRA3 "Job Time:" +setenv RELION_QSUB_EXTRA3_DEFAULT "12:00:00" +setenv RELION_QSUB_EXTRA3_HELP "SLURM job time limit in format HH:MM:SS or DAYS-HH:MM:SS." + +setenv RELION_QSUB_EXTRA4 "Account:" +setenv RELION_QSUB_EXTRA4_HELP "SLURM --account parameter." + +setenv RELION_QUEUE_USE "yes" +#setenv RELION_QSUB_COMMAND "sbatch" +setenv RELION_SHELL "bash" +setenv RELION_SCRATCH_DIR "/tmp/" +setenv RELION_QUEUE_NAME "low" + diff --git a/modulefiles/hpccf/franklin/v0.21/software/relion/cpu/5.0-beta+amd b/modulefiles/hpccf/franklin/v0.21/software/relion/cpu/5.0-beta+amd new file mode 100644 index 00000000..805060ee --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/relion/cpu/5.0-beta+amd @@ -0,0 +1,91 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-26 17:20:16.526997 +## +## relion@5.0-beta%gcc@11.4.0+allow_ctf_in_sagd+altcpu~cuda+double~double-gpu~external_motioncor2~gpu_delay+gui~ipo~mklfft build_system=cmake build_type=RelWithDebInfo conda_python=/share/apps/conda/environments/relion-5.0/bin/python generator=make purpose=cluster torch_home=/share/databases/relion/torch arch=linux-ubuntu22.04-zen2/u624qdk +## +## Configure options: -DCMAKE_C_FLAGS=-g -DCMAKE_CXX_FLAGS=-g -DGUI=True -DDoublePrec_CPU=True -DDoublePrec_GPU=False -DALLOW_CTF_IN_SAGD=True -DMKLFFT=False -DALTCPU=True -DAMDFFTW=ON -DFORCE_OWN_TBB=OFF -DTBB_INCLUDE_DIR:STRING=/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/intel-oneapi-tbb-2021.10.0-7rffg26lfrohi6hgwgtm4v36kn7zcr6m/tbb/2021.10.0/include -DTBB_LIBRARY:STRING=/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/intel-oneapi-tbb-2021.10.0-7rffg26lfrohi6hgwgtm4v36kn7zcr6m/tbb/2021.10.0/lib/intel64/gcc4.8 -DPYTHON_EXE_PATH:STRING=/share/apps/conda/environments/relion-5.0/bin/python -DTORCH_HOME_PATH:STRING=/share/databases/relion/torch +## + + +module-whatis {RELION (for REgularised LIkelihood OptimisatioN, pronounce rely-on) is a stand-alone computer program that employs an empirical Bayesian approach to refinement of (multiple) 3D reconstructions or 2D class averages in electron cryo-microscopy (cryo-EM).} + +proc ModulesHelp { } { + puts stderr {Name : relion} + puts stderr {Version: 5.0-beta} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {RELION (for REgularised LIkelihood OptimisatioN, pronounce rely-on) is a} + puts stderr {stand-alone computer program that employs an empirical Bayesian approach} + puts stderr {to refinement of (multiple) 3D reconstructions or 2D class averages in} + puts stderr {electron cryo-microscopy (cryo-EM).} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load ctffind/4.1.14+amd + module load intel-oneapi-tbb/2021.10.0+amd +} else { + depends-on ctffind/4.1.14+amd + depends-on intel-oneapi-tbb/2021.10.0+amd +} +prereq ctffind/4.1.14+amd +prereq intel-oneapi-tbb/2021.10.0+amd +conflict relion + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/relion-5.0-beta-u624qdkzezbhcmln5bjftrblj6d6e37w/lib} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/relion-5.0-beta-u624qdkzezbhcmln5bjftrblj6d6e37w/bin} +prepend-path --delim {:} PKG_CONFIG_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/relion-5.0-beta-u624qdkzezbhcmln5bjftrblj6d6e37w/lib/pkgconfig} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/relion-5.0-beta-u624qdkzezbhcmln5bjftrblj6d6e37w/.} +prepend-path --delim {:} XLOCALEDIR {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libx11-1.8.4-zkd3h7btls3gx3c3akcrwrwqd46l43i6/share/X11/locale} +setenv RELION_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/relion-5.0-beta-u624qdkzezbhcmln5bjftrblj6d6e37w} +setenv RELION_TOPAZ_EXECUTABLE {/share/apps/22.04/spack/spack-ucdavis/bin/wrappers/topaz} +setenv RELION_CTFFIND_EXECUTABLE {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/ctffind-4.1.14-uqsjztnwxwbiznxk4y7hn25i6f5ycnjz/bin/ctffind} +setenv RELION_QSUB_TEMPLATE {/share/apps/22.04/spack/spack-ucdavis/templates/hpccf/franklin/relion.5.0-beta.cpu.slurm.template.sh} +setenv RELION_QSUB_COMMAND {sbatch --constraint=amd} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + + + +prereq motioncor2 +prereq gctf/1.06 +prereq ghostscript + +setenv RELION_MOTIONCOR2_EXECUTABLE [file join [getenv MOTIONCOR2_ROOT] "bin/MotionCor2"] +#setenv RELION_CTFFIND_EXECUTABLE [file join [getenv CTFFIND_ROOT] "bin/ctffind"] +setenv RELION_GCTF_EXECUTABLE [file join [getenv GCTF_ROOT] "bin/Gctf-v1.06_sm_30_cu8.0_x86_64"] + +setenv RELION_QSUB_EXTRA_COUNT "4" + +setenv RELION_QSUB_EXTRA1 "Email:" +setenv RELION_QSUB_EXTRA1_DEFAULT $user_email +setenv RELION_QSUB_EXTRA1_HELP "The email address to use for slurm notifications." + +setenv RELION_QSUB_EXTRA2 "Memory per CPU (MB):" +setenv RELION_QSUB_EXTRA2_DEFAULT "10000" +setenv RELION_QSUB_EXTRA2_HELP "Memory used per CPU thread, in MiB. Total memory can be calculated as (number of MPI tasks) * (memory per CPU)." + +setenv RELION_QSUB_EXTRA3 "Job Time:" +setenv RELION_QSUB_EXTRA3_DEFAULT "12:00:00" +setenv RELION_QSUB_EXTRA3_HELP "SLURM job time limit in format HH:MM:SS or DAYS-HH:MM:SS." + +setenv RELION_QSUB_EXTRA4 "Account:" +setenv RELION_QSUB_EXTRA4_HELP "SLURM --account parameter." + +setenv RELION_QUEUE_USE "yes" +#setenv RELION_QSUB_COMMAND "sbatch" +setenv RELION_SHELL "bash" +setenv RELION_SCRATCH_DIR "/tmp/" +setenv RELION_QUEUE_NAME "low" + diff --git a/modulefiles/hpccf/franklin/v0.21/software/relion/cpu/default b/modulefiles/hpccf/franklin/v0.21/software/relion/cpu/default new file mode 120000 index 00000000..9de0f919 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/relion/cpu/default @@ -0,0 +1 @@ +/share/apps/22.04/modulefiles/spack/software/relion/cpu/5.0-beta+amd \ No newline at end of file diff --git a/modulefiles/hpccf/franklin/v0.21/software/relion/gpu/3.1.3+amd b/modulefiles/hpccf/franklin/v0.21/software/relion/gpu/3.1.3+amd new file mode 100644 index 00000000..f1ba2d23 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/relion/gpu/3.1.3+amd @@ -0,0 +1,96 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:15.710785 +## +## relion@3.1.3%gcc@11.4.0+allow_ctf_in_sagd+cuda+double~double-gpu~external_motioncor2~gpu_delay+gui~ipo~mklfft build_system=cmake build_type=RelWithDebInfo cuda_arch=75 generator=make purpose=cluster arch=linux-ubuntu22.04-zen2/gqddm74 +## +## Configure options: -DCMAKE_C_FLAGS=-g -DCMAKE_CXX_FLAGS=-g -DGUI=True -DDoublePrec_CPU=True -DDoublePrec_GPU=False -DALLOW_CTF_IN_SAGD=True -DMKLFFT=False -DALTCPU=False -DCUDA=ON -DCudaTexture=ON -DCUDA_ARCH=75 -DTHRUST_IGNORE_CUB_VERSION_CHECK=1 -DAMDFFTW=ON +## + + +module-whatis {RELION (for REgularised LIkelihood OptimisatioN, pronounce rely-on) is a stand-alone computer program that employs an empirical Bayesian approach to refinement of (multiple) 3D reconstructions or 2D class averages in electron cryo-microscopy (cryo-EM).} + +proc ModulesHelp { } { + puts stderr {Name : relion} + puts stderr {Version: 3.1.3} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {RELION (for REgularised LIkelihood OptimisatioN, pronounce rely-on) is a} + puts stderr {stand-alone computer program that employs an empirical Bayesian approach} + puts stderr {to refinement of (multiple) 3D reconstructions or 2D class averages in} + puts stderr {electron cryo-microscopy (cryo-EM).} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load ctffind/4.1.14+amd +} else { + depends-on ctffind/4.1.14+amd +} +prereq ctffind/4.1.14+amd +conflict relion + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/relion-3.1.3-gqddm74nam7yc77ai5vrxkxgjxppz3qs/lib} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/relion-3.1.3-gqddm74nam7yc77ai5vrxkxgjxppz3qs/bin} +prepend-path --delim {:} PKG_CONFIG_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/relion-3.1.3-gqddm74nam7yc77ai5vrxkxgjxppz3qs/lib/pkgconfig} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/relion-3.1.3-gqddm74nam7yc77ai5vrxkxgjxppz3qs/.} +prepend-path --delim {:} XLOCALEDIR {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libx11-1.8.4-zkd3h7btls3gx3c3akcrwrwqd46l43i6/share/X11/locale} +setenv RELION_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/relion-3.1.3-gqddm74nam7yc77ai5vrxkxgjxppz3qs} +setenv RELION_TOPAZ_EXECUTABLE {/share/apps/spack/spack-ucdavis/bin/wrappers/topaz} +setenv RELION_CTFFIND_EXECUTABLE {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/ctffind-4.1.14-uqsjztnwxwbiznxk4y7hn25i6f5ycnjz/bin/ctffind} +setenv RELION_QSUB_TEMPLATE {/share/apps/22.04/spack/spack-ucdavis/templates/hpccf/franklin/relion.3.1.3.gpu.zen2.slurm.template.sh} +setenv RELION_QSUB_COMMAND {sbatch --constraint=amd} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + + + +prereq motioncor2 +prereq gctf/1.06 +prereq ghostscript + +setenv RELION_MOTIONCOR2_EXECUTABLE [file join [getenv MOTIONCOR2_ROOT] "bin/MotionCor2"] +#setenv RELION_CTFFIND_EXECUTABLE [file join [getenv CTFFIND_ROOT] "bin/ctffind"] +setenv RELION_GCTF_EXECUTABLE [file join [getenv GCTF_ROOT] "bin/Gctf-v1.06_sm_30_cu8.0_x86_64"] + +setenv RELION_QSUB_EXTRA_COUNT "4" + +setenv RELION_QSUB_EXTRA1 "Email:" +setenv RELION_QSUB_EXTRA1_DEFAULT $user_email +setenv RELION_QSUB_EXTRA1_HELP "The email address to use for slurm notifications." + +setenv RELION_QSUB_EXTRA2 "Memory per CPU (MB):" +setenv RELION_QSUB_EXTRA2_DEFAULT "10000" +setenv RELION_QSUB_EXTRA2_HELP "Memory used per CPU thread, in MiB. Total memory can be calculated as (number of MPI tasks) * (memory per CPU)." + +setenv RELION_QSUB_EXTRA3 "Job Time:" +setenv RELION_QSUB_EXTRA3_DEFAULT "12:00:00" +setenv RELION_QSUB_EXTRA3_HELP "SLURM job time limit in format HH:MM:SS or DAYS-HH:MM:SS." + +setenv RELION_QSUB_EXTRA4 "Account:" +setenv RELION_QSUB_EXTRA4_HELP "SLURM --account parameter." + +setenv RELION_QUEUE_USE "yes" +#setenv RELION_QSUB_COMMAND "sbatch" +setenv RELION_SHELL "bash" +setenv RELION_SCRATCH_DIR "/tmp/" +setenv RELION_QUEUE_NAME "low" + + + +setenv RELION_QSUB_EXTRA_COUNT "5" + +setenv RELION_QSUB_EXTRA5 "GPU resources:" +setenv RELION_QSUB_EXTRA5_DEFAULT "2" +setenv RELION_QSUB_EXTRA5_HELP "Number (and optionally type) of GPUs to request for this job. If only an integer is supplied, will request any GPU. If TYPE:NUM is supplied (example: a4000:4), specific models of GPU will be requested. Note that specific combinations of GPU type and job queue may fail; that is, if you select \"high\" as your queue and \"a4000:4\" as your GPU resources, but your account does not have access to the A4000 nodes' high queue, the job will fail to submit. You can view available GPU resource types by running sinfo -o \"%20N %10c %10m %30G\"" + diff --git a/modulefiles/hpccf/franklin/v0.21/software/relion/gpu/3.1.3+intel b/modulefiles/hpccf/franklin/v0.21/software/relion/gpu/3.1.3+intel new file mode 100644 index 00000000..119ce07a --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/relion/gpu/3.1.3+intel @@ -0,0 +1,94 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:15.906514 +## +## relion@3.1.3%gcc@11.4.0+allow_ctf_in_sagd+cuda+double~double-gpu~external_motioncor2+gpu_delay+gui~ipo+mklfft build_system=cmake build_type=RelWithDebInfo cuda_arch=75 generator=make purpose=cluster arch=linux-ubuntu22.04-skylake_avx512/ybouckk +## +## Configure options: -DCMAKE_C_FLAGS=-g -DCMAKE_CXX_FLAGS=-g -DGUI=True -DDoublePrec_CPU=True -DDoublePrec_GPU=False -DALLOW_CTF_IN_SAGD=True -DMKLFFT=True -DALTCPU=False -DCUDA=ON -DCudaTexture=ON -DCUDA_ARCH=75 +## + + +module-whatis {RELION (for REgularised LIkelihood OptimisatioN, pronounce rely-on) is a stand-alone computer program that employs an empirical Bayesian approach to refinement of (multiple) 3D reconstructions or 2D class averages in electron cryo-microscopy (cryo-EM).} + +proc ModulesHelp { } { + puts stderr {Name : relion} + puts stderr {Version: 3.1.3} + puts stderr {Target : skylake_avx512} + puts stderr {} + puts stderr {RELION (for REgularised LIkelihood OptimisatioN, pronounce rely-on) is a} + puts stderr {stand-alone computer program that employs an empirical Bayesian approach} + puts stderr {to refinement of (multiple) 3D reconstructions or 2D class averages in} + puts stderr {electron cryo-microscopy (cryo-EM).} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load intel-oneapi-mkl/2023.2.0+intel +} else { + depends-on intel-oneapi-mkl/2023.2.0+intel +} +prereq intel-oneapi-mkl/2023.2.0+intel +conflict relion + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-skylake_avx512/gcc-11.4.0/relion-3.1.3-ybouckk6hzlak4hcwxo3e2kfpoftaeu4/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-skylake_avx512/gcc-11.4.0/relion-3.1.3-ybouckk6hzlak4hcwxo3e2kfpoftaeu4/.} +prepend-path --delim {:} XLOCALEDIR {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libx11-1.8.4-zkd3h7btls3gx3c3akcrwrwqd46l43i6/share/X11/locale} +setenv RELION_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-skylake_avx512/gcc-11.4.0/relion-3.1.3-ybouckk6hzlak4hcwxo3e2kfpoftaeu4} +setenv RELION_TOPAZ_EXECUTABLE {/share/apps/spack/spack-ucdavis/bin/wrappers/topaz} +setenv RELION_CTFFIND_EXECUTABLE {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-skylake_avx512/gcc-11.4.0/ctffind-4.1.14-fow22zacczmn2xmt2yvtdrupx4vsojzu/bin/ctffind} +setenv RELION_QSUB_TEMPLATE {/share/apps/22.04/spack/spack-ucdavis/templates/hpccf/franklin/relion.3.1.3.gpu.skylake_avx512.slurm.template.sh} +setenv RELION_QSUB_COMMAND {sbatch --constraint=intel} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + + + +prereq motioncor2 +prereq gctf/1.06 +prereq ghostscript + +setenv RELION_MOTIONCOR2_EXECUTABLE [file join [getenv MOTIONCOR2_ROOT] "bin/MotionCor2"] +#setenv RELION_CTFFIND_EXECUTABLE [file join [getenv CTFFIND_ROOT] "bin/ctffind"] +setenv RELION_GCTF_EXECUTABLE [file join [getenv GCTF_ROOT] "bin/Gctf-v1.06_sm_30_cu8.0_x86_64"] + +setenv RELION_QSUB_EXTRA_COUNT "4" + +setenv RELION_QSUB_EXTRA1 "Email:" +setenv RELION_QSUB_EXTRA1_DEFAULT $user_email +setenv RELION_QSUB_EXTRA1_HELP "The email address to use for slurm notifications." + +setenv RELION_QSUB_EXTRA2 "Memory per CPU (MB):" +setenv RELION_QSUB_EXTRA2_DEFAULT "10000" +setenv RELION_QSUB_EXTRA2_HELP "Memory used per CPU thread, in MiB. Total memory can be calculated as (number of MPI tasks) * (memory per CPU)." + +setenv RELION_QSUB_EXTRA3 "Job Time:" +setenv RELION_QSUB_EXTRA3_DEFAULT "12:00:00" +setenv RELION_QSUB_EXTRA3_HELP "SLURM job time limit in format HH:MM:SS or DAYS-HH:MM:SS." + +setenv RELION_QSUB_EXTRA4 "Account:" +setenv RELION_QSUB_EXTRA4_HELP "SLURM --account parameter." + +setenv RELION_QUEUE_USE "yes" +#setenv RELION_QSUB_COMMAND "sbatch" +setenv RELION_SHELL "bash" +setenv RELION_SCRATCH_DIR "/tmp/" +setenv RELION_QUEUE_NAME "low" + + + +setenv RELION_QSUB_EXTRA_COUNT "5" + +setenv RELION_QSUB_EXTRA5 "GPU resources:" +setenv RELION_QSUB_EXTRA5_DEFAULT "2" +setenv RELION_QSUB_EXTRA5_HELP "Number (and optionally type) of GPUs to request for this job. If only an integer is supplied, will request any GPU. If TYPE:NUM is supplied (example: a4000:4), specific models of GPU will be requested. Note that specific combinations of GPU type and job queue may fail; that is, if you select \"high\" as your queue and \"a4000:4\" as your GPU resources, but your account does not have access to the A4000 nodes' high queue, the job will fail to submit. You can view available GPU resource types by running sinfo -o \"%20N %10c %10m %30G\"" + diff --git a/modulefiles/hpccf/franklin/v0.21/software/relion/gpu/4.0.1+amd b/modulefiles/hpccf/franklin/v0.21/software/relion/gpu/4.0.1+amd new file mode 100644 index 00000000..05da0ba9 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/relion/gpu/4.0.1+amd @@ -0,0 +1,90 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:16.312800 +## +## relion@4.0.1%gcc@11.4.0+allow_ctf_in_sagd+cuda+double~double-gpu~external_motioncor2~gpu_delay+gui~ipo~mklfft build_system=cmake build_type=RelWithDebInfo cuda_arch=75 generator=make purpose=cluster arch=linux-ubuntu22.04-zen2/unwyr74 +## +## Configure options: -DCMAKE_C_FLAGS=-g -DCMAKE_CXX_FLAGS=-g -DGUI=True -DDoublePrec_CPU=True -DDoublePrec_GPU=False -DALLOW_CTF_IN_SAGD=True -DMKLFFT=False -DALTCPU=False -DCUDA=ON -DCudaTexture=ON -DCUDA_ARCH=75 -DTHRUST_IGNORE_CUB_VERSION_CHECK=1 -DAMDFFTW=ON +## + + +module-whatis {RELION (for REgularised LIkelihood OptimisatioN, pronounce rely-on) is a stand-alone computer program that employs an empirical Bayesian approach to refinement of (multiple) 3D reconstructions or 2D class averages in electron cryo-microscopy (cryo-EM).} + +proc ModulesHelp { } { + puts stderr {Name : relion} + puts stderr {Version: 4.0.1} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {RELION (for REgularised LIkelihood OptimisatioN, pronounce rely-on) is a} + puts stderr {stand-alone computer program that employs an empirical Bayesian approach} + puts stderr {to refinement of (multiple) 3D reconstructions or 2D class averages in} + puts stderr {electron cryo-microscopy (cryo-EM).} +} + +conflict relion + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/relion-4.0.1-unwyr74jbzccwruahzkwskj2wcm2o7ey/lib} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/relion-4.0.1-unwyr74jbzccwruahzkwskj2wcm2o7ey/bin} +prepend-path --delim {:} PKG_CONFIG_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/relion-4.0.1-unwyr74jbzccwruahzkwskj2wcm2o7ey/lib/pkgconfig} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/relion-4.0.1-unwyr74jbzccwruahzkwskj2wcm2o7ey/.} +prepend-path --delim {:} XLOCALEDIR {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libx11-1.8.4-zaqf7dicjkl3i2sg2ciot74vsehx7k47/share/X11/locale} +setenv RELION_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/relion-4.0.1-unwyr74jbzccwruahzkwskj2wcm2o7ey} +setenv RELION_TOPAZ_EXECUTABLE {/share/apps/spack/spack-ucdavis/bin/wrappers/topaz} +setenv RELION_CTFFIND_EXECUTABLE {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-zen2/gcc-11.4.0/ctffind-4.1.14-mcco7yaew52w3gkj5yod3ceoj2gzc6sd/bin/ctffind} +setenv RELION_QSUB_TEMPLATE {/share/apps/22.04/spack/spack-ucdavis/templates/hpccf/franklin/relion.4.0.1.gpu.zen2.slurm.template.sh} +setenv RELION_QSUB_COMMAND {sbatch --constraint=amd} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + + + +prereq motioncor2 +prereq gctf/1.06 +prereq ghostscript + +setenv RELION_MOTIONCOR2_EXECUTABLE [file join [getenv MOTIONCOR2_ROOT] "bin/MotionCor2"] +#setenv RELION_CTFFIND_EXECUTABLE [file join [getenv CTFFIND_ROOT] "bin/ctffind"] +setenv RELION_GCTF_EXECUTABLE [file join [getenv GCTF_ROOT] "bin/Gctf-v1.06_sm_30_cu8.0_x86_64"] + +setenv RELION_QSUB_EXTRA_COUNT "4" + +setenv RELION_QSUB_EXTRA1 "Email:" +setenv RELION_QSUB_EXTRA1_DEFAULT $user_email +setenv RELION_QSUB_EXTRA1_HELP "The email address to use for slurm notifications." + +setenv RELION_QSUB_EXTRA2 "Memory per CPU (MB):" +setenv RELION_QSUB_EXTRA2_DEFAULT "10000" +setenv RELION_QSUB_EXTRA2_HELP "Memory used per CPU thread, in MiB. Total memory can be calculated as (number of MPI tasks) * (memory per CPU)." + +setenv RELION_QSUB_EXTRA3 "Job Time:" +setenv RELION_QSUB_EXTRA3_DEFAULT "12:00:00" +setenv RELION_QSUB_EXTRA3_HELP "SLURM job time limit in format HH:MM:SS or DAYS-HH:MM:SS." + +setenv RELION_QSUB_EXTRA4 "Account:" +setenv RELION_QSUB_EXTRA4_HELP "SLURM --account parameter." + +setenv RELION_QUEUE_USE "yes" +#setenv RELION_QSUB_COMMAND "sbatch" +setenv RELION_SHELL "bash" +setenv RELION_SCRATCH_DIR "/tmp/" +setenv RELION_QUEUE_NAME "low" + + + +setenv RELION_QSUB_EXTRA_COUNT "5" + +setenv RELION_QSUB_EXTRA5 "GPU resources:" +setenv RELION_QSUB_EXTRA5_DEFAULT "2" +setenv RELION_QSUB_EXTRA5_HELP "Number (and optionally type) of GPUs to request for this job. If only an integer is supplied, will request any GPU. If TYPE:NUM is supplied (example: a4000:4), specific models of GPU will be requested. Note that specific combinations of GPU type and job queue may fail; that is, if you select \"high\" as your queue and \"a4000:4\" as your GPU resources, but your account does not have access to the A4000 nodes' high queue, the job will fail to submit. You can view available GPU resource types by running sinfo -o \"%20N %10c %10m %30G\"" + diff --git a/modulefiles/hpccf/franklin/v0.21/software/relion/gpu/4.0.1+intel b/modulefiles/hpccf/franklin/v0.21/software/relion/gpu/4.0.1+intel new file mode 100644 index 00000000..c215c514 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/relion/gpu/4.0.1+intel @@ -0,0 +1,94 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:16.519038 +## +## relion@4.0.1%gcc@11.4.0+allow_ctf_in_sagd+cuda+double~double-gpu~external_motioncor2+gpu_delay+gui~ipo+mklfft build_system=cmake build_type=RelWithDebInfo cuda_arch=75 generator=make patches=21b9c2c purpose=cluster arch=linux-ubuntu22.04-skylake_avx512/unrz65a +## +## Configure options: -DCMAKE_C_FLAGS=-g -DCMAKE_CXX_FLAGS=-g -DGUI=True -DDoublePrec_CPU=True -DDoublePrec_GPU=False -DALLOW_CTF_IN_SAGD=True -DMKLFFT=True -DALTCPU=False -DCUDA=ON -DCudaTexture=ON -DCUDA_ARCH=75 +## + + +module-whatis {RELION (for REgularised LIkelihood OptimisatioN, pronounce rely-on) is a stand-alone computer program that employs an empirical Bayesian approach to refinement of (multiple) 3D reconstructions or 2D class averages in electron cryo-microscopy (cryo-EM).} + +proc ModulesHelp { } { + puts stderr {Name : relion} + puts stderr {Version: 4.0.1} + puts stderr {Target : skylake_avx512} + puts stderr {} + puts stderr {RELION (for REgularised LIkelihood OptimisatioN, pronounce rely-on) is a} + puts stderr {stand-alone computer program that employs an empirical Bayesian approach} + puts stderr {to refinement of (multiple) 3D reconstructions or 2D class averages in} + puts stderr {electron cryo-microscopy (cryo-EM).} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load intel-oneapi-mkl/2023.2.0+intel +} else { + depends-on intel-oneapi-mkl/2023.2.0+intel +} +prereq intel-oneapi-mkl/2023.2.0+intel +conflict relion + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-skylake_avx512/gcc-11.4.0/relion-4.0.1-unrz65aeoymxlesb3plm4dzjmpsjgipv/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-skylake_avx512/gcc-11.4.0/relion-4.0.1-unrz65aeoymxlesb3plm4dzjmpsjgipv/.} +prepend-path --delim {:} XLOCALEDIR {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libx11-1.8.4-zkd3h7btls3gx3c3akcrwrwqd46l43i6/share/X11/locale} +setenv RELION_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-skylake_avx512/gcc-11.4.0/relion-4.0.1-unrz65aeoymxlesb3plm4dzjmpsjgipv} +setenv RELION_TOPAZ_EXECUTABLE {/share/apps/spack/spack-ucdavis/bin/wrappers/topaz} +setenv RELION_CTFFIND_EXECUTABLE {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-skylake_avx512/gcc-11.4.0/ctffind-4.1.14-fow22zacczmn2xmt2yvtdrupx4vsojzu/bin/ctffind} +setenv RELION_QSUB_TEMPLATE {/share/apps/22.04/spack/spack-ucdavis/templates/hpccf/franklin/relion.4.0.1.gpu.skylake_avx512.slurm.template.sh} +setenv RELION_QSUB_COMMAND {sbatch --constraint=intel} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + + + +prereq motioncor2 +prereq gctf/1.06 +prereq ghostscript + +setenv RELION_MOTIONCOR2_EXECUTABLE [file join [getenv MOTIONCOR2_ROOT] "bin/MotionCor2"] +#setenv RELION_CTFFIND_EXECUTABLE [file join [getenv CTFFIND_ROOT] "bin/ctffind"] +setenv RELION_GCTF_EXECUTABLE [file join [getenv GCTF_ROOT] "bin/Gctf-v1.06_sm_30_cu8.0_x86_64"] + +setenv RELION_QSUB_EXTRA_COUNT "4" + +setenv RELION_QSUB_EXTRA1 "Email:" +setenv RELION_QSUB_EXTRA1_DEFAULT $user_email +setenv RELION_QSUB_EXTRA1_HELP "The email address to use for slurm notifications." + +setenv RELION_QSUB_EXTRA2 "Memory per CPU (MB):" +setenv RELION_QSUB_EXTRA2_DEFAULT "10000" +setenv RELION_QSUB_EXTRA2_HELP "Memory used per CPU thread, in MiB. Total memory can be calculated as (number of MPI tasks) * (memory per CPU)." + +setenv RELION_QSUB_EXTRA3 "Job Time:" +setenv RELION_QSUB_EXTRA3_DEFAULT "12:00:00" +setenv RELION_QSUB_EXTRA3_HELP "SLURM job time limit in format HH:MM:SS or DAYS-HH:MM:SS." + +setenv RELION_QSUB_EXTRA4 "Account:" +setenv RELION_QSUB_EXTRA4_HELP "SLURM --account parameter." + +setenv RELION_QUEUE_USE "yes" +#setenv RELION_QSUB_COMMAND "sbatch" +setenv RELION_SHELL "bash" +setenv RELION_SCRATCH_DIR "/tmp/" +setenv RELION_QUEUE_NAME "low" + + + +setenv RELION_QSUB_EXTRA_COUNT "5" + +setenv RELION_QSUB_EXTRA5 "GPU resources:" +setenv RELION_QSUB_EXTRA5_DEFAULT "2" +setenv RELION_QSUB_EXTRA5_HELP "Number (and optionally type) of GPUs to request for this job. If only an integer is supplied, will request any GPU. If TYPE:NUM is supplied (example: a4000:4), specific models of GPU will be requested. Note that specific combinations of GPU type and job queue may fail; that is, if you select \"high\" as your queue and \"a4000:4\" as your GPU resources, but your account does not have access to the A4000 nodes' high queue, the job will fail to submit. You can view available GPU resource types by running sinfo -o \"%20N %10c %10m %30G\"" + diff --git a/modulefiles/hpccf/franklin/v0.21/software/relion/gpu/default b/modulefiles/hpccf/franklin/v0.21/software/relion/gpu/default new file mode 120000 index 00000000..0f945ec1 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/relion/gpu/default @@ -0,0 +1 @@ +/share/apps/22.04/modulefiles/spack/software/relion/gpu/4.0.1+amd \ No newline at end of file diff --git a/modulefiles/hpccf/franklin/v0.21/software/repeatmasker/4.1.5 b/modulefiles/hpccf/franklin/v0.21/software/repeatmasker/4.1.5 new file mode 100644 index 00000000..f02233cf --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/repeatmasker/4.1.5 @@ -0,0 +1,52 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:16.747959 +## +## repeatmasker@4.1.5%gcc@11.4.0~crossmatch build_system=generic arch=linux-ubuntu22.04-x86_64_v3/3yij42u +## + + +module-whatis {RepeatMasker is a program that screens DNA sequences for interspersed repeats and low complexity DNA sequences.} + +proc ModulesHelp { } { + puts stderr {Name : repeatmasker} + puts stderr {Version: 4.1.5} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {RepeatMasker is a program that screens DNA sequences for interspersed} + puts stderr {repeats and low complexity DNA sequences.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load hmmer/3.4 + module load ncbi-rmblastn/2.14.0 +} else { + depends-on hmmer/3.4 + depends-on ncbi-rmblastn/2.14.0 +} +prereq hmmer/3.4 +prereq ncbi-rmblastn/2.14.0 +conflict repeatmasker + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/repeatmasker-4.1.5-3yij42ue5fposxukcjrzne6kvj42v7ky/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/repeatmasker-4.1.5-3yij42ue5fposxukcjrzne6kvj42v7ky/.} +prepend-path --delim {:} PERL5LIB {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-text-soundex-3.05-64jyk3ecnkt6x2dvyatl27zhjyp3pqgw/lib/perl5} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-h5py-3.8.0-zvk5otl7qkbfh2o6y63h6h6zyrwafml4/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-mpi4py-3.1.4-6kh3owfzrfflgq6gy4eiunsfwywdrmyg/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-numpy-1.25.2-jo74ex4g5wj34kt6jryzzn2yrazv5vsq/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-setuptools-63.4.3-oafgc6zoyob2y2qxjelba4p3ykz7b34r/lib/python3.11/site-packages} +setenv REPEATMASKER_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/repeatmasker-4.1.5-3yij42ue5fposxukcjrzne6kvj42v7ky} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/repeatmodeler/1.0.11 b/modulefiles/hpccf/franklin/v0.21/software/repeatmodeler/1.0.11 new file mode 100644 index 00000000..819fe875 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/repeatmodeler/1.0.11 @@ -0,0 +1,48 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:17.444431 +## +## repeatmodeler@1.0.11%gcc@11.4.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/epix5ib +## + + +module-whatis {RepeatModeler is a de-novo repeat family identification and modeling package.} + +proc ModulesHelp { } { + puts stderr {Name : repeatmodeler} + puts stderr {Version: 1.0.11} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {RepeatModeler is a de-novo repeat family identification and modeling} + puts stderr {package.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load ncbi-rmblastn/2.14.0 + module load repeatscout/1.0.5 +} else { + depends-on ncbi-rmblastn/2.14.0 + depends-on repeatscout/1.0.5 +} +prereq ncbi-rmblastn/2.14.0 +prereq repeatscout/1.0.5 +conflict repeatmodeler + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/repeatmodeler-1.0.11-epix5ibegxko73qljaz7voiqvx2at7ts/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/repeatmodeler-1.0.11-epix5ibegxko73qljaz7voiqvx2at7ts/.} +prepend-path --delim {:} PERL5LIB {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-json-4.10-dj3fvollofk3b6f54ie4v4lot57vdpen/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-libwww-perl-6.68-o55j4274cvgoohhoiepchstuzy2rbvuo/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-clone-0.46-ewzkiq674jjauhoqkfztw5fhwu323jgl/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-encode-locale-1.05-t7dzfezq7pawawpsommwi3clyooy5cei/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-file-listing-6.04-k646ofvyscywyvengc4a7l3uxqexedmp/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-http-date-6.02-bykoq7ndm3qvbblvdg4inpbyimrymc3l/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-html-parser-3.72-4kare2ib5bucxon32wmvv2z2meyxfioh/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-html-tagset-3.20-fnhmxhchfcjj3fzmjecvefatijdud5j2/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-http-cookies-6.10-mwsjvjof4xa26cjaykmhcofrvesebpgj/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-http-message-6.44-jqlirdieoovlzrv56o4mukt64mxcok6b/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-io-html-1.004-leffasnzdozbaof55jxrcyf6tlvy6qls/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-lwp-mediatypes-6.02-wv4s3ye4ty2nmo3pgqfitrikzlm2aeos/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-try-tiny-0.31-a7y5gc457woklsmup7aggzyfbx4recc4/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-uri-5.08-wwxtrl4ezz2ukztiv2fjh3qlwa6ib7se/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-http-daemon-6.01-uewtnvkmmvvmuxbyzk7sy3qb7i2ye3qx/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-http-negotiate-6.01-vvwjp5pdz3tqy7tnqrwdwrxsg4jonxf6/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-net-http-6.22-ts7b52f4wzg5vdc5eeocy3itgnsvjukp/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-www-robotrules-6.02-tphlec4i7s5fr75qgjmpmvvii3bukt2m/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-text-soundex-3.05-rimuigdop7jd34v55jpersa33fhckzkb/lib/perl5} +setenv REPEATMODELER_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/repeatmodeler-1.0.11-epix5ibegxko73qljaz7voiqvx2at7ts} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/repeatscout/1.0.5 b/modulefiles/hpccf/franklin/v0.21/software/repeatscout/1.0.5 new file mode 100644 index 00000000..6533cf51 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/repeatscout/1.0.5 @@ -0,0 +1,38 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:17.626874 +## +## repeatscout@1.0.5%gcc@11.4.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/awlkjt6 +## + + +module-whatis {RepeatScout - De Novo Repeat Finder, Price A.L., Jones N.C. and Pevzner P.A.} + +proc ModulesHelp { } { + puts stderr {Name : repeatscout} + puts stderr {Version: 1.0.5} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {RepeatScout - De Novo Repeat Finder, Price A.L., Jones N.C. and Pevzner} + puts stderr {P.A.} +} + +conflict repeatscout + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/repeatscout-1.0.5-awlkjt63q7jfsf5op27zswicizmij6w2/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/repeatscout-1.0.5-awlkjt63q7jfsf5op27zswicizmij6w2/.} +setenv REPEATSCOUT_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/repeatscout-1.0.5-awlkjt63q7jfsf5op27zswicizmij6w2} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/rnaquast/2.2.0 b/modulefiles/hpccf/franklin/v0.21/software/rnaquast/2.2.0 new file mode 100644 index 00000000..37db3c1f --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/rnaquast/2.2.0 @@ -0,0 +1,60 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:17.737548 +## +## rnaquast@2.2.0%gcc@11.4.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/az7bd7j +## + + +module-whatis {Quality assessment of de novo transcriptome assemblies from RNA-Seq data} + +proc ModulesHelp { } { + puts stderr {Name : rnaquast} + puts stderr {Version: 2.2.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Quality assessment of de novo transcriptome assemblies from RNA-Seq data} + puts stderr {rnaQUAST is a tool for evaluating RNA-Seq assemblies using reference} + puts stderr {genome and gene database. In addition, rnaQUAST is also capable of} + puts stderr {estimating gene database coverage by raw reads and de novo quality} + puts stderr {assessment using third-party software.} +} + +conflict rnaquast + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/rnaquast-2.2.0-az7bd7jvg2ftxaybgidluihsisy4hwxw/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/rnaquast-2.2.0-az7bd7jvg2ftxaybgidluihsisy4hwxw/.} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-gffutils-0.10.1-c4sbwcdqoqysuprlk7fvwzhgm5ifung7/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-argcomplete-3.1.2-5h7ukpyhdjpt5o4f7uwphgl2ek7bw6eo/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-argh-0.26.2-cvqvtyuy4fmnk54hqks25mptyz5kryxa/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-pyfaidx-0.5.5.2-h7yrjanky23w76ewlr6vbnsyfv7xqi6y/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-setuptools-63.4.3-gerjumbuhqoehxurdobbuortjepqbgdk/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-six-1.16.0-wlmiepptfys2ktep3nj6z2t5ok3iw3vg/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-simplejson-3.19.1-23u7yii5gcyjcqpej63btqn2pejwo5t2/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-joblib-1.2.0-4asqo2qrqieugua5rypkydhpnsmiofny/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-matplotlib-3.8.0-qkq4nm72nrtixat7jsf26hsft7wobdxd/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-contourpy-1.0.7-j5nqmef7f6r2nwbxtjktkfuxwyf4rees/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-numpy-1.25.2-wnu35glxayp2uswy7dizfvgqytul6tcd/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-cycler-0.11.0-gkgfgboo7mxgso5ih7n5zzl3hp5xen6k/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-fonttools-4.39.4-szekdscngprthckt3z6glxl5mafkw62k/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-kiwisolver-1.4.4-t6sx4yqbdbg3xfgj7aerossyx5yq2gsu/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-packaging-23.1-pmrqnpodguoeqmo2ssqrydgdzc3qwrxe/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-pillow-10.0.0-vdehid7sbsy3rysf4keeajgv4s5qzejt/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-pyparsing-3.0.9-gxq3vmdndt3ovo5y4tsvdpq2piwyed3g/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-python-dateutil-2.8.2-vzjgfcxspf6uuaygw45cugx23xzjshco/lib/python3.11/site-packages} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/rnaquast-2.2.0-az7bd7jvg2ftxaybgidluihsisy4hwxw/bin} +setenv RNAQUAST_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/rnaquast-2.2.0-az7bd7jvg2ftxaybgidluihsisy4hwxw} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/rsem/1.3.3 b/modulefiles/hpccf/franklin/v0.21/software/rsem/1.3.3 new file mode 100644 index 00000000..2ad3bef2 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/rsem/1.3.3 @@ -0,0 +1,48 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:18.127495 +## +## rsem@1.3.3%gcc@11.4.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/wqkgum4 +## + + +module-whatis {RSEM is a software package for estimating gene and isoform expression levels from RNA-Seq data.} + +proc ModulesHelp { } { + puts stderr {Name : rsem} + puts stderr {Version: 1.3.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {RSEM is a software package for estimating gene and isoform expression} + puts stderr {levels from RNA-Seq data.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load bowtie/1.3.1 + module load star/2.7.10b +} else { + depends-on bowtie/1.3.1 + depends-on star/2.7.10b +} +prereq bowtie/1.3.1 +prereq star/2.7.10b +conflict rsem + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/rsem-1.3.3-wqkgum4ca5gcom6wywno4j2tjfo73d2v/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/rsem-1.3.3-wqkgum4ca5gcom6wywno4j2tjfo73d2v/.} +setenv R_HOME {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/r-4.3.0-vcbztcvlh4dmxlawalqlndetncvnfmer/rlib/R} +setenv RSEM_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/rsem-1.3.3-wqkgum4ca5gcom6wywno4j2tjfo73d2v} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/sabre/2013-09-27 b/modulefiles/hpccf/franklin/v0.21/software/sabre/2013-09-27 new file mode 100644 index 00000000..aa572230 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/sabre/2013-09-27 @@ -0,0 +1,43 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:18.292359 +## +## sabre@2013-09-27%gcc@11.4.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/ywemrhc +## + + +module-whatis {Sabre is a tool that will demultiplex barcoded reads into separate files. It will work on both single-end and paired-end data in fastq format. It simply compares the provided barcodes with each read and separates the read into its appropriate barcode file, after stripping the barcode from the read (and also stripping the quality values of the barcode bases). If a read does not have a recognized barcode, then it is put into the unknown file. } + +proc ModulesHelp { } { + puts stderr {Name : sabre} + puts stderr {Version: 2013-09-27} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Sabre is a tool that will demultiplex barcoded reads into separate} + puts stderr {files. It will work on both single-end and paired-end data in fastq} + puts stderr {format. It simply compares the provided barcodes with each read and} + puts stderr {separates the read into its appropriate barcode file, after stripping} + puts stderr {the barcode from the read (and also stripping the quality values of the} + puts stderr {barcode bases). If a read does not have a recognized barcode, then it is} + puts stderr {put into the unknown file.} +} + +conflict sabre + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/sabre-2013-09-27-ywemrhcabo3336ezgwn7u2xnhnnuttz4/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/sabre-2013-09-27-ywemrhcabo3336ezgwn7u2xnhnnuttz4/.} +setenv SABRE_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/sabre-2013-09-27-ywemrhcabo3336ezgwn7u2xnhnnuttz4} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/salmon/1.10.1 b/modulefiles/hpccf/franklin/v0.21/software/salmon/1.10.1 new file mode 100644 index 00000000..08cc5add --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/salmon/1.10.1 @@ -0,0 +1,50 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:18.476654 +## +## salmon@1.10.1%gcc@11.4.0~ipo build_system=cmake build_type=RELEASE generator=make arch=linux-ubuntu22.04-x86_64_v3/a2rxzka +## +## Configure options: -DBOOST_ROOT=/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/boost-1.83.0-ufez4gwliozpr2z62rq7b3ry2n6gtxvu +## + + +module-whatis {Salmon is a tool for quantifying the expression of transcripts using RNA-seq data.} + +proc ModulesHelp { } { + puts stderr {Name : salmon} + puts stderr {Version: 1.10.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Salmon is a tool for quantifying the expression of transcripts using} + puts stderr {RNA-seq data.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load bzip2/1.0.8 + module load intel-oneapi-tbb/2021.10.0 +} else { + depends-on bzip2/1.0.8 + depends-on intel-oneapi-tbb/2021.10.0 +} +prereq bzip2/1.0.8 +prereq intel-oneapi-tbb/2021.10.0 +conflict salmon + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/salmon-1.10.1-a2rxzkalcako6xay7y46f35tbnpa2zao/lib} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/salmon-1.10.1-a2rxzkalcako6xay7y46f35tbnpa2zao/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/salmon-1.10.1-a2rxzkalcako6xay7y46f35tbnpa2zao/.} +setenv SALMON_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/salmon-1.10.1-a2rxzkalcako6xay7y46f35tbnpa2zao} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/samtools/1.16.1 b/modulefiles/hpccf/franklin/v0.21/software/samtools/1.16.1 new file mode 100644 index 00000000..f1698ab3 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/samtools/1.16.1 @@ -0,0 +1,41 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:18.804514 +## +## samtools@1.16.1%gcc@11.4.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/o5drh4a +## + + +module-whatis {SAM Tools provide various utilities for manipulating alignments in the SAM format, including sorting, merging, indexing and generating alignments in a per-position format} + +proc ModulesHelp { } { + puts stderr {Name : samtools} + puts stderr {Version: 1.16.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {SAM Tools provide various utilities for manipulating alignments in the} + puts stderr {SAM format, including sorting, merging, indexing and generating} + puts stderr {alignments in a per-position format} +} + +conflict samtools + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/samtools-1.16.1-o5drh4avdcqmxamkfbu75paqnmujivy7/bin} +prepend-path --delim {:} MANPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/samtools-1.16.1-o5drh4avdcqmxamkfbu75paqnmujivy7/share/man} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/samtools-1.16.1-o5drh4avdcqmxamkfbu75paqnmujivy7/.} +setenv SAMTOOLS_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/samtools-1.16.1-o5drh4avdcqmxamkfbu75paqnmujivy7} +append-path --delim {:} MANPATH {} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/satsuma2/2021-03-04 b/modulefiles/hpccf/franklin/v0.21/software/satsuma2/2021-03-04 new file mode 100644 index 00000000..fedb7b3d --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/satsuma2/2021-03-04 @@ -0,0 +1,40 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:18.907255 +## +## satsuma2@2021-03-04%gcc@11.4.0~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/6cdmraj +## + + +module-whatis {Satsuma2 is an optimsed version of Satsuma, a tool to reliably align large and complex DNA sequences providing maximum sensitivity (to find all there is to find), specificity (to only find real homology) and speed (to accomodate the billions of base pairs in vertebrate genomes). } + +proc ModulesHelp { } { + puts stderr {Name : satsuma2} + puts stderr {Version: 2021-03-04} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Satsuma2 is an optimsed version of Satsuma, a tool to reliably align} + puts stderr {large and complex DNA sequences providing maximum sensitivity (to find} + puts stderr {all there is to find), specificity (to only find real homology) and} + puts stderr {speed (to accomodate the billions of base pairs in vertebrate genomes).} +} + +conflict satsuma2 + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/satsuma2-2021-03-04-6cdmrajqeslumt7sc6gxkknyue7pcc4s/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/satsuma2-2021-03-04-6cdmrajqeslumt7sc6gxkknyue7pcc4s/.} +setenv SATSUMA2_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/satsuma2-2021-03-04-6cdmrajqeslumt7sc6gxkknyue7pcc4s} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/scallop/0.10.5 b/modulefiles/hpccf/franklin/v0.21/software/scallop/0.10.5 new file mode 100644 index 00000000..0bd48d49 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/scallop/0.10.5 @@ -0,0 +1,45 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:18.984266 +## +## scallop@0.10.5%gcc@11.4.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/aayp4y2 +## +## Configure options: --with-clp=/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/clp-1.17.7-viqdndk577a5ghvj2yb3q6lpvrual6zl --with-htslib=/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/htslib-1.17-vssbqmt2acghbxznq2fpdtgupgxijzyz --with-boost=/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/boost-1.83.0-vwecodracnv6zorfta6367e4suzjlsq6 +## + + +module-whatis {Scallop is a reference-based transcriptome assembler for RNA-seq} + +proc ModulesHelp { } { + puts stderr {Name : scallop} + puts stderr {Version: 0.10.5} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Scallop is a reference-based transcriptome assembler for RNA-seq} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load htslib/1.17 +} else { + depends-on htslib/1.17 +} +prereq htslib/1.17 +conflict scallop + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/scallop-0.10.5-aayp4y2fms7g7njn5mjf5wb4uy5mgr6s/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/scallop-0.10.5-aayp4y2fms7g7njn5mjf5wb4uy5mgr6s/.} +setenv SCALLOP_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/scallop-0.10.5-aayp4y2fms7g7njn5mjf5wb4uy5mgr6s} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/seqprep/1.3.2 b/modulefiles/hpccf/franklin/v0.21/software/seqprep/1.3.2 new file mode 100644 index 00000000..5f5eda8c --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/seqprep/1.3.2 @@ -0,0 +1,38 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:19.129723 +## +## seqprep@1.3.2%gcc@11.4.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/wnplxtc +## + + +module-whatis {SeqPrep is a program to merge paired end Illumina reads that are overlapping into a single longer read.} + +proc ModulesHelp { } { + puts stderr {Name : seqprep} + puts stderr {Version: 1.3.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {SeqPrep is a program to merge paired end Illumina reads that are} + puts stderr {overlapping into a single longer read.} +} + +conflict seqprep + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/seqprep-1.3.2-wnplxtcjrhyaxgcctadxixuehg5v3vni/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/seqprep-1.3.2-wnplxtcjrhyaxgcctadxixuehg5v3vni/.} +setenv SEQPREP_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/seqprep-1.3.2-wnplxtcjrhyaxgcctadxixuehg5v3vni} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/seqtk/1.4 b/modulefiles/hpccf/franklin/v0.21/software/seqtk/1.4 new file mode 100644 index 00000000..2bd0072b --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/seqtk/1.4 @@ -0,0 +1,37 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:19.187321 +## +## seqtk@1.4%gcc@11.4.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/qrlwj24 +## + + +module-whatis {Toolkit for processing sequences in FASTA/Q formats.} + +proc ModulesHelp { } { + puts stderr {Name : seqtk} + puts stderr {Version: 1.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Toolkit for processing sequences in FASTA/Q formats.} +} + +conflict seqtk + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/seqtk-1.4-qrlwj24266wnmvlfapn73xzljvhkf5gi/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/seqtk-1.4-qrlwj24266wnmvlfapn73xzljvhkf5gi/.} +setenv SEQTK_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/seqtk-1.4-qrlwj24266wnmvlfapn73xzljvhkf5gi} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/sickle/1.33 b/modulefiles/hpccf/franklin/v0.21/software/sickle/1.33 new file mode 100644 index 00000000..f0b52ed5 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/sickle/1.33 @@ -0,0 +1,40 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:19.244391 +## +## sickle@1.33%gcc@11.4.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/fg3xg5r +## + + +module-whatis {Sickle is a tool that uses sliding windows along with quality and length thresholds to determine when quality is sufficiently low to trim the 3'-end of reads and also determines when the quality is sufficiently high enough to trim the 5'-end of reads.} + +proc ModulesHelp { } { + puts stderr {Name : sickle} + puts stderr {Version: 1.33} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Sickle is a tool that uses sliding windows along with quality and length} + puts stderr {thresholds to determine when quality is sufficiently low to trim the} + puts stderr {3'-end of reads and also determines when the quality is sufficiently} + puts stderr {high enough to trim the 5'-end of reads.} +} + +conflict sickle + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/sickle-1.33-fg3xg5rg6ahi7mafx3mz4gy56wl4mi4z/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/sickle-1.33-fg3xg5rg6ahi7mafx3mz4gy56wl4mi4z/.} +setenv SICKLE_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/sickle-1.33-fg3xg5rg6ahi7mafx3mz4gy56wl4mi4z} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/slim/4.0.1 b/modulefiles/hpccf/franklin/v0.21/software/slim/4.0.1 new file mode 100644 index 00000000..b909ceee --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/slim/4.0.1 @@ -0,0 +1,39 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:19.292638 +## +## slim@4.0.1%gcc@11.4.0~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/t2vph24 +## + + +module-whatis {SLiM is an evolutionary simulation framework that combines a powerful engine for population genetic simulations with the capability of modeling arbitrarily complex evolutionary scenarios.} + +proc ModulesHelp { } { + puts stderr {Name : slim} + puts stderr {Version: 4.0.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {SLiM is an evolutionary simulation framework that combines a powerful} + puts stderr {engine for population genetic simulations with the capability of} + puts stderr {modeling arbitrarily complex evolutionary scenarios.} +} + +conflict slim + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/slim-4.0.1-t2vph24q33vnx7nobxtkcpwksnahqgzd/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/slim-4.0.1-t2vph24q33vnx7nobxtkcpwksnahqgzd/.} +setenv SLIM_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/slim-4.0.1-t2vph24q33vnx7nobxtkcpwksnahqgzd} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/smartdenovo/master b/modulefiles/hpccf/franklin/v0.21/software/smartdenovo/master new file mode 100644 index 00000000..c4ecb194 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/smartdenovo/master @@ -0,0 +1,38 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:19.339039 +## +## smartdenovo@master%gcc@11.4.0 build_system=makefile patches=9f514ed arch=linux-ubuntu22.04-x86_64_v3/prpqv4i +## + + +module-whatis {SMARTdenovo is a de novo assembler for PacBio and Oxford Nanopore (ONT) data.} + +proc ModulesHelp { } { + puts stderr {Name : smartdenovo} + puts stderr {Version: master} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {SMARTdenovo is a de novo assembler for PacBio and Oxford Nanopore (ONT)} + puts stderr {data.} +} + +conflict smartdenovo + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/smartdenovo-master-prpqv4ieu543dex6lb6jwjwt3vymdvj3/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/smartdenovo-master-prpqv4ieu543dex6lb6jwjwt3vymdvj3/.} +setenv SMARTDENOVO_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/smartdenovo-master-prpqv4ieu543dex6lb6jwjwt3vymdvj3} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/snap-korf/2021-11-04 b/modulefiles/hpccf/franklin/v0.21/software/snap-korf/2021-11-04 new file mode 100644 index 00000000..1fbdd93a --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/snap-korf/2021-11-04 @@ -0,0 +1,40 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:19.383588 +## +## snap-korf@2021-11-04%gcc@11.4.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/pgkeg3u +## + + +module-whatis {SNAP is a general purpose gene finding program suitable for both eukaryotic and prokaryotic genomes.} + +proc ModulesHelp { } { + puts stderr {Name : snap-korf} + puts stderr {Version: 2021-11-04} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {SNAP is a general purpose gene finding program suitable for both} + puts stderr {eukaryotic and prokaryotic genomes.} +} + +conflict snap-korf + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/snap-korf-2021-11-04-pgkeg3upnjpme7wapqwtz7suw2h5xb4m/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/snap-korf-2021-11-04-pgkeg3upnjpme7wapqwtz7suw2h5xb4m/.} +setenv ZOE {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/snap-korf-2021-11-04-pgkeg3upnjpme7wapqwtz7suw2h5xb4m} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/snap-korf-2021-11-04-pgkeg3upnjpme7wapqwtz7suw2h5xb4m} +setenv SNAP_KORF_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/snap-korf-2021-11-04-pgkeg3upnjpme7wapqwtz7suw2h5xb4m} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/sortmerna/2017-07-13 b/modulefiles/hpccf/franklin/v0.21/software/sortmerna/2017-07-13 new file mode 100644 index 00000000..9bb85187 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/sortmerna/2017-07-13 @@ -0,0 +1,38 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:19.443431 +## +## sortmerna@2017-07-13%gcc@11.4.0~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/opdu6wi +## + + +module-whatis {SortMeRNA is a program tool for filtering, mapping and OTU-picking NGS reads in metatranscriptomic and metagenomic data} + +proc ModulesHelp { } { + puts stderr {Name : sortmerna} + puts stderr {Version: 2017-07-13} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {SortMeRNA is a program tool for filtering, mapping and OTU-picking NGS} + puts stderr {reads in metatranscriptomic and metagenomic data} +} + +conflict sortmerna + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/sortmerna-2017-07-13-opdu6witmipbaq5ndzqp3vrdri455nv3/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/sortmerna-2017-07-13-opdu6witmipbaq5ndzqp3vrdri455nv3/.} +setenv SORTMERNA_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/sortmerna-2017-07-13-opdu6witmipbaq5ndzqp3vrdri455nv3} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/spades/3.15.5 b/modulefiles/hpccf/franklin/v0.21/software/spades/3.15.5 new file mode 100644 index 00000000..cc582c2d --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/spades/3.15.5 @@ -0,0 +1,44 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:19.527201 +## +## spades@3.15.5%gcc@11.4.0~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/h2zjbdq +## + + +module-whatis {SPAdes - St. Petersburg genome assembler - is intended for both standard isolates and single-cell MDA bacteria assemblies.} + +proc ModulesHelp { } { + puts stderr {Name : spades} + puts stderr {Version: 3.15.5} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {SPAdes - St. Petersburg genome assembler - is intended for both standard} + puts stderr {isolates and single-cell MDA bacteria assemblies.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load bzip2/1.0.8 +} else { + depends-on bzip2/1.0.8 +} +prereq bzip2/1.0.8 +conflict spades + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/spades-3.15.5-h2zjbdqp7ucyguglsreehixfuflq2miz/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/spades-3.15.5-h2zjbdqp7ucyguglsreehixfuflq2miz/.} +setenv SPADES_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/spades-3.15.5-h2zjbdqp7ucyguglsreehixfuflq2miz} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/sratoolkit/3.0.0 b/modulefiles/hpccf/franklin/v0.21/software/sratoolkit/3.0.0 new file mode 100644 index 00000000..cc1729a0 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/sratoolkit/3.0.0 @@ -0,0 +1,39 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:19.622469 +## +## sratoolkit@3.0.0%gcc@11.4.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/pgnzkm2 +## + + +module-whatis {The NCBI SRA Toolkit enables reading ('dumping') of sequencing files from the SRA database and writing ('loading') files into the .sra format.} + +proc ModulesHelp { } { + puts stderr {Name : sratoolkit} + puts stderr {Version: 3.0.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The NCBI SRA Toolkit enables reading ("dumping") of sequencing files} + puts stderr {from the SRA database and writing ("loading") files into the .sra} + puts stderr {format.} +} + +conflict sratoolkit + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/sratoolkit-3.0.0-pgnzkm2lonylc7c6vh26u742gdggyta6/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/sratoolkit-3.0.0-pgnzkm2lonylc7c6vh26u742gdggyta6/.} +setenv SRATOOLKIT_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/sratoolkit-3.0.0-pgnzkm2lonylc7c6vh26u742gdggyta6} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/star/2.7.10b b/modulefiles/hpccf/franklin/v0.21/software/star/2.7.10b new file mode 100644 index 00000000..7d0f9eb8 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/star/2.7.10b @@ -0,0 +1,37 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:19.667662 +## +## star@2.7.10b%gcc@11.4.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/zo5nkic +## + + +module-whatis {STAR is an ultrafast universal RNA-seq aligner.} + +proc ModulesHelp { } { + puts stderr {Name : star} + puts stderr {Version: 2.7.10b} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {STAR is an ultrafast universal RNA-seq aligner.} +} + +conflict star + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/star-2.7.10b-zo5nkicrfrerzhc5zksfqbdhvl4jxkn6/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/star-2.7.10b-zo5nkicrfrerzhc5zksfqbdhvl4jxkn6/.} +setenv STAR_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/star-2.7.10b-zo5nkicrfrerzhc5zksfqbdhvl4jxkn6} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/stringtie/2.2.1 b/modulefiles/hpccf/franklin/v0.21/software/stringtie/2.2.1 new file mode 100644 index 00000000..f10470cf --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/stringtie/2.2.1 @@ -0,0 +1,38 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:19.720994 +## +## stringtie@2.2.1%gcc@11.4.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/2yiaq2e +## + + +module-whatis {StringTie is a fast and highly efficient assembler of RNA-Seq alignments into potential transcripts.} + +proc ModulesHelp { } { + puts stderr {Name : stringtie} + puts stderr {Version: 2.2.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {StringTie is a fast and highly efficient assembler of RNA-Seq alignments} + puts stderr {into potential transcripts.} +} + +conflict stringtie + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/stringtie-2.2.1-2yiaq2e4vsskrbiqfhwd6frbe5ixotjm/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/stringtie-2.2.1-2yiaq2e4vsskrbiqfhwd6frbe5ixotjm/.} +setenv STRINGTIE_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/stringtie-2.2.1-2yiaq2e4vsskrbiqfhwd6frbe5ixotjm} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/subread/2.0.2 b/modulefiles/hpccf/franklin/v0.21/software/subread/2.0.2 new file mode 100644 index 00000000..17d2264f --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/subread/2.0.2 @@ -0,0 +1,38 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:19.783058 +## +## subread@2.0.2%gcc@11.4.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/occubno +## + + +module-whatis {The Subread software package is a tool kit for processing next-gen sequencing data.} + +proc ModulesHelp { } { + puts stderr {Name : subread} + puts stderr {Version: 2.0.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The Subread software package is a tool kit for processing next-gen} + puts stderr {sequencing data.} +} + +conflict subread + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/subread-2.0.2-occubno3rdusbn526i5nj7qfqsindrsg/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/subread-2.0.2-occubno3rdusbn526i5nj7qfqsindrsg/.} +setenv SUBREAD_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/subread-2.0.2-occubno3rdusbn526i5nj7qfqsindrsg} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/tabix/2013-12-16 b/modulefiles/hpccf/franklin/v0.21/software/tabix/2013-12-16 new file mode 100644 index 00000000..5b682c04 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/tabix/2013-12-16 @@ -0,0 +1,39 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:19.866324 +## +## tabix@2013-12-16%gcc@11.4.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/nhdodty +## + + +module-whatis {Generic indexer for TAB-delimited genome position files} + +proc ModulesHelp { } { + puts stderr {Name : tabix} + puts stderr {Version: 2013-12-16} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Generic indexer for TAB-delimited genome position files} +} + +conflict tabix + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/tabix-2013-12-16-nhdodty23wzksle7yqh2ptzzauann67b/bin} +prepend-path --delim {:} MANPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/tabix-2013-12-16-nhdodty23wzksle7yqh2ptzzauann67b/share/man} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/tabix-2013-12-16-nhdodty23wzksle7yqh2ptzzauann67b/.} +setenv TABIX_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/tabix-2013-12-16-nhdodty23wzksle7yqh2ptzzauann67b} +append-path --delim {:} MANPATH {} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/tassel/5.2.86 b/modulefiles/hpccf/franklin/v0.21/software/tassel/5.2.86 new file mode 100644 index 00000000..b43075d3 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/tassel/5.2.86 @@ -0,0 +1,39 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:19.973879 +## +## tassel@5.2.86%gcc@11.4.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/fjuvads +## + + +module-whatis {TASSEL is a software package to evaluate traits associations, evolutionary patterns, and linkage disequilibrium.} + +proc ModulesHelp { } { + puts stderr {Name : tassel} + puts stderr {Version: 5.2.86} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {TASSEL is a software package to evaluate traits associations,} + puts stderr {evolutionary patterns, and linkage disequilibrium.} +} + +conflict tassel + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/tassel-5.2.86-fjuvads3skpamfj66xumh2iat4b4ynfr/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/tassel-5.2.86-fjuvads3skpamfj66xumh2iat4b4ynfr/.} +prepend-path --delim {:} CLASSPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/tassel-5.2.86-fjuvads3skpamfj66xumh2iat4b4ynfr/bin/lib} +setenv TASSEL_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/tassel-5.2.86-fjuvads3skpamfj66xumh2iat4b4ynfr} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/tophat/2.1.2 b/modulefiles/hpccf/franklin/v0.21/software/tophat/2.1.2 new file mode 100644 index 00000000..1d3c3c09 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/tophat/2.1.2 @@ -0,0 +1,40 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:20.059969 +## +## tophat@2.1.2%gcc@11.4.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/5cehxe5 +## +## Configure options: --with-boost=/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/boost-1.83.0-l26gdfhfxdgzvfqgfc53upr2czmzrkdf +## + + +module-whatis {Spliced read mapper for RNA-Seq.} + +proc ModulesHelp { } { + puts stderr {Name : tophat} + puts stderr {Version: 2.1.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Spliced read mapper for RNA-Seq.} +} + +conflict tophat + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/tophat-2.1.2-5cehxe5jqu624z47v3wmtqgi7ad7imov/lib} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/tophat-2.1.2-5cehxe5jqu624z47v3wmtqgi7ad7imov/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/tophat-2.1.2-5cehxe5jqu624z47v3wmtqgi7ad7imov/.} +setenv TOPHAT_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/tophat-2.1.2-5cehxe5jqu624z47v3wmtqgi7ad7imov} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/trimgalore/0.6.10 b/modulefiles/hpccf/franklin/v0.21/software/trimgalore/0.6.10 new file mode 100644 index 00000000..27644898 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/trimgalore/0.6.10 @@ -0,0 +1,50 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:20.189237 +## +## trimgalore@0.6.10%gcc@11.4.0~igzip~pigz build_system=generic arch=linux-ubuntu22.04-x86_64_v3/mhi2ida +## + + +module-whatis {Trim Galore! is a wrapper around Cutadapt and FastQC to consistently apply adapter and quality trimming to FastQ files, with extra functionality for RRBS data.} + +proc ModulesHelp { } { + puts stderr {Name : trimgalore} + puts stderr {Version: 0.6.10} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Trim Galore! is a wrapper around Cutadapt and FastQC to consistently} + puts stderr {apply adapter and quality trimming to FastQ files, with extra} + puts stderr {functionality for RRBS data.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-cutadapt/4.4 +} else { + depends-on py-cutadapt/4.4 +} +prereq py-cutadapt/4.4 +conflict trimgalore + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/trimgalore-0.6.10-mhi2idatenajed5dphd4rmf7vwpaxvec/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/trimgalore-0.6.10-mhi2idatenajed5dphd4rmf7vwpaxvec/.} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-cutadapt-4.4-t4yyleg4rehhdmuqnlmzi5oiht5j7cj5/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-dnaio-0.10.0-xahc7zrz27qxkaug2v43s6ztflagt4s3/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-setuptools-68.0.0-hvwaln64nmuvlkpv6xwqs5cvdhmzygfl/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-xopen-1.6.0-jzuviut4vknvqvgdzipov2djnhb5k6al/lib/python3.11/site-packages} +prepend-path --delim {:} PYTHONPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/py-isal-1.1.0-hzvavlz26bp7bkxdg4zzqchqkg7cy7f2/lib/python3.11/site-packages} +setenv TRIMGALORE_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/trimgalore-0.6.10-mhi2idatenajed5dphd4rmf7vwpaxvec} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/trimmomatic/0.39 b/modulefiles/hpccf/franklin/v0.21/software/trimmomatic/0.39 new file mode 100644 index 00000000..a6a42ee3 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/trimmomatic/0.39 @@ -0,0 +1,37 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:20.337609 +## +## trimmomatic@0.39%gcc@11.4.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/n4gfv33 +## + + +module-whatis {A flexible read trimming tool for Illumina NGS data.} + +proc ModulesHelp { } { + puts stderr {Name : trimmomatic} + puts stderr {Version: 0.39} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A flexible read trimming tool for Illumina NGS data.} +} + +conflict trimmomatic + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/trimmomatic-0.39-n4gfv33sufoaiotxkdxz2c6z65wmtrfz/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/trimmomatic-0.39-n4gfv33sufoaiotxkdxz2c6z65wmtrfz/.} +setenv TRIMMOMATIC_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/trimmomatic-0.39-n4gfv33sufoaiotxkdxz2c6z65wmtrfz} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/turbovnc/3.0.3 b/modulefiles/hpccf/franklin/v0.21/software/turbovnc/3.0.3 new file mode 100644 index 00000000..f32de83c --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/turbovnc/3.0.3 @@ -0,0 +1,48 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:20.415595 +## +## turbovnc@3.0.3%gcc@11.4.0~ipo+libjpeg-turbo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/qibm27l +## +## Configure options: -DG:STRING=NMake Makefiles -DCMAKE_BUILD_TYPE:STRING=Release -DTJPEG_INCLUDE_DIR:STRING=/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libjpeg-turbo-3.0.0-zvs2mir5fpbyqsdbdw47lo7yoakyxtxd/include -DTJPEG_LIBRARY:STRING=/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libjpeg-turbo-3.0.0-zvs2mir5fpbyqsdbdw47lo7yoakyxtxd/lib/libturbojpeg.so +## + + +module-whatis {TurboVNC is a derivative of VNC (Virtual Network Computing) that is tuned to provide peak performance for 3D and video workloads.} + +proc ModulesHelp { } { + puts stderr {Name : turbovnc} + puts stderr {Version: 3.0.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {TurboVNC is a derivative of VNC (Virtual Network Computing) that is} + puts stderr {tuned to provide peak performance for 3D and video workloads.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load virtualgl/2.5.2 +} else { + depends-on virtualgl/2.5.2 +} +prereq virtualgl/2.5.2 +conflict turbovnc + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/turbovnc-3.0.3-qibm27lbi54stpew5vmuya2g7kz4azgg/bin} +prepend-path --delim {:} MANPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/turbovnc-3.0.3-qibm27lbi54stpew5vmuya2g7kz4azgg/share/man} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/turbovnc-3.0.3-qibm27lbi54stpew5vmuya2g7kz4azgg/.} +setenv TURBOVNC_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/turbovnc-3.0.3-qibm27lbi54stpew5vmuya2g7kz4azgg} +append-path --delim {:} MANPATH {} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/usearch/11.0.667 b/modulefiles/hpccf/franklin/v0.21/software/usearch/11.0.667 new file mode 100644 index 00000000..30cfc94b --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/usearch/11.0.667 @@ -0,0 +1,42 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:20.510059 +## +## usearch@11.0.667%gcc@11.4.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/aygudd3 +## + + +module-whatis {USEARCH is a unique sequence analysis tool with thousands of users world-wide.} + +proc ModulesHelp { } { + puts stderr {Name : usearch} + puts stderr {Version: 11.0.667} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {USEARCH is a unique sequence analysis tool with thousands of users} + puts stderr {world-wide. Note: A manual download is required for USEARCH. Spack will} + puts stderr {search your current directory for the download file. Alternatively, add} + puts stderr {this file to a mirror so that Spack can find it. For instructions on how} + puts stderr {to set up a mirror, see} + puts stderr {https://spack.readthedocs.io/en/latest/mirrors.html} +} + +conflict usearch + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/usearch-11.0.667-aygudd3bcttnihpdidb6e67cvkzfrglp/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/usearch-11.0.667-aygudd3bcttnihpdidb6e67cvkzfrglp/.} +setenv USEARCH_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/usearch-11.0.667-aygudd3bcttnihpdidb6e67cvkzfrglp} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/valgrind/3.20.0 b/modulefiles/hpccf/franklin/v0.21/software/valgrind/3.20.0 new file mode 100644 index 00000000..2f3f6e44 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/valgrind/3.20.0 @@ -0,0 +1,50 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:20.567174 +## +## valgrind@3.20.0%gcc@11.4.0+boost+mpi+only64bit~ubsan build_system=autotools libs=shared,static arch=linux-ubuntu22.04-x86_64_v3/hkftdwr +## +## Configure options: --enable-shared --enable-static --enable-only64bit +## + + +module-whatis {An instrumentation framework for building dynamic analysis.} + +proc ModulesHelp { } { + puts stderr {Name : valgrind} + puts stderr {Version: 3.20.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {An instrumentation framework for building dynamic analysis. There are} + puts stderr {Valgrind tools that can automatically detect many memory management and} + puts stderr {threading bugs, and profile your programs in detail. You can also use} + puts stderr {Valgrind to build new tools. Valgrind is Open Source / Free Software,} + puts stderr {and is freely available under the GNU General Public License, version 2.} +} + +conflict valgrind + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/valgrind-3.20.0-hkftdwrss2dvhhu73nvvhe7qazzk2cnd/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/valgrind-3.20.0-hkftdwrss2dvhhu73nvvhe7qazzk2cnd/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/valgrind-3.20.0-hkftdwrss2dvhhu73nvvhe7qazzk2cnd/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/valgrind-3.20.0-hkftdwrss2dvhhu73nvvhe7qazzk2cnd/include} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/valgrind-3.20.0-hkftdwrss2dvhhu73nvvhe7qazzk2cnd/bin} +prepend-path --delim {:} MANPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/valgrind-3.20.0-hkftdwrss2dvhhu73nvvhe7qazzk2cnd/share/man} +prepend-path --delim {:} PKG_CONFIG_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/valgrind-3.20.0-hkftdwrss2dvhhu73nvvhe7qazzk2cnd/lib/pkgconfig} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/valgrind-3.20.0-hkftdwrss2dvhhu73nvvhe7qazzk2cnd/.} +setenv VALGRIND_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/valgrind-3.20.0-hkftdwrss2dvhhu73nvvhe7qazzk2cnd} +append-path --delim {:} MANPATH {} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/vcftools/0.1.14 b/modulefiles/hpccf/franklin/v0.21/software/vcftools/0.1.14 new file mode 100644 index 00000000..be46fe6c --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/vcftools/0.1.14 @@ -0,0 +1,46 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:20.648617 +## +## vcftools@0.1.14%gcc@11.4.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/rvel6c5 +## +## Configure options: --with-pmdir=/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/vcftools-0.1.14-rvel6c5ca65htqv3zkro3oq4bbdgru2x/lib +## + + +module-whatis {VCFtools is a program package designed for working with VCF files, such as those generated by the 1000 Genomes Project. The aim of VCFtools is to provide easily accessible methods for working with complex genetic variation data in the form of VCF files. } + +proc ModulesHelp { } { + puts stderr {Name : vcftools} + puts stderr {Version: 0.1.14} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {VCFtools is a program package designed for working with VCF files, such} + puts stderr {as those generated by the 1000 Genomes Project. The aim of VCFtools is} + puts stderr {to provide easily accessible methods for working with complex genetic} + puts stderr {variation data in the form of VCF files.} +} + +conflict vcftools + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/vcftools-0.1.14-rvel6c5ca65htqv3zkro3oq4bbdgru2x/lib} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/vcftools-0.1.14-rvel6c5ca65htqv3zkro3oq4bbdgru2x/bin} +prepend-path --delim {:} MANPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/vcftools-0.1.14-rvel6c5ca65htqv3zkro3oq4bbdgru2x/share/man} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/vcftools-0.1.14-rvel6c5ca65htqv3zkro3oq4bbdgru2x/.} +prepend-path --delim {:} PERL5LIB {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/vcftools-0.1.14-rvel6c5ca65htqv3zkro3oq4bbdgru2x/lib} +setenv VCFTOOLS_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/vcftools-0.1.14-rvel6c5ca65htqv3zkro3oq4bbdgru2x} +append-path --delim {:} MANPATH {} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/velvet/1.2.10 b/modulefiles/hpccf/franklin/v0.21/software/velvet/1.2.10 new file mode 100644 index 00000000..d562ee93 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/velvet/1.2.10 @@ -0,0 +1,38 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:20.713782 +## +## velvet@1.2.10%gcc@11.4.0~bigassembly~longsequences~openmp~single_cov_cat~vbigassembly build_system=makefile categories=2 maxkmerlength=31 arch=linux-ubuntu22.04-x86_64_v3/ed3rrai +## + + +module-whatis {Velvet is a de novo genomic assembler specially designed for short read sequencing technologies.} + +proc ModulesHelp { } { + puts stderr {Name : velvet} + puts stderr {Version: 1.2.10} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Velvet is a de novo genomic assembler specially designed for short read} + puts stderr {sequencing technologies.} +} + +conflict velvet + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/velvet-1.2.10-ed3rraiq5alqcplr7yblshh4ol7renwp/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/velvet-1.2.10-ed3rraiq5alqcplr7yblshh4ol7renwp/.} +setenv VELVET_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/velvet-1.2.10-ed3rraiq5alqcplr7yblshh4ol7renwp} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/velvetoptimiser/2.2.6 b/modulefiles/hpccf/franklin/v0.21/software/velvetoptimiser/2.2.6 new file mode 100644 index 00000000..06af1d2d --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/velvetoptimiser/2.2.6 @@ -0,0 +1,44 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:20.797721 +## +## velvetoptimiser@2.2.6%gcc@11.4.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/hhv5yqa +## + + +module-whatis {Automatically optimise three of Velvet's assembly parameters.} + +proc ModulesHelp { } { + puts stderr {Name : velvetoptimiser} + puts stderr {Version: 2.2.6} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Automatically optimise three of Velvet's assembly parameters.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load velvet/1.2.10 +} else { + depends-on velvet/1.2.10 +} +prereq velvet/1.2.10 +conflict velvetoptimiser + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/velvetoptimiser-2.2.6-hhv5yqaeilirnd4ngodj6xb5qmimwd2f/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/velvetoptimiser-2.2.6-hhv5yqaeilirnd4ngodj6xb5qmimwd2f/.} +prepend-path --delim {:} PERL5LIB {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-bioperl-1.7.6-xvvpo2gyobu4gfnsyeziz7a7wc4b5aun/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-data-stag-0.14-k6fuanok3ca5p74mdjnvgswjjbkn27zy/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-io-string-1.08-epoalwv5tibo3mq7l4zmb4vt3cy6ibaw/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-error-0.17029-iw6lcxi7qojbkaoz6yzgjt2hvz2zjs6h/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-graph-0.20105-xi3ocjnbgytacdpcp4gpgplvuqluiqlr/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-http-message-6.44-mogcd3b3u6h5scsfv5wqdhvgtrv26yrs/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-clone-0.46-qvghnmvcsvkjlenivukbbv5ea7zfh7sj/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-encode-locale-1.05-i3yu5cubfljgrfrn2jidhaooexy43d4l/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-http-date-6.02-uj7noibxo6m4lh5nyku7knjhl7xowazv/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-io-html-1.004-aznx2hxrouq2jhbbz2a73o4eb4txalty/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-lwp-mediatypes-6.02-ydjxjaywnstf7lawjacfjlyt5vlj7dhx/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-try-tiny-0.31-l2hiyji7bj3ou3fixu4ed42a3w7ia4kn/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-uri-5.08-m5ahizgcnwspsjcfnzryoy6rxhcf55bg/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-io-stringy-2.111-qwb6tnjliwgaup6vweh4vz45k5kc22qd/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-ipc-run-20220807.0-22ub7mr2u4q2dz47gn5xbab6kskp5rpb/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-io-tty-1.17-lmhjxx2ozg36z6bylz66m362pbuk6mmw/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-libwww-perl-6.68-hvqainaa2tmfic7fhrem7ubxm2yk45ij/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-file-listing-6.04-fq4m3rsfoc7mue7i6clsqzzgbeonv4ko/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-html-parser-3.72-gzf4cxbun4apc2u5jdpculaqsuqexmqu/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-html-tagset-3.20-ethpjczwe6s7uxm63h4umtjmje6abd2n/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-http-cookies-6.10-xh2s5vjlca6hfuxbete2622tij7gzpng/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-http-daemon-6.01-gfrosn3r4nbeach6j3wmqbldrmme5scl/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-http-negotiate-6.01-4coqv76cecnps6mkigbatvlnffxicnpn/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-net-http-6.22-pc245egcgt2yj5bljdxgyhvte2jbirsc/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-www-robotrules-6.02-uplnyrnxrngag76gexmcr3dipz4gksrj/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-libxml-perl-0.08-5baff73ofg4227rw7qac6iv6iqdtzde3/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-list-moreutils-0.430-fqd4dxakvhwjq4aequfrg2j32w52xmn4/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-exporter-tiny-1.006002-5c4wtrrgtfejj5i4fk3wxwfvqzpvwxss/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-list-moreutils-xs-0.430-gxciivr6sbvymj5qq7qcs5n5usbcjgmq/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-module-build-0.4232-p443q7sj7u7b2uqtjhbg4g7asgsqe5d3/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-set-scalar-1.29-c43a6w7bdxr7lce6kq4jwrf3g4h7yomi/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-test-most-0.38-xqoual3gikenshk2xc5ic5agt3gzuu2d/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-exception-class-1.45-idhnokikrzwsm3gvnac4o25byeuwokvz/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-class-data-inheritable-0.08-2tw2aabplu4s4etzbkznfwajfksjogog/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-devel-stacktrace-2.04-mmfni6wiw3z24io2quwhk3tk4xgvpdxi/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-test-deep-1.204-swsyswlnkozes3k5axy4h3l2ai2nhjid/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-test-differences-0.69-ouiugauwam6gn64nevbyrifa55bhmafq/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-capture-tiny-0.48-buwhsdnlgv5mg4xfdyws2in22fm5pl4q/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-text-diff-1.45-hk4vzeum4d45lzhhewqkhzuuz4n7cjly/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-algorithm-diff-1.1903-ntjqev2wdzvhc7sgfgximmeryrks2q67/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-test-exception-0.43-q6dchkcg76o2jpo2o6ibkuhy5czvtwwi/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-sub-uplevel-0.2800-n56v2p6rpuoyifwxhhehp3hvwzho7r2s/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-test-warn-0.30-ueztf6kuyajd7jwepng63nlfqtc5ssdx/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-test-requiresinternet-0.05-senkgchjlccw7wekudl23dn6ptoqscjz/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-xml-dom-1.46-ymefgrdp6ijfdmhm6ubepkm4lrmb2zwr/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-xml-parser-2.46-4s7gqlvv2qhuwaex7wu364cdy2kpoy7q/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-xml-regexp-0.04-po6a3kus6hl3fozzryxcv2mhp2ouy54y/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-xml-dom-xpath-0.14-m3735oobgyg7wmholxfud5nhkvkbs77c/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-xml-xpathengine-0.14-237tguaq24q5pczybs55vnpmynzagre7/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-xml-libxml-2.0201-445tdhy7k47nejovsudwaf53sxox4bsz/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-xml-namespacesupport-1.12_9-4tqvapoilqdpiah5mz4snebscs7dkwnu/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-xml-sax-1.02-abejbdlnljbojiyp4du3xag6rlwhzica/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-xml-sax-base-1.09-43jznrnzskeegfrdukry7x3wurcg4p4n/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-xml-sax-writer-0.57-oniddrf2xfc4t4254xn7b32ro4ybw4z7/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-xml-filter-buffertext-1.01-wbtfhbgqdyj5srhaya6zsid56kuncnu5/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-xml-twig-3.52-opu4gqjopyjwfctlhhal7y7mznywbd2u/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-xml-writer-0.900-kvc2b3rvauipwxcqqmlhj7vrzvaezwsj/lib/perl5:/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-yaml-1.30-7tappv5e3e7knhpadquuxq373nylcyt6/lib/perl5} +setenv VELVETOPTIMISER_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/velvetoptimiser-2.2.6-hhv5yqaeilirnd4ngodj6xb5qmimwd2f} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/virtualgl/2.5.2 b/modulefiles/hpccf/franklin/v0.21/software/virtualgl/2.5.2 new file mode 100644 index 00000000..bbbf3999 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/virtualgl/2.5.2 @@ -0,0 +1,44 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:21.170933 +## +## virtualgl@2.5.2%gcc@11.4.0~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/lmpdtgs +## + + +module-whatis {VirtualGL redirects 3D commands from a Unix/Linux OpenGL application onto a server-side GPU and converts the rendered 3D images into a video stream with which remote clients can interact to view and control the 3D application in real time.} + +proc ModulesHelp { } { + puts stderr {Name : virtualgl} + puts stderr {Version: 2.5.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {VirtualGL redirects 3D commands from a Unix/Linux OpenGL application} + puts stderr {onto a server-side GPU and converts the rendered 3D images into a video} + puts stderr {stream with which remote clients can interact to view and control the 3D} + puts stderr {application in real time.} +} + +conflict virtualgl + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/virtualgl-2.5.2-lmpdtgsmtmzh6tbrwbzpkkk5ssdck2od/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/virtualgl-2.5.2-lmpdtgsmtmzh6tbrwbzpkkk5ssdck2od/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/virtualgl-2.5.2-lmpdtgsmtmzh6tbrwbzpkkk5ssdck2od/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/virtualgl-2.5.2-lmpdtgsmtmzh6tbrwbzpkkk5ssdck2od/include} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/virtualgl-2.5.2-lmpdtgsmtmzh6tbrwbzpkkk5ssdck2od/bin} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/virtualgl-2.5.2-lmpdtgsmtmzh6tbrwbzpkkk5ssdck2od/.} +setenv VIRTUALGL_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/virtualgl-2.5.2-lmpdtgsmtmzh6tbrwbzpkkk5ssdck2od} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/voropp/0.4.6 b/modulefiles/hpccf/franklin/v0.21/software/voropp/0.4.6 new file mode 100644 index 00000000..b411946d --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/voropp/0.4.6 @@ -0,0 +1,45 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:21.226648 +## +## voropp@0.4.6%gcc@11.4.0+pic build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/m33uhdo +## + + +module-whatis {Voro++ is a open source software library for the computation of the Voronoi diagram, a widely-used tessellation that has applications in many scientific fields.} + +proc ModulesHelp { } { + puts stderr {Name : voropp} + puts stderr {Version: 0.4.6} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Voro++ is a open source software library for the computation of the} + puts stderr {Voronoi diagram, a widely-used tessellation that has applications in} + puts stderr {many scientific fields.} +} + +conflict voropp + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/voropp-0.4.6-m33uhdokezh6ihhgai5a3pmomatjuq7j/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/voropp-0.4.6-m33uhdokezh6ihhgai5a3pmomatjuq7j/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/voropp-0.4.6-m33uhdokezh6ihhgai5a3pmomatjuq7j/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/voropp-0.4.6-m33uhdokezh6ihhgai5a3pmomatjuq7j/include} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/voropp-0.4.6-m33uhdokezh6ihhgai5a3pmomatjuq7j/bin} +prepend-path --delim {:} MANPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/voropp-0.4.6-m33uhdokezh6ihhgai5a3pmomatjuq7j/man} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/voropp-0.4.6-m33uhdokezh6ihhgai5a3pmomatjuq7j/.} +setenv VOROPP_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/voropp-0.4.6-m33uhdokezh6ihhgai5a3pmomatjuq7j} +append-path --delim {:} MANPATH {} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/vsearch/2.22.1 b/modulefiles/hpccf/franklin/v0.21/software/vsearch/2.22.1 new file mode 100644 index 00000000..ccccae42 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/vsearch/2.22.1 @@ -0,0 +1,45 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:21.281781 +## +## vsearch@2.22.1%gcc@11.4.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/uv5aztj +## + + +module-whatis {VSEARCH is a versatile open-source tool for metagenomics.} + +proc ModulesHelp { } { + puts stderr {Name : vsearch} + puts stderr {Version: 2.22.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {VSEARCH is a versatile open-source tool for metagenomics.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load bzip2/1.0.8 +} else { + depends-on bzip2/1.0.8 +} +prereq bzip2/1.0.8 +conflict vsearch + +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/vsearch-2.22.1-uv5aztj5zek5xmmclqqbjo4shz7pvbrj/bin} +prepend-path --delim {:} MANPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/vsearch-2.22.1-uv5aztj5zek5xmmclqqbjo4shz7pvbrj/share/man} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/vsearch-2.22.1-uv5aztj5zek5xmmclqqbjo4shz7pvbrj/.} +setenv VSEARCH_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/vsearch-2.22.1-uv5aztj5zek5xmmclqqbjo4shz7pvbrj} +append-path --delim {:} MANPATH {} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/xerces-c/3.2.4 b/modulefiles/hpccf/franklin/v0.21/software/xerces-c/3.2.4 new file mode 100644 index 00000000..974f8b71 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/xerces-c/3.2.4 @@ -0,0 +1,48 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:21.361420 +## +## xerces-c@3.2.4%gcc@11.4.0 build_system=autotools cxxstd=default netaccessor=curl transcoder=gnuiconv arch=linux-ubuntu22.04-x86_64_v3/r7l5pne +## +## Configure options: --enable-netaccessor-curl --enable-transcoder-gnuiconv +## + + +module-whatis {Xerces-C++ is a validating XML parser written in a portable subset of C++. Xerces-C++ makes it easy to give your application the ability to read and write XML data. A shared library is provided for parsing, generating, manipulating, and validating XML documents using the DOM, SAX, and SAX2 APIs.} + +proc ModulesHelp { } { + puts stderr {Name : xerces-c} + puts stderr {Version: 3.2.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Xerces-C++ is a validating XML parser written in a portable subset of} + puts stderr {C++. Xerces-C++ makes it easy to give your application the ability to} + puts stderr {read and write XML data. A shared library is provided for parsing,} + puts stderr {generating, manipulating, and validating XML documents using the DOM,} + puts stderr {SAX, and SAX2 APIs.} +} + +conflict xerces-c + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/xerces-c-3.2.4-r7l5pneiv4jgwamab6bwqj7socbaq75q/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/xerces-c-3.2.4-r7l5pneiv4jgwamab6bwqj7socbaq75q/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/xerces-c-3.2.4-r7l5pneiv4jgwamab6bwqj7socbaq75q/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/xerces-c-3.2.4-r7l5pneiv4jgwamab6bwqj7socbaq75q/include} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/xerces-c-3.2.4-r7l5pneiv4jgwamab6bwqj7socbaq75q/bin} +prepend-path --delim {:} PKG_CONFIG_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/xerces-c-3.2.4-r7l5pneiv4jgwamab6bwqj7socbaq75q/lib/pkgconfig} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/xerces-c-3.2.4-r7l5pneiv4jgwamab6bwqj7socbaq75q/.} +setenv XERCES_C_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/xerces-c-3.2.4-r7l5pneiv4jgwamab6bwqj7socbaq75q} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/yasm/1.3.0 b/modulefiles/hpccf/franklin/v0.21/software/yasm/1.3.0 new file mode 100644 index 00000000..3f57fad1 --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/yasm/1.3.0 @@ -0,0 +1,45 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:21.442559 +## +## yasm@1.3.0%gcc@11.4.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/si2y7ms +## + + +module-whatis {Yasm is a complete rewrite of the NASM-2.11.06 assembler. It supports the x86 and AMD64 instruction sets, accepts NASM and GAS assembler syntaxes and outputs binary, ELF32 and ELF64 object formats.} + +proc ModulesHelp { } { + puts stderr {Name : yasm} + puts stderr {Version: 1.3.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Yasm is a complete rewrite of the NASM-2.11.06 assembler. It supports} + puts stderr {the x86 and AMD64 instruction sets, accepts NASM and GAS assembler} + puts stderr {syntaxes and outputs binary, ELF32 and ELF64 object formats.} +} + +conflict yasm + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/yasm-1.3.0-si2y7msin7a6fxo6sbhwc6mbf45m2pll/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/yasm-1.3.0-si2y7msin7a6fxo6sbhwc6mbf45m2pll/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/yasm-1.3.0-si2y7msin7a6fxo6sbhwc6mbf45m2pll/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/yasm-1.3.0-si2y7msin7a6fxo6sbhwc6mbf45m2pll/include} +prepend-path --delim {:} PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/yasm-1.3.0-si2y7msin7a6fxo6sbhwc6mbf45m2pll/bin} +prepend-path --delim {:} MANPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/yasm-1.3.0-si2y7msin7a6fxo6sbhwc6mbf45m2pll/share/man} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/yasm-1.3.0-si2y7msin7a6fxo6sbhwc6mbf45m2pll/.} +setenv YASM_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/yasm-1.3.0-si2y7msin7a6fxo6sbhwc6mbf45m2pll} +append-path --delim {:} MANPATH {} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/franklin/v0.21/software/zlib/1.2.13 b/modulefiles/hpccf/franklin/v0.21/software/zlib/1.2.13 new file mode 100644 index 00000000..3261665f --- /dev/null +++ b/modulefiles/hpccf/franklin/v0.21/software/zlib/1.2.13 @@ -0,0 +1,44 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-16 18:07:21.481441 +## +## zlib@1.2.13%gcc@11.4.0+optimize+pic+shared build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/rubwmby +## + + +module-whatis {A free, general-purpose, legally unencumbered lossless data-compression library. } + +proc ModulesHelp { } { + puts stderr {Name : zlib} + puts stderr {Version: 1.2.13} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A free, general-purpose, legally unencumbered lossless data-compression} + puts stderr {library.} +} + +conflict zlib + +prepend-path --delim {:} LD_LIBRARY_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/zlib-1.2.13-rubwmbyumz37c5uh4gnbealnodpguolm/lib} +prepend-path --delim {:} CPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/zlib-1.2.13-rubwmbyumz37c5uh4gnbealnodpguolm/include} +prepend-path --delim {:} C_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/zlib-1.2.13-rubwmbyumz37c5uh4gnbealnodpguolm/include} +prepend-path --delim {:} CPLUS_INCLUDE_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/zlib-1.2.13-rubwmbyumz37c5uh4gnbealnodpguolm/include} +prepend-path --delim {:} MANPATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/zlib-1.2.13-rubwmbyumz37c5uh4gnbealnodpguolm/share/man} +prepend-path --delim {:} PKG_CONFIG_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/zlib-1.2.13-rubwmbyumz37c5uh4gnbealnodpguolm/lib/pkgconfig} +prepend-path --delim {:} CMAKE_PREFIX_PATH {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/zlib-1.2.13-rubwmbyumz37c5uh4gnbealnodpguolm/.} +setenv ZLIB_ROOT {/share/apps/22.04/spack/opt/software/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/zlib-1.2.13-rubwmbyumz37c5uh4gnbealnodpguolm} +append-path --delim {:} MANPATH {} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/peloton/core/cuda/11.7.1 b/modulefiles/hpccf/peloton/core/cuda/11.7.1 new file mode 100644 index 00000000..091bfb71 --- /dev/null +++ b/modulefiles/hpccf/peloton/core/cuda/11.7.1 @@ -0,0 +1,32 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 12:42:59.955428 +## +## cuda@11.7.1%gcc@11.3.0~allow-unsupported-compilers~dev build_system=generic arch=linux-ubuntu22.04-x86_64_v2/bxbn5pp +## + + +module-whatis "CUDA is a parallel computing platform and programming model invented by NVIDIA. It enables dramatic increases in computing performance by harnessing the power of the graphics processing unit (GPU)." + +proc ModulesHelp { } { + puts stderr "Name : cuda" + puts stderr "Version: 11.7.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "CUDA is a parallel computing platform and programming model invented by" + puts stderr "NVIDIA. It enables dramatic increases in computing performance by" + puts stderr "harnessing the power of the graphics processing unit (GPU). Note: This" + puts stderr "package does not currently install the drivers necessary to run CUDA." + puts stderr "These will need to be installed manually. See:" + puts stderr "https://docs.nvidia.com/cuda/ for details." +} + +conflict cuda + +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cuda-11.7.1-bxbn5ppn3atawq2yaz6ga75ygrwkypis/lib64" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cuda-11.7.1-bxbn5ppn3atawq2yaz6ga75ygrwkypis/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cuda-11.7.1-bxbn5ppn3atawq2yaz6ga75ygrwkypis/." +setenv CUDA_HOME "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cuda-11.7.1-bxbn5ppn3atawq2yaz6ga75ygrwkypis" +setenv CUDA_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cuda-11.7.1-bxbn5ppn3atawq2yaz6ga75ygrwkypis" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/core/gcc/11.3.0 b/modulefiles/hpccf/peloton/core/gcc/11.3.0 new file mode 100644 index 00000000..74b8a337 --- /dev/null +++ b/modulefiles/hpccf/peloton/core/gcc/11.3.0 @@ -0,0 +1,30 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:48:46.207299 +## +## gcc@11.3.0%gcc@11.3.0~binutils+bootstrap~graphite~nvptx~piclibs~profiled~strip build_system=autotools build_type=RelWithDebInfo languages=c,c++,fortran arch=linux-ubuntu22.04-x86_64_v2/oanvzrm +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis "The GNU Compiler Collection includes front ends for C, C++, Objective-C, Fortran, Ada, and Go, as well as libraries for these languages." + +proc ModulesHelp { } { + puts stderr "Name : gcc" + puts stderr "Version: 11.3.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "The GNU Compiler Collection includes front ends for C, C++, Objective-C," + puts stderr "Fortran, Ada, and Go, as well as libraries for these languages." +} + +conflict gcc + +prepend-path --delim ":" MANPATH "/usr/share/man" +prepend-path --delim ":" ACLOCAL_PATH "/usr/share/aclocal" +prepend-path --delim ":" PKG_CONFIG_PATH "/usr/lib/pkgconfig" +prepend-path --delim ":" PKG_CONFIG_PATH "/usr/share/pkgconfig" +setenv GCC_ROOT "/usr" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/core/gcc/7.5.0 b/modulefiles/hpccf/peloton/core/gcc/7.5.0 new file mode 100644 index 00000000..64d381c8 --- /dev/null +++ b/modulefiles/hpccf/peloton/core/gcc/7.5.0 @@ -0,0 +1,35 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:48:46.025083 +## +## gcc@7.5.0%gcc@11.3.0~binutils+bootstrap~graphite~nvptx~piclibs~profiled~strip build_system=autotools build_type=RelWithDebInfo languages=c,c++,fortran patches=98a9c96,b620e92,dc1ca24 arch=linux-ubuntu22.04-x86_64_v2/wk3qbbm +## +## Configure options: --with-pkgversion=Spack GCC --with-bugurl=https://github.com/spack/spack/issues --disable-multilib --enable-languages=c,c++,fortran --disable-nls --disable-canonical-system-headers --with-system-zlib --with-zstd-include=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/zstd-1.5.5-qjrrg3esbkloxigc53fdiqvubqq2kk6s/include --with-zstd-lib=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/zstd-1.5.5-qjrrg3esbkloxigc53fdiqvubqq2kk6s/lib --enable-bootstrap --with-mpfr-include=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mpfr-3.1.6-axyvy2a2yzhgg3uxecipyxyy6nvr2zxm/include --with-mpfr-lib=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mpfr-3.1.6-axyvy2a2yzhgg3uxecipyxyy6nvr2zxm/lib --with-gmp-include=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gmp-6.2.1-qyjndnvcjkrswgso5x4ef52hjzxvsmhw/include --with-gmp-lib=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gmp-6.2.1-qyjndnvcjkrswgso5x4ef52hjzxvsmhw/lib --with-mpc-include=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mpc-1.1.0-svg6abzmj47cauqqde4njrqangsn55h4/include --with-mpc-lib=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mpc-1.1.0-svg6abzmj47cauqqde4njrqangsn55h4/lib --without-isl --with-stage1-ldflags=-Wl,-rpath,/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gcc-7.5.0-wk3qbbmxsx4g5eew6uzvi4vlamj5zq3k/lib -Wl,-rpath,/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gcc-7.5.0-wk3qbbmxsx4g5eew6uzvi4vlamj5zq3k/lib64 -Wl,-rpath,/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gmp-6.2.1-qyjndnvcjkrswgso5x4ef52hjzxvsmhw/lib -Wl,-rpath,/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mpc-1.1.0-svg6abzmj47cauqqde4njrqangsn55h4/lib -Wl,-rpath,/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mpfr-3.1.6-axyvy2a2yzhgg3uxecipyxyy6nvr2zxm/lib -Wl,-rpath,/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/zlib-1.2.13-77qi6rvrwc4iwqziogd6vdxucahcm5qe/lib --with-boot-ldflags=-Wl,-rpath,/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gcc-7.5.0-wk3qbbmxsx4g5eew6uzvi4vlamj5zq3k/lib -Wl,-rpath,/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gcc-7.5.0-wk3qbbmxsx4g5eew6uzvi4vlamj5zq3k/lib64 -Wl,-rpath,/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gmp-6.2.1-qyjndnvcjkrswgso5x4ef52hjzxvsmhw/lib -Wl,-rpath,/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mpc-1.1.0-svg6abzmj47cauqqde4njrqangsn55h4/lib -Wl,-rpath,/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mpfr-3.1.6-axyvy2a2yzhgg3uxecipyxyy6nvr2zxm/lib -Wl,-rpath,/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/zlib-1.2.13-77qi6rvrwc4iwqziogd6vdxucahcm5qe/lib -static-libstdc++ -static-libgcc --with-build-config=spack +## + + +module-whatis "The GNU Compiler Collection includes front ends for C, C++, Objective-C, Fortran, Ada, and Go, as well as libraries for these languages." + +proc ModulesHelp { } { + puts stderr "Name : gcc" + puts stderr "Version: 7.5.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "The GNU Compiler Collection includes front ends for C, C++, Objective-C," + puts stderr "Fortran, Ada, and Go, as well as libraries for these languages." +} + +conflict gcc + +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gcc-7.5.0-wk3qbbmxsx4g5eew6uzvi4vlamj5zq3k/lib64" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gcc-7.5.0-wk3qbbmxsx4g5eew6uzvi4vlamj5zq3k/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gcc-7.5.0-wk3qbbmxsx4g5eew6uzvi4vlamj5zq3k/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gcc-7.5.0-wk3qbbmxsx4g5eew6uzvi4vlamj5zq3k/share/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gcc-7.5.0-wk3qbbmxsx4g5eew6uzvi4vlamj5zq3k/." +setenv CC "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gcc-7.5.0-wk3qbbmxsx4g5eew6uzvi4vlamj5zq3k/bin/gcc" +setenv CXX "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gcc-7.5.0-wk3qbbmxsx4g5eew6uzvi4vlamj5zq3k/bin/g++" +setenv FC "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gcc-7.5.0-wk3qbbmxsx4g5eew6uzvi4vlamj5zq3k/bin/gfortran" +setenv F77 "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gcc-7.5.0-wk3qbbmxsx4g5eew6uzvi4vlamj5zq3k/bin/gfortran" +setenv GCC_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gcc-7.5.0-wk3qbbmxsx4g5eew6uzvi4vlamj5zq3k" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/core/gcc/9.5.0 b/modulefiles/hpccf/peloton/core/gcc/9.5.0 new file mode 100644 index 00000000..d951abee --- /dev/null +++ b/modulefiles/hpccf/peloton/core/gcc/9.5.0 @@ -0,0 +1,35 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:48:46.178265 +## +## gcc@9.5.0%gcc@11.3.0~binutils+bootstrap~graphite~nvptx~piclibs~profiled~strip build_system=autotools build_type=RelWithDebInfo languages=c,c++,fortran arch=linux-ubuntu22.04-x86_64_v2/g6h5z5i +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis "The GNU Compiler Collection includes front ends for C, C++, Objective-C, Fortran, Ada, and Go, as well as libraries for these languages." + +proc ModulesHelp { } { + puts stderr "Name : gcc" + puts stderr "Version: 9.5.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "The GNU Compiler Collection includes front ends for C, C++, Objective-C," + puts stderr "Fortran, Ada, and Go, as well as libraries for these languages." +} + +conflict gcc + +prepend-path --delim ":" MANPATH "/usr/share/man" +prepend-path --delim ":" ACLOCAL_PATH "/usr/share/aclocal" +prepend-path --delim ":" PKG_CONFIG_PATH "/usr/lib/pkgconfig" +prepend-path --delim ":" PKG_CONFIG_PATH "/usr/share/pkgconfig" +setenv GCC_ROOT "/usr" + +if [module-info mode load] { +} + +set-alias gcc /usr/bin/gcc-9 +set-alias g++ /usr/bin/g++-9 +set-alias cc /usr/bin/gcc-9 +set-alias c++ /usr/bin/g++-9 diff --git a/modulefiles/hpccf/peloton/core/go/1.20.3 b/modulefiles/hpccf/peloton/core/go/1.20.3 new file mode 100644 index 00000000..cb8cea9b --- /dev/null +++ b/modulefiles/hpccf/peloton/core/go/1.20.3 @@ -0,0 +1,26 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:48:46.237816 +## +## go@1.20.3%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/ikjw3cn +## + + +module-whatis "The golang compiler and build environment" + +proc ModulesHelp { } { + puts stderr "Name : go" + puts stderr "Version: 1.20.3" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "The golang compiler and build environment" +} + +conflict go + +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/go-1.20.3-ikjw3cnhordkydfxulgxmqxinb4m4boz/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/go-1.20.3-ikjw3cnhordkydfxulgxmqxinb4m4boz/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/go-1.20.3-ikjw3cnhordkydfxulgxmqxinb4m4boz/." +setenv GO_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/go-1.20.3-ikjw3cnhordkydfxulgxmqxinb4m4boz" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/core/hwloc/2.9.0 b/modulefiles/hpccf/peloton/core/hwloc/2.9.0 new file mode 100644 index 00000000..7aa93907 --- /dev/null +++ b/modulefiles/hpccf/peloton/core/hwloc/2.9.0 @@ -0,0 +1,39 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:48:46.520944 +## +## hwloc@2.9.0%gcc@11.3.0~cairo~cuda~gl~libudev+libxml2~netloc~nvml~oneapi-level-zero~opencl+pci~rocm build_system=autotools libs=shared,static arch=linux-ubuntu22.04-x86_64_v2/jh42wxu +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis "The Hardware Locality (hwloc) software project." + +proc ModulesHelp { } { + puts stderr "Name : hwloc" + puts stderr "Version: 2.9.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "The Hardware Locality (hwloc) software project. The Portable Hardware" + puts stderr "Locality (hwloc) software package provides a portable abstraction" + puts stderr "(across OS, versions, architectures, ...) of the hierarchical topology" + puts stderr "of modern architectures, including NUMA memory nodes, sockets, shared" + puts stderr "caches, cores and simultaneous multithreading. It also gathers various" + puts stderr "system attributes such as cache and memory information as well as the" + puts stderr "locality of I/O devices such as network interfaces, InfiniBand HCAs or" + puts stderr "GPUs. It primarily aims at helping applications with gathering" + puts stderr "information about modern computing hardware so as to exploit it" + puts stderr "accordingly and efficiently." +} + +conflict hwloc + +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/manual/hwloc/2.9.0/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/manual/hwloc/2.9.0/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/manual/hwloc/2.9.0/share/man" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/manual/hwloc/2.9.0/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/manual/hwloc/2.9.0/." +setenv HWLOC_ROOT "/share/apps/22.04/manual/hwloc/2.9.0" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/core/intel-oneapi-compilers/2022.2.1 b/modulefiles/hpccf/peloton/core/intel-oneapi-compilers/2022.2.1 new file mode 100644 index 00000000..098a49fa --- /dev/null +++ b/modulefiles/hpccf/peloton/core/intel-oneapi-compilers/2022.2.1 @@ -0,0 +1,51 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:48:46.636824 +## +## intel-oneapi-compilers@2022.2.1%gcc@11.3.0+envmods build_system=generic arch=linux-ubuntu22.04-x86_64_v2/ludgpxx +## + + +module-whatis "Intel oneAPI Compilers. Includes: icc, icpc, ifort, icx, icpx, ifx, and dpcpp." + +proc ModulesHelp { } { + puts stderr "Name : intel-oneapi-compilers" + puts stderr "Version: 2022.2.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Intel oneAPI Compilers. Includes: icc, icpc, ifort, icx, icpx, ifx, and" + puts stderr "dpcpp. LICENSE INFORMATION: By downloading and using this software, you" + puts stderr "agree to the terms and conditions of the software license agreements at" + puts stderr "https://intel.ly/393CijO." +} + +conflict intel-oneapi-compilers + +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-ludgpxxgyrhramquhp7xxotgjm7xpq6n/lib" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-ludgpxxgyrhramquhp7xxotgjm7xpq6n/." +prepend-path --delim ":" ACL_BOARD_VENDOR_PATH "/opt/Intel/OpenCLFPGA/oneAPI/Boards" +setenv CMPLR_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-ludgpxxgyrhramquhp7xxotgjm7xpq6n/compiler/2022.2.1" +prepend-path --delim ":" DIAGUTIL_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-ludgpxxgyrhramquhp7xxotgjm7xpq6n/compiler/2022.2.1/sys_check/sys_check.sh" +setenv FPGA_VARS_ARGS "" +setenv FPGA_VARS_DIR "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-ludgpxxgyrhramquhp7xxotgjm7xpq6n/compiler/2022.2.1/linux/lib/oclfpga" +setenv INTELFPGAOCLSDKROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-ludgpxxgyrhramquhp7xxotgjm7xpq6n/compiler/2022.2.1/linux/lib/oclfpga" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-ludgpxxgyrhramquhp7xxotgjm7xpq6n/compiler/2022.2.1/linux/compiler/lib/intel64_lin:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-ludgpxxgyrhramquhp7xxotgjm7xpq6n/compiler/2022.2.1/linux/lib" +prepend-path --delim ":" NLSPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-ludgpxxgyrhramquhp7xxotgjm7xpq6n/compiler/2022.2.1/linux/compiler/lib/intel64_lin/locale/%l_%t/%N" +prepend-path --delim ":" OCL_ICD_FILENAMES "libintelocl_emu.so:libalteracl.so:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-ludgpxxgyrhramquhp7xxotgjm7xpq6n/compiler/2022.2.1/linux/lib/x64/libintelocl.so" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-ludgpxxgyrhramquhp7xxotgjm7xpq6n/compiler/2022.2.1/linux/IntelDPCPP" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-ludgpxxgyrhramquhp7xxotgjm7xpq6n/compiler/2022.2.1/linux/compiler/lib/intel64_lin" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-ludgpxxgyrhramquhp7xxotgjm7xpq6n/compiler/2022.2.1/linux/lib/oclfpga/host/linux64/lib" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-ludgpxxgyrhramquhp7xxotgjm7xpq6n/compiler/2022.2.1/linux/lib/x64" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-ludgpxxgyrhramquhp7xxotgjm7xpq6n/compiler/2022.2.1/linux/lib" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-ludgpxxgyrhramquhp7xxotgjm7xpq6n/compiler/2022.2.1/documentation/en/man/common:/home/spack-user/.nvm/versions/node/v14.20.0/share/man:/share/apps/22.04/manual/openmpi/4.1.5/share/man:/share/apps/22.04/manual/slurm/22.05.9/share/man::/opt/puppetlabs/puppet/share/man::/home/spack-user/.fzf/man" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-ludgpxxgyrhramquhp7xxotgjm7xpq6n/compiler/2022.2.1/linux/bin" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-ludgpxxgyrhramquhp7xxotgjm7xpq6n/compiler/2022.2.1/linux/bin/intel64" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-ludgpxxgyrhramquhp7xxotgjm7xpq6n/compiler/2022.2.1/linux/lib/oclfpga/bin" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-ludgpxxgyrhramquhp7xxotgjm7xpq6n/compiler/2022.2.1/lib/pkgconfig" +setenv CC "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-ludgpxxgyrhramquhp7xxotgjm7xpq6n/compiler/2022.2.1/linux/bin/icx" +setenv CXX "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-ludgpxxgyrhramquhp7xxotgjm7xpq6n/compiler/2022.2.1/linux/bin/icpx" +setenv F77 "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-ludgpxxgyrhramquhp7xxotgjm7xpq6n/compiler/2022.2.1/linux/bin/ifx" +setenv FC "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-ludgpxxgyrhramquhp7xxotgjm7xpq6n/compiler/2022.2.1/linux/bin/ifx" +setenv INTEL_ONEAPI_COMPILERS_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-ludgpxxgyrhramquhp7xxotgjm7xpq6n" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/core/jdk/17.0.1 b/modulefiles/hpccf/peloton/core/jdk/17.0.1 new file mode 100644 index 00000000..2aa003f9 --- /dev/null +++ b/modulefiles/hpccf/peloton/core/jdk/17.0.1 @@ -0,0 +1,31 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:48:46.823069 +## +## jdk@17.0.1%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/dkgoji4 +## + + +module-whatis "The Java Development Kit (JDK) released by Oracle Corporation in the form of a binary product aimed at Java developers. Includes a complete JRE plus tools for developing, debugging, and monitoring Java applications." + +proc ModulesHelp { } { + puts stderr "Name : jdk" + puts stderr "Version: 17.0.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "The Java Development Kit (JDK) released by Oracle Corporation in the" + puts stderr "form of a binary product aimed at Java developers. Includes a complete" + puts stderr "JRE plus tools for developing, debugging, and monitoring Java" + puts stderr "applications." +} + +conflict jdk + +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/jdk-17.0.1-dkgoji4ld43pu2ypbqjkb3umezwmw7ne/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/jdk-17.0.1-dkgoji4ld43pu2ypbqjkb3umezwmw7ne/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/jdk-17.0.1-dkgoji4ld43pu2ypbqjkb3umezwmw7ne/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/jdk-17.0.1-dkgoji4ld43pu2ypbqjkb3umezwmw7ne/." +setenv JAVA_HOME "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/jdk-17.0.1-dkgoji4ld43pu2ypbqjkb3umezwmw7ne" +setenv JDK_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/jdk-17.0.1-dkgoji4ld43pu2ypbqjkb3umezwmw7ne" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/core/libevent/2.1.12 b/modulefiles/hpccf/peloton/core/libevent/2.1.12 new file mode 100644 index 00000000..1b8d1b17 --- /dev/null +++ b/modulefiles/hpccf/peloton/core/libevent/2.1.12 @@ -0,0 +1,32 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:48:46.865794 +## +## libevent@2.1.12%gcc@11.3.0+openssl build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/jmoh6b5 +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis "The libevent API provides a mechanism to execute a callback function when a specific event occurs on a file descriptor or after a timeout has been reached. Furthermore, libevent also support callbacks due to signals or regular timeouts." + +proc ModulesHelp { } { + puts stderr "Name : libevent" + puts stderr "Version: 2.1.12" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "The libevent API provides a mechanism to execute a callback function" + puts stderr "when a specific event occurs on a file descriptor or after a timeout has" + puts stderr "been reached. Furthermore, libevent also support callbacks due to" + puts stderr "signals or regular timeouts." +} + +conflict libevent + +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/manual/libevent/2.1.12-stable/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/manual/libevent/2.1.12-stable/bin" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/manual/libevent/2.1.12-stable/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/manual/libevent/2.1.12-stable/." +setenv LIBEVENT_ROOT "/share/apps/22.04/manual/libevent/2.1.12-stable" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/core/module-index.yaml b/modulefiles/hpccf/peloton/core/module-index.yaml new file mode 100644 index 00000000..e5ce6599 --- /dev/null +++ b/modulefiles/hpccf/peloton/core/module-index.yaml @@ -0,0 +1,52 @@ +module_index: + bxbn5ppn3atawq2yaz6ga75ygrwkypis: + path: /share/apps/22.04/modulefiles/spack/core/cuda/11.7.1 + use_name: cuda/11.7.1 + wk3qbbmxsx4g5eew6uzvi4vlamj5zq3k: + path: /share/apps/22.04/modulefiles/spack/core/gcc/7.5.0 + use_name: gcc/7.5.0 + g6h5z5igmx3pzfajsbx36j355fezjjvd: + path: /share/apps/22.04/modulefiles/spack/core/gcc/9.5.0 + use_name: gcc/9.5.0 + oanvzrmlf2mo3ylele5pcd66yfvxnf3x: + path: /share/apps/22.04/modulefiles/spack/core/gcc/11.3.0 + use_name: gcc/11.3.0 + jh42wxuzu57jjj6fkhwja5jh7z4n7r7m: + path: /share/apps/22.04/modulefiles/spack/core/hwloc/2.9.0 + use_name: hwloc/2.9.0 + ludgpxxgyrhramquhp7xxotgjm7xpq6n: + path: /share/apps/22.04/modulefiles/spack/core/intel-oneapi-compilers/2022.2.1 + use_name: intel-oneapi-compilers/2022.2.1 + dkgoji4ld43pu2ypbqjkb3umezwmw7ne: + path: /share/apps/22.04/modulefiles/spack/core/jdk/17.0.1 + use_name: jdk/17.0.1 + jmoh6b5dx5h2bymiuotkrofzxjam4bxr: + path: /share/apps/22.04/modulefiles/spack/core/libevent/2.1.12 + use_name: libevent/2.1.12 + oucx2ae437h47qbuudvuzl6yuejnpvde: + path: /share/apps/22.04/modulefiles/spack/core/openjdk/11.0.17_8 + use_name: openjdk/11.0.17_8 + 4yopvxz7hv3owcodzmzokvaq62fndvkf: + path: /share/apps/22.04/modulefiles/spack/core/openjdk/16.0.2 + use_name: openjdk/16.0.2 + 63v4xd2quvxgy6c2nivwblfdbaymy7p3: + path: /share/apps/22.04/modulefiles/spack/core/openmpi/4.1.5 + use_name: openmpi/4.1.5 + mi6igmv7hce4icr3xac6y6p6at7dqi4o: + path: /share/apps/22.04/modulefiles/spack/core/openmpi/4.1.5-mpi-io + use_name: openmpi/4.1.5-mpi-io + zzte3r2djcw4p6kqqkz63w3r5qzqz5sf: + path: /share/apps/22.04/modulefiles/spack/core/pmix/4.1.1 + use_name: pmix/4.1.1 + nfnt6yv4yon6xpqbnltal335rqs4o3xh: + path: /share/apps/22.04/modulefiles/spack/core/slurm/22.05.9 + use_name: slurm/22.05.9 + sghekdqldnj4ddcwtfhvkhis7rvyq5ys: + path: /share/apps/22.04/modulefiles/spack/core/ucx/1.13.1 + use_name: ucx/1.13.1 + ikjw3cnhordkydfxulgxmqxinb4m4boz: + path: /share/apps/22.04/modulefiles/spack/core/go/1.20.3 + use_name: go/1.20.3 + aysfvm7c54enbo4lvswsov5gkomd3kij: + path: /share/apps/22.04/modulefiles/spack/core/openmpi/4.1.5+amd + use_name: openmpi/4.1.5+amd diff --git a/modulefiles/hpccf/peloton/core/openjdk/11.0.17_8 b/modulefiles/hpccf/peloton/core/openjdk/11.0.17_8 new file mode 100644 index 00000000..476fca0f --- /dev/null +++ b/modulefiles/hpccf/peloton/core/openjdk/11.0.17_8 @@ -0,0 +1,28 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:48:46.905561 +## +## openjdk@11.0.17_8%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/oucx2ae +## + + +module-whatis "The free and opensource java implementation" + +proc ModulesHelp { } { + puts stderr "Name : openjdk" + puts stderr "Version: 11.0.17_8" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "The free and opensource java implementation" +} + +conflict openjdk + +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openjdk-11.0.17_8-oucx2ae437h47qbuudvuzl6yuejnpvde/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openjdk-11.0.17_8-oucx2ae437h47qbuudvuzl6yuejnpvde/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openjdk-11.0.17_8-oucx2ae437h47qbuudvuzl6yuejnpvde/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openjdk-11.0.17_8-oucx2ae437h47qbuudvuzl6yuejnpvde/." +setenv JAVA_HOME "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openjdk-11.0.17_8-oucx2ae437h47qbuudvuzl6yuejnpvde" +setenv OPENJDK_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openjdk-11.0.17_8-oucx2ae437h47qbuudvuzl6yuejnpvde" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/core/openjdk/16.0.2 b/modulefiles/hpccf/peloton/core/openjdk/16.0.2 new file mode 100644 index 00000000..135a2a38 --- /dev/null +++ b/modulefiles/hpccf/peloton/core/openjdk/16.0.2 @@ -0,0 +1,27 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:48:46.938137 +## +## openjdk@16.0.2%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/4yopvxz +## + + +module-whatis "The free and opensource java implementation" + +proc ModulesHelp { } { + puts stderr "Name : openjdk" + puts stderr "Version: 16.0.2" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "The free and opensource java implementation" +} + +conflict openjdk + +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openjdk-16.0.2-4yopvxz7hv3owcodzmzokvaq62fndvkf/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openjdk-16.0.2-4yopvxz7hv3owcodzmzokvaq62fndvkf/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openjdk-16.0.2-4yopvxz7hv3owcodzmzokvaq62fndvkf/." +setenv JAVA_HOME "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openjdk-16.0.2-4yopvxz7hv3owcodzmzokvaq62fndvkf" +setenv OPENJDK_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openjdk-16.0.2-4yopvxz7hv3owcodzmzokvaq62fndvkf" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/core/openmpi/4.1.5 b/modulefiles/hpccf/peloton/core/openmpi/4.1.5 new file mode 100644 index 00000000..1e7d4c0d --- /dev/null +++ b/modulefiles/hpccf/peloton/core/openmpi/4.1.5 @@ -0,0 +1,41 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:48:46.993489 +## +## openmpi@4.1.5%gcc@11.3.0~atomics+cuda~cxx~cxx_exceptions~gpfs~internal-hwloc~java~legacylaunchers~lustre~memchecker~orterunprefix~pmi~romio+rsh~singularity+static+vt+wrapper-rpath build_system=autotools cuda_arch=none fabrics=ucx schedulers=slurm arch=linux-ubuntu22.04-x86_64_v2/63v4xd2 +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis "An open source Message Passing Interface implementation." + +proc ModulesHelp { } { + puts stderr "Name : openmpi" + puts stderr "Version: 4.1.5" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "An open source Message Passing Interface implementation. The Open MPI" + puts stderr "Project is an open source Message Passing Interface implementation that" + puts stderr "is developed and maintained by a consortium of academic, research, and" + puts stderr "industry partners. Open MPI is therefore able to combine the expertise," + puts stderr "technologies, and resources from all across the High Performance" + puts stderr "Computing community in order to build the best MPI library available." + puts stderr "Open MPI offers advantages for system and software vendors, application" + puts stderr "developers and computer science researchers." +} + +conflict openmpi + +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/manual/openmpi/4.1.5/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/manual/openmpi/4.1.5/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/manual/openmpi/4.1.5/share/man" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/manual/openmpi/4.1.5/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/manual/openmpi/4.1.5/." +setenv MPICC "/share/apps/22.04/manual/openmpi/4.1.5/bin/mpicc" +setenv MPICXX "/share/apps/22.04/manual/openmpi/4.1.5/bin/mpic++" +setenv MPIF77 "/share/apps/22.04/manual/openmpi/4.1.5/bin/mpif77" +setenv MPIF90 "/share/apps/22.04/manual/openmpi/4.1.5/bin/mpif90" +setenv OPENMPI_ROOT "/share/apps/22.04/manual/openmpi/4.1.5" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/core/openmpi/4.1.5+amd b/modulefiles/hpccf/peloton/core/openmpi/4.1.5+amd new file mode 100644 index 00000000..e16a3815 --- /dev/null +++ b/modulefiles/hpccf/peloton/core/openmpi/4.1.5+amd @@ -0,0 +1,41 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:48:47.339436 +## +## openmpi@4.1.5%gcc@11.3.0~atomics+cuda~cxx~cxx_exceptions~gpfs~internal-hwloc~java~legacylaunchers~lustre~memchecker~orterunprefix~pmi~romio+rsh~singularity+static+vt+wrapper-rpath build_system=autotools cuda_arch=none fabrics=ucx schedulers=slurm arch=linux-ubuntu22.04-zen2/aysfvm7 +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis "An open source Message Passing Interface implementation." + +proc ModulesHelp { } { + puts stderr "Name : openmpi" + puts stderr "Version: 4.1.5" + puts stderr "Target : zen2" + puts stderr "" + puts stderr "An open source Message Passing Interface implementation. The Open MPI" + puts stderr "Project is an open source Message Passing Interface implementation that" + puts stderr "is developed and maintained by a consortium of academic, research, and" + puts stderr "industry partners. Open MPI is therefore able to combine the expertise," + puts stderr "technologies, and resources from all across the High Performance" + puts stderr "Computing community in order to build the best MPI library available." + puts stderr "Open MPI offers advantages for system and software vendors, application" + puts stderr "developers and computer science researchers." +} + +conflict openmpi + +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/manual/openmpi/4.1.5/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/manual/openmpi/4.1.5/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/manual/openmpi/4.1.5/share/man" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/manual/openmpi/4.1.5/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/manual/openmpi/4.1.5/." +setenv MPICC "/share/apps/22.04/manual/openmpi/4.1.5/bin/mpicc" +setenv MPICXX "/share/apps/22.04/manual/openmpi/4.1.5/bin/mpic++" +setenv MPIF77 "/share/apps/22.04/manual/openmpi/4.1.5/bin/mpif77" +setenv MPIF90 "/share/apps/22.04/manual/openmpi/4.1.5/bin/mpif90" +setenv OPENMPI_ROOT "/share/apps/22.04/manual/openmpi/4.1.5" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/core/openmpi/4.1.5-mpi-io b/modulefiles/hpccf/peloton/core/openmpi/4.1.5-mpi-io new file mode 100644 index 00000000..3e96a91f --- /dev/null +++ b/modulefiles/hpccf/peloton/core/openmpi/4.1.5-mpi-io @@ -0,0 +1,41 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:48:47.693538 +## +## openmpi@4.1.5%gcc@11.3.0~atomics+cuda~cxx~cxx_exceptions~gpfs~internal-hwloc~java~legacylaunchers~lustre~memchecker~orterunprefix~pmi+romio+rsh~singularity+static+vt+wrapper-rpath build_system=autotools cuda_arch=none fabrics=ucx schedulers=slurm arch=linux-ubuntu22.04-x86_64_v2/mi6igmv +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis "An open source Message Passing Interface implementation." + +proc ModulesHelp { } { + puts stderr "Name : openmpi" + puts stderr "Version: 4.1.5" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "An open source Message Passing Interface implementation. The Open MPI" + puts stderr "Project is an open source Message Passing Interface implementation that" + puts stderr "is developed and maintained by a consortium of academic, research, and" + puts stderr "industry partners. Open MPI is therefore able to combine the expertise," + puts stderr "technologies, and resources from all across the High Performance" + puts stderr "Computing community in order to build the best MPI library available." + puts stderr "Open MPI offers advantages for system and software vendors, application" + puts stderr "developers and computer science researchers." +} + +conflict openmpi + +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/manual/openmpi/4.1.5-mpi-io/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/manual/openmpi/4.1.5-mpi-io/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/manual/openmpi/4.1.5-mpi-io/share/man" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/manual/openmpi/4.1.5-mpi-io/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/manual/openmpi/4.1.5-mpi-io/." +setenv MPICC "/share/apps/22.04/manual/openmpi/4.1.5-mpi-io/bin/mpicc" +setenv MPICXX "/share/apps/22.04/manual/openmpi/4.1.5-mpi-io/bin/mpic++" +setenv MPIF77 "/share/apps/22.04/manual/openmpi/4.1.5-mpi-io/bin/mpif77" +setenv MPIF90 "/share/apps/22.04/manual/openmpi/4.1.5-mpi-io/bin/mpif90" +setenv OPENMPI_ROOT "/share/apps/22.04/manual/openmpi/4.1.5-mpi-io" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/core/openmpi/default b/modulefiles/hpccf/peloton/core/openmpi/default new file mode 120000 index 00000000..7aa7ea5f --- /dev/null +++ b/modulefiles/hpccf/peloton/core/openmpi/default @@ -0,0 +1 @@ +/share/apps/22.04/modulefiles/spack/core/openmpi/4.1.5+amd \ No newline at end of file diff --git a/modulefiles/hpccf/peloton/core/pmix/4.1.1 b/modulefiles/hpccf/peloton/core/pmix/4.1.1 new file mode 100644 index 00000000..e4e2f459 --- /dev/null +++ b/modulefiles/hpccf/peloton/core/pmix/4.1.1 @@ -0,0 +1,46 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:48:48.067792 +## +## pmix@4.1.1%gcc@11.3.0~docs+pmi_backwards_compatibility~restful build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/zzte3r2 +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis "The Process Management Interface (PMI) has been used for quite some time as a means of exchanging wireup information needed for interprocess communication. However, meeting the significant orchestration challenges presented by exascale systems requires that the process-to-system interface evolve to permit a tighter integration between the different components of the parallel application and existing and future SMS solutions." + +proc ModulesHelp { } { + puts stderr "Name : pmix" + puts stderr "Version: 4.1.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "The Process Management Interface (PMI) has been used for quite some time" + puts stderr "as a means of exchanging wireup information needed for interprocess" + puts stderr "communication. However, meeting the significant orchestration challenges" + puts stderr "presented by exascale systems requires that the process-to-system" + puts stderr "interface evolve to permit a tighter integration between the different" + puts stderr "components of the parallel application and existing and future SMS" + puts stderr "solutions. PMI Exascale (PMIx) addresses these needs by providing an" + puts stderr "extended version of the PMI definitions specifically designed to support" + puts stderr "exascale and beyond environments by: (a) adding flexibility to the" + puts stderr "functionality expressed in the existing APIs, (b) augmenting the" + puts stderr "interfaces with new APIs that provide extended capabilities, (c) forging" + puts stderr "a collaboration between subsystem providers including resource manager," + puts stderr "fabric, file system, and programming library developers, (d)" + puts stderr "establishing a standards-like body for maintaining the definitions, and" + puts stderr "(e) providing a reference implementation of the PMIx standard that" + puts stderr "demonstrates the desired level of scalability while maintaining strict" + puts stderr "separation between it and the standard itself." +} + +conflict pmix + +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/manual/pmix/4.1.1/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/manual/pmix/4.1.1/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/manual/pmix/4.1.1/share/man" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/manual/pmix/4.1.1/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/manual/pmix/4.1.1/." +setenv PMIX_ROOT "/share/apps/22.04/manual/pmix/4.1.1" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/core/slurm/22.05.9 b/modulefiles/hpccf/peloton/core/slurm/22.05.9 new file mode 100644 index 00000000..9ff4b5a7 --- /dev/null +++ b/modulefiles/hpccf/peloton/core/slurm/22.05.9 @@ -0,0 +1,40 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:48:48.134263 +## +## slurm@22-05-9%gcc@11.3.0~gtk~hdf5+hwloc+mariadb+pmix+readline+restd build_system=autotools sysconfdir=PREFIX/etc arch=linux-ubuntu22.04-x86_64_v2/nfnt6yv +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis "Slurm is an open source, fault-tolerant, and highly scalable cluster management and job scheduling system for large and small Linux clusters." + +proc ModulesHelp { } { + puts stderr "Name : slurm" + puts stderr "Version: 22-05-9" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Slurm is an open source, fault-tolerant, and highly scalable cluster" + puts stderr "management and job scheduling system for large and small Linux clusters." + puts stderr "Slurm requires no kernel modifications for its operation and is" + puts stderr "relatively self-contained. As a cluster workload manager, Slurm has" + puts stderr "three key functions. First, it allocates exclusive and/or non-exclusive" + puts stderr "access to resources (compute nodes) to users for some duration of time" + puts stderr "so they can perform work. Second, it provides a framework for starting," + puts stderr "executing, and monitoring work (normally a parallel job) on the set of" + puts stderr "allocated nodes. Finally, it arbitrates contention for resources by" + puts stderr "managing a queue of pending work." +} + +conflict slurm + +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/manual/slurm/22.05.9/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/manual/slurm/22.05.9/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/manual/slurm/22.05.9/share/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/manual/slurm/22.05.9/." +setenv SLURM_ROOT "/share/apps/22.04/manual/slurm/22.05.9" + +if [module-info mode load] { +} + +setenv SQUEUE_FORMAT "%.20i %.9P %.8j %.8u %.8a %.2t %.11M %.11L %.5D %3C %6m %R" diff --git a/modulefiles/hpccf/peloton/core/ucx/1.13.1 b/modulefiles/hpccf/peloton/core/ucx/1.13.1 new file mode 100644 index 00000000..5add6e42 --- /dev/null +++ b/modulefiles/hpccf/peloton/core/ucx/1.13.1 @@ -0,0 +1,30 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:48:48.522713 +## +## ucx@1.13.1%gcc@11.3.0~assertions~backtrace_detail~cma~cuda~dc~debug~dm+examples~gdrcopy~gtest~ib_hw_tm~java~knem~logging~mlx5_dv+openmp+optimizations~parameter_checking+pic~rc~rdmacm~rocm+thread_multiple~ucg~ud~verbs~vfs~xpmem build_system=autotools libs=shared,static opt=3 patches=32fce32 simd=auto arch=linux-ubuntu22.04-x86_64_v2/sghekdq +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis "a communication library implementing high-performance messaging for MPI/PGAS frameworks" + +proc ModulesHelp { } { + puts stderr "Name : ucx" + puts stderr "Version: 1.13.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "a communication library implementing high-performance messaging for" + puts stderr "MPI/PGAS frameworks" +} + +conflict ucx + +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/manual/ucx/1.13.1/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/manual/ucx/1.13.1/bin" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/manual/ucx/1.13.1/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/manual/ucx/1.13.1/." +setenv UCX_ROOT "/share/apps/22.04/manual/ucx/1.13.1" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/general/aria2/1.36.0 b/modulefiles/hpccf/peloton/general/aria2/1.36.0 new file mode 100644 index 00000000..e172f7f1 --- /dev/null +++ b/modulefiles/hpccf/peloton/general/aria2/1.36.0 @@ -0,0 +1,26 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 15:51:54.512830 +## +## aria2@1.36.0%gcc@11.3.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/3nbosab +## + + +module-whatis "An ultra fast download utility" + +proc ModulesHelp { } { + puts stderr "Name : aria2" + puts stderr "Version: 1.36.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "An ultra fast download utility" +} + +conflict aria2 + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/aria2-1.36.0-3nbosab6kinjix5byuknci6m4iwdkr7a/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/aria2-1.36.0-3nbosab6kinjix5byuknci6m4iwdkr7a/share/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/aria2-1.36.0-3nbosab6kinjix5byuknci6m4iwdkr7a/." +setenv ARIA2_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/aria2-1.36.0-3nbosab6kinjix5byuknci6m4iwdkr7a" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/general/aspera-cli/3.7.7 b/modulefiles/hpccf/peloton/general/aspera-cli/3.7.7 new file mode 100644 index 00000000..8e47caea --- /dev/null +++ b/modulefiles/hpccf/peloton/general/aspera-cli/3.7.7 @@ -0,0 +1,25 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 15:51:55.054840 +## +## aspera-cli@3.7.7%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/pbcdmfm +## + + +module-whatis "The Aspera CLI client for the Fast and Secure Protocol (FASP)." + +proc ModulesHelp { } { + puts stderr "Name : aspera-cli" + puts stderr "Version: 3.7.7" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "The Aspera CLI client for the Fast and Secure Protocol (FASP)." +} + +conflict aspera-cli + +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/aspera-cli-3.7.7-pbcdmfmnjhx3bmlwtglhgrayazs2k2zo/." +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/aspera-cli-3.7.7-pbcdmfmnjhx3bmlwtglhgrayazs2k2zo/cli/bin" +setenv ASPERA_CLI_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/aspera-cli-3.7.7-pbcdmfmnjhx3bmlwtglhgrayazs2k2zo" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/general/module-index.yaml b/modulefiles/hpccf/peloton/general/module-index.yaml new file mode 100644 index 00000000..ea96cf08 --- /dev/null +++ b/modulefiles/hpccf/peloton/general/module-index.yaml @@ -0,0 +1,7 @@ +module_index: + 3nbosab6kinjix5byuknci6m4iwdkr7a: + path: /share/apps/22.04/modulefiles/spack/general/aria2/1.36.0 + use_name: aria2/1.36.0 + pbcdmfmnjhx3bmlwtglhgrayazs2k2zo: + path: /share/apps/22.04/modulefiles/spack/general/aspera-cli/3.7.7 + use_name: aspera-cli/3.7.7 diff --git a/modulefiles/hpccf/peloton/libs/amdfftw/3.2 b/modulefiles/hpccf/peloton/libs/amdfftw/3.2 new file mode 100644 index 00000000..a9a0f024 --- /dev/null +++ b/modulefiles/hpccf/peloton/libs/amdfftw/3.2 @@ -0,0 +1,39 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 12:43:19.741200 +## +## amdfftw@3.2%gcc@11.3.0~amd-app-opt~amd-dynamic-dispatcher~amd-fast-planner~amd-mpi-vader-limit~amd-top-n-planner~amd-trans~debug+mpi+openmp+shared~static~threads build_system=autotools precision=double,float arch=linux-ubuntu22.04-zen/lo3trwp +## + + +module-whatis "FFTW (AMD Optimized version) is a comprehensive collection of fast C routines for computing the Discrete Fourier Transform (DFT) and various special cases thereof." + +proc ModulesHelp { } { + puts stderr "Name : amdfftw" + puts stderr "Version: 3.2" + puts stderr "Target : zen" + puts stderr "" + puts stderr "FFTW (AMD Optimized version) is a comprehensive collection of fast C" + puts stderr "routines for computing the Discrete Fourier Transform (DFT) and various" + puts stderr "special cases thereof. It is an open-source implementation of the Fast" + puts stderr "Fourier transform algorithm. It can compute transforms of real and" + puts stderr "complex-values arrays of arbitrary size and dimension. AMD Optimized" + puts stderr "FFTW is the optimized FFTW implementation targeted for AMD CPUs. For" + puts stderr "single precision build, please use precision value as float. Example :" + puts stderr "spack install amdfftw precision=float" +} + +conflict amdfftw + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen/gcc-11.3.0/amdfftw-3.2-lo3trwpcz6qiiosnjnjkierxwclxuuk7/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen/gcc-11.3.0/amdfftw-3.2-lo3trwpcz6qiiosnjnjkierxwclxuuk7/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen/gcc-11.3.0/amdfftw-3.2-lo3trwpcz6qiiosnjnjkierxwclxuuk7/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen/gcc-11.3.0/amdfftw-3.2-lo3trwpcz6qiiosnjnjkierxwclxuuk7/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen/gcc-11.3.0/amdfftw-3.2-lo3trwpcz6qiiosnjnjkierxwclxuuk7/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen/gcc-11.3.0/amdfftw-3.2-lo3trwpcz6qiiosnjnjkierxwclxuuk7/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen/gcc-11.3.0/amdfftw-3.2-lo3trwpcz6qiiosnjnjkierxwclxuuk7/share/man" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen/gcc-11.3.0/amdfftw-3.2-lo3trwpcz6qiiosnjnjkierxwclxuuk7/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen/gcc-11.3.0/amdfftw-3.2-lo3trwpcz6qiiosnjnjkierxwclxuuk7/." +setenv AMDFFTW_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen/gcc-11.3.0/amdfftw-3.2-lo3trwpcz6qiiosnjnjkierxwclxuuk7" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/libs/boost/1.82.0 b/modulefiles/hpccf/peloton/libs/boost/1.82.0 new file mode 100644 index 00000000..234f4ef0 --- /dev/null +++ b/modulefiles/hpccf/peloton/libs/boost/1.82.0 @@ -0,0 +1,34 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 12:43:19.974059 +## +## boost@1.82.0%gcc@11.3.0~atomic~chrono~clanglibcpp+container~context~contract~coroutine~date_time~debug+exception~fiber~filesystem~graph~graph_parallel~icu~iostreams~json~locale~log+math~mpi+multithreaded~nowide~numpy~pic~program_options~python+random~regex~serialization+shared~signals~singlethreaded~stacktrace~system~taggedlayout~test~thread~timer~type_erasure~versionedlayout~wave build_system=generic cxxstd=98 patches=a440f96,a7c807f visibility=hidden arch=linux-ubuntu22.04-x86_64_v2/pafzrtu +## + + +module-whatis "Boost provides free peer-reviewed portable C++ source libraries, emphasizing libraries that work well with the C++ Standard Library." + +proc ModulesHelp { } { + puts stderr "Name : boost" + puts stderr "Version: 1.82.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Boost provides free peer-reviewed portable C++ source libraries," + puts stderr "emphasizing libraries that work well with the C++ Standard Library." + puts stderr "Boost libraries are intended to be widely useful, and usable across a" + puts stderr "broad spectrum of applications. The Boost license encourages both" + puts stderr "commercial and non-commercial use." +} + +conflict boost + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/boost-1.82.0-pafzrtu3pw6mci6mobvyoctuckqv3xe4/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/boost-1.82.0-pafzrtu3pw6mci6mobvyoctuckqv3xe4/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/boost-1.82.0-pafzrtu3pw6mci6mobvyoctuckqv3xe4/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/boost-1.82.0-pafzrtu3pw6mci6mobvyoctuckqv3xe4/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/boost-1.82.0-pafzrtu3pw6mci6mobvyoctuckqv3xe4/lib" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/boost-1.82.0-pafzrtu3pw6mci6mobvyoctuckqv3xe4/." +setenv BOOST_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/boost-1.82.0-pafzrtu3pw6mci6mobvyoctuckqv3xe4" +setenv BOOST_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/boost-1.82.0-pafzrtu3pw6mci6mobvyoctuckqv3xe4" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/libs/cgal/5.4.1 b/modulefiles/hpccf/peloton/libs/cgal/5.4.1 new file mode 100644 index 00000000..26ae8b74 --- /dev/null +++ b/modulefiles/hpccf/peloton/libs/cgal/5.4.1 @@ -0,0 +1,38 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 12:43:20.000497 +## +## cgal@5.4.1%gcc@11.3.0~core~demos+eigen~header_only~imageio~ipo+shared build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v2/texibm3 +## +## Configure options: -DBUILD_SHARED_LIBS:BOOL=True -DWITH_CGAL_Core:BOOL=False -DWITH_CGAL_ImageIO:BOOL=False -DWITH_CGAL_Qt5:BOOL=False -DCGAL_HEADER_ONLY:BOOL=False +## + + +module-whatis "The Computational Geometry Algorithms Library (CGAL) is a C++ library that aims to provide easy access to efficient and reliable algorithms in computational geometry. CGAL is used in various areas needing geometric computation, such as geographic information systems, computer aided design, molecular biology, medical imaging, computer graphics, and robotics. " + +proc ModulesHelp { } { + puts stderr "Name : cgal" + puts stderr "Version: 5.4.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "The Computational Geometry Algorithms Library (CGAL) is a C++ library" + puts stderr "that aims to provide easy access to efficient and reliable algorithms in" + puts stderr "computational geometry. CGAL is used in various areas needing geometric" + puts stderr "computation, such as geographic information systems, computer aided" + puts stderr "design, molecular biology, medical imaging, computer graphics, and" + puts stderr "robotics." +} + +conflict cgal + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cgal-5.4.1-texibm37xc3lyo345kglykclc4j2izmb/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cgal-5.4.1-texibm37xc3lyo345kglykclc4j2izmb/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cgal-5.4.1-texibm37xc3lyo345kglykclc4j2izmb/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cgal-5.4.1-texibm37xc3lyo345kglykclc4j2izmb/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cgal-5.4.1-texibm37xc3lyo345kglykclc4j2izmb/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cgal-5.4.1-texibm37xc3lyo345kglykclc4j2izmb/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cgal-5.4.1-texibm37xc3lyo345kglykclc4j2izmb/share/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cgal-5.4.1-texibm37xc3lyo345kglykclc4j2izmb/." +setenv CGAL_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cgal-5.4.1-texibm37xc3lyo345kglykclc4j2izmb" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/libs/eigen/3.4.0 b/modulefiles/hpccf/peloton/libs/eigen/3.4.0 new file mode 100644 index 00000000..de77d795 --- /dev/null +++ b/modulefiles/hpccf/peloton/libs/eigen/3.4.0 @@ -0,0 +1,32 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 12:43:20.084990 +## +## eigen@3.4.0%gcc@11.3.0~ipo build_system=cmake build_type=RelWithDebInfo generator=make arch=linux-ubuntu22.04-x86_64_v2/eseowcc +## +## Configure options: -DBUILD_TESTING:STRING=ON +## + + +module-whatis "Eigen is a C++ template library for linear algebra matrices, vectors, numerical solvers, and related algorithms. " + +proc ModulesHelp { } { + puts stderr "Name : eigen" + puts stderr "Version: 3.4.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Eigen is a C++ template library for linear algebra matrices, vectors," + puts stderr "numerical solvers, and related algorithms." +} + +conflict eigen + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/eigen-3.4.0-eseowccb56lxvmxlcktlgtlewxlqpvds/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/eigen-3.4.0-eseowccb56lxvmxlcktlgtlewxlqpvds/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/eigen-3.4.0-eseowccb56lxvmxlcktlgtlewxlqpvds/include" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/eigen-3.4.0-eseowccb56lxvmxlcktlgtlewxlqpvds/share/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/eigen-3.4.0-eseowccb56lxvmxlcktlgtlewxlqpvds/." +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/eigen-3.4.0-eseowccb56lxvmxlcktlgtlewxlqpvds/include/eigen3" +setenv EIGEN_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/eigen-3.4.0-eseowccb56lxvmxlcktlgtlewxlqpvds" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/libs/fftw/3.3.10 b/modulefiles/hpccf/peloton/libs/fftw/3.3.10 new file mode 100644 index 00000000..b25e2a79 --- /dev/null +++ b/modulefiles/hpccf/peloton/libs/fftw/3.3.10 @@ -0,0 +1,37 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 12:43:20.106315 +## +## fftw@3.3.10%gcc@11.3.0+mpi+openmp~pfft_patches build_system=autotools precision=double,float arch=linux-ubuntu22.04-x86_64_v2/pr4hd22 +## + + +module-whatis "FFTW is a C subroutine library for computing the discrete Fourier transform (DFT) in one or more dimensions, of arbitrary input size, and of both real and complex data (as well as of even/odd data, i.e. the discrete cosine/sine transforms or DCT/DST). We believe that FFTW, which is free software, should become the FFT library of choice for most applications." + +proc ModulesHelp { } { + puts stderr "Name : fftw" + puts stderr "Version: 3.3.10" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "FFTW is a C subroutine library for computing the discrete Fourier" + puts stderr "transform (DFT) in one or more dimensions, of arbitrary input size, and" + puts stderr "of both real and complex data (as well as of even/odd data, i.e. the" + puts stderr "discrete cosine/sine transforms or DCT/DST). We believe that FFTW, which" + puts stderr "is free software, should become the FFT library of choice for most" + puts stderr "applications." +} + +conflict fftw + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/fftw-3.3.10-pr4hd22yph7x5z3t2lnfc2mngunqs6sz/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/fftw-3.3.10-pr4hd22yph7x5z3t2lnfc2mngunqs6sz/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/fftw-3.3.10-pr4hd22yph7x5z3t2lnfc2mngunqs6sz/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/fftw-3.3.10-pr4hd22yph7x5z3t2lnfc2mngunqs6sz/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/fftw-3.3.10-pr4hd22yph7x5z3t2lnfc2mngunqs6sz/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/fftw-3.3.10-pr4hd22yph7x5z3t2lnfc2mngunqs6sz/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/fftw-3.3.10-pr4hd22yph7x5z3t2lnfc2mngunqs6sz/share/man" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/fftw-3.3.10-pr4hd22yph7x5z3t2lnfc2mngunqs6sz/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/fftw-3.3.10-pr4hd22yph7x5z3t2lnfc2mngunqs6sz/." +setenv FFTW_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/fftw-3.3.10-pr4hd22yph7x5z3t2lnfc2mngunqs6sz" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/libs/gmp/6.2.1 b/modulefiles/hpccf/peloton/libs/gmp/6.2.1 new file mode 100644 index 00000000..39199a9f --- /dev/null +++ b/modulefiles/hpccf/peloton/libs/gmp/6.2.1 @@ -0,0 +1,33 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 12:43:20.127622 +## +## gmp@6.2.1%gcc@11.3.0+cxx build_system=autotools libs=shared,static patches=69ad2e2 arch=linux-ubuntu22.04-x86_64_v2/qyjndnv +## +## Configure options: --enable-cxx --enable-shared --enable-static --with-pic +## + + +module-whatis "GMP is a free library for arbitrary precision arithmetic, operating on signed integers, rational numbers, and floating-point numbers." + +proc ModulesHelp { } { + puts stderr "Name : gmp" + puts stderr "Version: 6.2.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "GMP is a free library for arbitrary precision arithmetic, operating on" + puts stderr "signed integers, rational numbers, and floating-point numbers." +} + +conflict gmp + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gmp-6.2.1-qyjndnvcjkrswgso5x4ef52hjzxvsmhw/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gmp-6.2.1-qyjndnvcjkrswgso5x4ef52hjzxvsmhw/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gmp-6.2.1-qyjndnvcjkrswgso5x4ef52hjzxvsmhw/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gmp-6.2.1-qyjndnvcjkrswgso5x4ef52hjzxvsmhw/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gmp-6.2.1-qyjndnvcjkrswgso5x4ef52hjzxvsmhw/lib" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gmp-6.2.1-qyjndnvcjkrswgso5x4ef52hjzxvsmhw/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gmp-6.2.1-qyjndnvcjkrswgso5x4ef52hjzxvsmhw/." +setenv GMP_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gmp-6.2.1-qyjndnvcjkrswgso5x4ef52hjzxvsmhw" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/libs/gsl/2.7.1 b/modulefiles/hpccf/peloton/libs/gsl/2.7.1 new file mode 100644 index 00000000..04174d80 --- /dev/null +++ b/modulefiles/hpccf/peloton/libs/gsl/2.7.1 @@ -0,0 +1,37 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 12:43:20.152430 +## +## gsl@2.7.1%gcc@11.3.0~external-cblas build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/7z5dz5c +## + + +module-whatis "The GNU Scientific Library (GSL) is a numerical library for C and C++ programmers. It is free software under the GNU General Public License. The library provides a wide range of mathematical routines such as random number generators, special functions and least-squares fitting. There are over 1000 functions in total with an extensive test suite." + +proc ModulesHelp { } { + puts stderr "Name : gsl" + puts stderr "Version: 2.7.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "The GNU Scientific Library (GSL) is a numerical library for C and C++" + puts stderr "programmers. It is free software under the GNU General Public License." + puts stderr "The library provides a wide range of mathematical routines such as" + puts stderr "random number generators, special functions and least-squares fitting." + puts stderr "There are over 1000 functions in total with an extensive test suite." +} + +conflict gsl + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gsl-2.7.1-7z5dz5cle3byaeyf4uvq6x3biakagq2b/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gsl-2.7.1-7z5dz5cle3byaeyf4uvq6x3biakagq2b/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gsl-2.7.1-7z5dz5cle3byaeyf4uvq6x3biakagq2b/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gsl-2.7.1-7z5dz5cle3byaeyf4uvq6x3biakagq2b/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gsl-2.7.1-7z5dz5cle3byaeyf4uvq6x3biakagq2b/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gsl-2.7.1-7z5dz5cle3byaeyf4uvq6x3biakagq2b/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gsl-2.7.1-7z5dz5cle3byaeyf4uvq6x3biakagq2b/share/man" +prepend-path --delim ":" ACLOCAL_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gsl-2.7.1-7z5dz5cle3byaeyf4uvq6x3biakagq2b/share/aclocal" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gsl-2.7.1-7z5dz5cle3byaeyf4uvq6x3biakagq2b/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gsl-2.7.1-7z5dz5cle3byaeyf4uvq6x3biakagq2b/." +setenv GSL_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gsl-2.7.1-7z5dz5cle3byaeyf4uvq6x3biakagq2b" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/libs/hdf5/1.14.1-2 b/modulefiles/hpccf/peloton/libs/hdf5/1.14.1-2 new file mode 100644 index 00000000..ab15ce7c --- /dev/null +++ b/modulefiles/hpccf/peloton/libs/hdf5/1.14.1-2 @@ -0,0 +1,35 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 12:43:20.184932 +## +## hdf5@1.14.1-2%gcc@11.3.0~cxx~fortran+hl~ipo~java~map+mpi+shared~szip~threadsafe+tools api=default build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v2/dof32z6 +## +## Configure options: -DALLOW_UNSUPPORTED:BOOL=ON -DHDF5_BUILD_EXAMPLES:BOOL=OFF -DBUILD_TESTING:BOOL=OFF -DHDF5_ENABLE_MAP_API:BOOL=OFF -DHDF5_ENABLE_Z_LIB_SUPPORT:BOOL=ON -DHDF5_ENABLE_SZIP_SUPPORT:BOOL=OFF -DHDF5_ENABLE_SZIP_ENCODING:BOOL=OFF -DBUILD_SHARED_LIBS:BOOL=ON -DONLY_SHARED_LIBS:BOOL=OFF -DHDF5_ENABLE_PARALLEL:BOOL=ON -DHDF5_ENABLE_THREADSAFE:BOOL=OFF -DHDF5_BUILD_HL_LIB:BOOL=ON -DHDF5_BUILD_CPP_LIB:BOOL=OFF -DHDF5_BUILD_FORTRAN:BOOL=OFF -DHDF5_BUILD_JAVA:BOOL=OFF -DHDF5_BUILD_TOOLS:BOOL=ON -DMPI_CXX_COMPILER:PATH=/share/apps/22.04/manual/openmpi/4.1.5/bin/mpic++ -DMPI_C_COMPILER:PATH=/share/apps/22.04/manual/openmpi/4.1.5/bin/mpicc +## + + +module-whatis "HDF5 is a data model, library, and file format for storing and managing data. It supports an unlimited variety of datatypes, and is designed for flexible and efficient I/O and for high volume and complex data. " + +proc ModulesHelp { } { + puts stderr "Name : hdf5" + puts stderr "Version: 1.14.1-2" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "HDF5 is a data model, library, and file format for storing and managing" + puts stderr "data. It supports an unlimited variety of datatypes, and is designed for" + puts stderr "flexible and efficient I/O and for high volume and complex data." +} + +conflict hdf5 + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/hdf5-1.14.1-2-dof32z6x5emrnrvfslq4sdt2lvg57d77/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/hdf5-1.14.1-2-dof32z6x5emrnrvfslq4sdt2lvg57d77/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/hdf5-1.14.1-2-dof32z6x5emrnrvfslq4sdt2lvg57d77/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/hdf5-1.14.1-2-dof32z6x5emrnrvfslq4sdt2lvg57d77/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/hdf5-1.14.1-2-dof32z6x5emrnrvfslq4sdt2lvg57d77/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/hdf5-1.14.1-2-dof32z6x5emrnrvfslq4sdt2lvg57d77/bin" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/hdf5-1.14.1-2-dof32z6x5emrnrvfslq4sdt2lvg57d77/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/hdf5-1.14.1-2-dof32z6x5emrnrvfslq4sdt2lvg57d77/." +setenv HDF5_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/hdf5-1.14.1-2-dof32z6x5emrnrvfslq4sdt2lvg57d77" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/libs/intel-oneapi-mkl/2022.2.1 b/modulefiles/hpccf/peloton/libs/intel-oneapi-mkl/2022.2.1 new file mode 100644 index 00000000..353cf471 --- /dev/null +++ b/modulefiles/hpccf/peloton/libs/intel-oneapi-mkl/2022.2.1 @@ -0,0 +1,45 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 12:43:20.219310 +## +## intel-oneapi-mkl@2022.2.1%gcc@11.3.0~cluster+envmods~ilp64+shared build_system=generic threads=none arch=linux-ubuntu22.04-x86_64_v2/wtu2kcp +## + + +module-whatis "Intel oneAPI Math Kernel Library (Intel oneMKL; formerly Intel Math Kernel Library or Intel MKL), is a library of optimized math routines for science, engineering, and financial applications. Core math functions include BLAS, LAPACK, ScaLAPACK, sparse solvers, fast Fourier transforms, and vector math." + +proc ModulesHelp { } { + puts stderr "Name : intel-oneapi-mkl" + puts stderr "Version: 2022.2.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Intel oneAPI Math Kernel Library (Intel oneMKL; formerly Intel Math" + puts stderr "Kernel Library or Intel MKL), is a library of optimized math routines" + puts stderr "for science, engineering, and financial applications. Core math" + puts stderr "functions include BLAS, LAPACK, ScaLAPACK, sparse solvers, fast Fourier" + puts stderr "transforms, and vector math. LICENSE INFORMATION: By downloading and" + puts stderr "using this software, you agree to the terms and conditions of the" + puts stderr "software license agreements at https://intel.ly/393CijO." +} + +conflict intel-oneapi-mkl + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-mkl-2022.2.1-wtu2kcp2bxbjcjjxa3ohkjn3wg76hvs3/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-mkl-2022.2.1-wtu2kcp2bxbjcjjxa3ohkjn3wg76hvs3/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-mkl-2022.2.1-wtu2kcp2bxbjcjjxa3ohkjn3wg76hvs3/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-mkl-2022.2.1-wtu2kcp2bxbjcjjxa3ohkjn3wg76hvs3/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-mkl-2022.2.1-wtu2kcp2bxbjcjjxa3ohkjn3wg76hvs3/lib" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-mkl-2022.2.1-wtu2kcp2bxbjcjjxa3ohkjn3wg76hvs3/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-mkl-2022.2.1-wtu2kcp2bxbjcjjxa3ohkjn3wg76hvs3/." +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-mkl-2022.2.1-wtu2kcp2bxbjcjjxa3ohkjn3wg76hvs3/mkl/2022.2.1/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-mkl-2022.2.1-wtu2kcp2bxbjcjjxa3ohkjn3wg76hvs3/mkl/2022.2.1/lib/intel64" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-mkl-2022.2.1-wtu2kcp2bxbjcjjxa3ohkjn3wg76hvs3/mkl/2022.2.1/lib/intel64" +setenv MKLROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-mkl-2022.2.1-wtu2kcp2bxbjcjjxa3ohkjn3wg76hvs3/mkl/2022.2.1" +prepend-path --delim ":" NLSPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-mkl-2022.2.1-wtu2kcp2bxbjcjjxa3ohkjn3wg76hvs3/mkl/2022.2.1/lib/intel64/locale/%l_%t/%N" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-mkl-2022.2.1-wtu2kcp2bxbjcjjxa3ohkjn3wg76hvs3/mkl/2022.2.1/lib/pkgconfig" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-mkl-2022.2.1-wtu2kcp2bxbjcjjxa3ohkjn3wg76hvs3/mkl/2022.2.1/bin/intel64" +append-path --delim " " __INTEL_POST_CFLAGS "-Wl,-rpath,/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-mkl-2022.2.1-wtu2kcp2bxbjcjjxa3ohkjn3wg76hvs3/mkl/2022.2.1/lib/intel64" +append-path --delim " " __INTEL_POST_FFLAGS "-Wl,-rpath,/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-mkl-2022.2.1-wtu2kcp2bxbjcjjxa3ohkjn3wg76hvs3/mkl/2022.2.1/lib/intel64" +setenv INTEL_ONEAPI_MKL_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-mkl-2022.2.1-wtu2kcp2bxbjcjjxa3ohkjn3wg76hvs3" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/libs/librsvg/2.51.0 b/modulefiles/hpccf/peloton/libs/librsvg/2.51.0 new file mode 100644 index 00000000..ccbc9fe5 --- /dev/null +++ b/modulefiles/hpccf/peloton/libs/librsvg/2.51.0 @@ -0,0 +1,45 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 12:43:20.504387 +## +## librsvg@2.51.0%gcc@11.3.0~doc build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/tzrvxqg +## +## Configure options: --disable-gtk-doc GTKDOC_MKPDF=/bin/true GTKDOC_REBASE=/bin/true GTKDOC_CHECK_PATH=/bin/true +## + + +module-whatis "Library to render SVG files using Cairo" + +proc ModulesHelp { } { + puts stderr "Name : librsvg" + puts stderr "Version: 2.51.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Library to render SVG files using Cairo" +} + +conflict librsvg + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/librsvg-2.51.0-tzrvxqgttwsvurjyy7t4pjktk63ann7m/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/librsvg-2.51.0-tzrvxqgttwsvurjyy7t4pjktk63ann7m/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/librsvg-2.51.0-tzrvxqgttwsvurjyy7t4pjktk63ann7m/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/librsvg-2.51.0-tzrvxqgttwsvurjyy7t4pjktk63ann7m/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/librsvg-2.51.0-tzrvxqgttwsvurjyy7t4pjktk63ann7m/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/librsvg-2.51.0-tzrvxqgttwsvurjyy7t4pjktk63ann7m/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/librsvg-2.51.0-tzrvxqgttwsvurjyy7t4pjktk63ann7m/share/man" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/librsvg-2.51.0-tzrvxqgttwsvurjyy7t4pjktk63ann7m/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/librsvg-2.51.0-tzrvxqgttwsvurjyy7t4pjktk63ann7m/." +prepend-path --delim ":" XLOCALEDIR "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libx11-1.8.4-elhqje4pmr6c4jp256hrfear2cp45szn/share/X11/locale" +prepend-path --delim ":" XDG_DATA_DIRS "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gobject-introspection-1.72.1-n5odutqmfpdluz2zmfrzrekrxotahsp2/share" +prepend-path --delim ":" GI_TYPELIB_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gobject-introspection-1.72.1-n5odutqmfpdluz2zmfrzrekrxotahsp2/lib/girepository-1.0" +prepend-path --delim ":" XDG_DATA_DIRS "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/shared-mime-info-1.10-3nzbwvgy6pfo35hxo74zezhh37ip7tgb/share" +prepend-path --delim ":" XDG_DATA_DIRS "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gdk-pixbuf-2.42.2-vvqecbn5syjfflzvt3bwy5wwapqobktn/share" +prepend-path --delim ":" GI_TYPELIB_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gdk-pixbuf-2.42.2-vvqecbn5syjfflzvt3bwy5wwapqobktn/lib/girepository-1.0" +prepend-path --delim ":" XDG_DATA_DIRS "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/harfbuzz-5.3.1-gl2fjsgyveuqo3z3scxkypps5iu7rkcm/share" +prepend-path --delim ":" GI_TYPELIB_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/harfbuzz-5.3.1-gl2fjsgyveuqo3z3scxkypps5iu7rkcm/lib/girepository-1.0" +prepend-path --delim ":" XDG_DATA_DIRS "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/pango-1.50.13-3pvv7cpxewmga5kifxfs7ezker3mzbsu/share" +prepend-path --delim ":" GI_TYPELIB_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/pango-1.50.13-3pvv7cpxewmga5kifxfs7ezker3mzbsu/lib/girepository-1.0" +prepend-path --delim ":" XDG_DATA_DIRS "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/librsvg-2.51.0-tzrvxqgttwsvurjyy7t4pjktk63ann7m/share" +setenv LIBRSVG_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/librsvg-2.51.0-tzrvxqgttwsvurjyy7t4pjktk63ann7m" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/libs/libszip/2.1.1 b/modulefiles/hpccf/peloton/libs/libszip/2.1.1 new file mode 100644 index 00000000..3cd3367e --- /dev/null +++ b/modulefiles/hpccf/peloton/libs/libszip/2.1.1 @@ -0,0 +1,33 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 12:43:21.228473 +## +## libszip@2.1.1%gcc@11.3.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/zsteyuj +## +## Configure options: --enable-production --enable-shared --enable-static --enable-encoding +## + + +module-whatis "Szip is an implementation of the extended-Rice lossless compression algorithm." + +proc ModulesHelp { } { + puts stderr "Name : libszip" + puts stderr "Version: 2.1.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Szip is an implementation of the extended-Rice lossless compression" + puts stderr "algorithm. It provides lossless compression of scientific data, and is" + puts stderr "provided with HDF software products." +} + +conflict libszip + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libszip-2.1.1-zsteyujess2r7spjnbmocscgno77u22r/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libszip-2.1.1-zsteyujess2r7spjnbmocscgno77u22r/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libszip-2.1.1-zsteyujess2r7spjnbmocscgno77u22r/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libszip-2.1.1-zsteyujess2r7spjnbmocscgno77u22r/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libszip-2.1.1-zsteyujess2r7spjnbmocscgno77u22r/lib" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libszip-2.1.1-zsteyujess2r7spjnbmocscgno77u22r/." +setenv LIBSZIP_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libszip-2.1.1-zsteyujess2r7spjnbmocscgno77u22r" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/libs/module-index.yaml b/modulefiles/hpccf/peloton/libs/module-index.yaml new file mode 100644 index 00000000..11776ba7 --- /dev/null +++ b/modulefiles/hpccf/peloton/libs/module-index.yaml @@ -0,0 +1,55 @@ +module_index: + lo3trwpcz6qiiosnjnjkierxwclxuuk7: + path: /share/apps/22.04/modulefiles/spack/libs/amdfftw/3.2 + use_name: amdfftw/3.2 + pafzrtu3pw6mci6mobvyoctuckqv3xe4: + path: /share/apps/22.04/modulefiles/spack/libs/boost/1.82.0 + use_name: boost/1.82.0 + texibm37xc3lyo345kglykclc4j2izmb: + path: /share/apps/22.04/modulefiles/spack/libs/cgal/5.4.1 + use_name: cgal/5.4.1 + eseowccb56lxvmxlcktlgtlewxlqpvds: + path: /share/apps/22.04/modulefiles/spack/libs/eigen/3.4.0 + use_name: eigen/3.4.0 + pr4hd22yph7x5z3t2lnfc2mngunqs6sz: + path: /share/apps/22.04/modulefiles/spack/libs/fftw/3.3.10 + use_name: fftw/3.3.10 + qyjndnvcjkrswgso5x4ef52hjzxvsmhw: + path: /share/apps/22.04/modulefiles/spack/libs/gmp/6.2.1 + use_name: gmp/6.2.1 + 7z5dz5cle3byaeyf4uvq6x3biakagq2b: + path: /share/apps/22.04/modulefiles/spack/libs/gsl/2.7.1 + use_name: gsl/2.7.1 + dof32z6x5emrnrvfslq4sdt2lvg57d77: + path: /share/apps/22.04/modulefiles/spack/libs/hdf5/1.14.1-2 + use_name: hdf5/1.14.1-2 + wtu2kcp2bxbjcjjxa3ohkjn3wg76hvs3: + path: /share/apps/22.04/modulefiles/spack/libs/intel-oneapi-mkl/2022.2.1 + use_name: intel-oneapi-mkl/2022.2.1 + tzrvxqgttwsvurjyy7t4pjktk63ann7m: + path: /share/apps/22.04/modulefiles/spack/libs/librsvg/2.51.0 + use_name: librsvg/2.51.0 + zsteyujess2r7spjnbmocscgno77u22r: + path: /share/apps/22.04/modulefiles/spack/libs/libszip/2.1.1 + use_name: libszip/2.1.1 + axyvy2a2yzhgg3uxecipyxyy6nvr2zxm: + path: /share/apps/22.04/modulefiles/spack/libs/mpfr/3.1.6 + use_name: mpfr/3.1.6 + vrmvietrw2n6qyqunp32llkqiw34uqlr: + path: /share/apps/22.04/modulefiles/spack/libs/mpfr/4.0.2 + use_name: mpfr/4.0.2 + hwezlw7ydf7flj6nanavqth5tnftqs3i: + path: /share/apps/22.04/modulefiles/spack/libs/netcdf-c/4.9.2 + use_name: netcdf-c/4.9.2 + pwezry76uwpnr56azsapvnaiq74y7yho: + path: /share/apps/22.04/modulefiles/spack/libs/netcdf-cxx4/4.3.1 + use_name: netcdf-cxx4/4.3.1 + ryorul2jouedi2ozhhmt7roiumt3347x: + path: /share/apps/22.04/modulefiles/spack/libs/netcdf-fortran/4.6.0 + use_name: netcdf-fortran/4.6.0 + q6bdta4jj2l5kk4uehxmp2ofcbk5rx6i: + path: /share/apps/22.04/modulefiles/spack/libs/nlohmann-json/3.11.2 + use_name: nlohmann-json/3.11.2 + 77qi6rvrwc4iwqziogd6vdxucahcm5qe: + path: /share/apps/22.04/modulefiles/spack/libs/zlib/1.2.13 + use_name: zlib/1.2.13 diff --git a/modulefiles/hpccf/peloton/libs/mpfr/3.1.6 b/modulefiles/hpccf/peloton/libs/mpfr/3.1.6 new file mode 100644 index 00000000..0770f1aa --- /dev/null +++ b/modulefiles/hpccf/peloton/libs/mpfr/3.1.6 @@ -0,0 +1,32 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 12:43:21.252208 +## +## mpfr@3.1.6%gcc@11.3.0 build_system=autotools libs=shared,static patches=7a6dd71 arch=linux-ubuntu22.04-x86_64_v2/axyvy2a +## +## Configure options: --with-gmp=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gmp-6.2.1-qyjndnvcjkrswgso5x4ef52hjzxvsmhw --enable-shared --enable-static --with-pic +## + + +module-whatis "The MPFR library is a C library for multiple-precision floating-point computations with correct rounding." + +proc ModulesHelp { } { + puts stderr "Name : mpfr" + puts stderr "Version: 3.1.6" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "The MPFR library is a C library for multiple-precision floating-point" + puts stderr "computations with correct rounding." +} + +conflict mpfr + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mpfr-3.1.6-axyvy2a2yzhgg3uxecipyxyy6nvr2zxm/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mpfr-3.1.6-axyvy2a2yzhgg3uxecipyxyy6nvr2zxm/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mpfr-3.1.6-axyvy2a2yzhgg3uxecipyxyy6nvr2zxm/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mpfr-3.1.6-axyvy2a2yzhgg3uxecipyxyy6nvr2zxm/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mpfr-3.1.6-axyvy2a2yzhgg3uxecipyxyy6nvr2zxm/lib" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mpfr-3.1.6-axyvy2a2yzhgg3uxecipyxyy6nvr2zxm/." +setenv MPFR_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mpfr-3.1.6-axyvy2a2yzhgg3uxecipyxyy6nvr2zxm" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/libs/mpfr/4.0.2 b/modulefiles/hpccf/peloton/libs/mpfr/4.0.2 new file mode 100644 index 00000000..cd85fe1a --- /dev/null +++ b/modulefiles/hpccf/peloton/libs/mpfr/4.0.2 @@ -0,0 +1,33 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 12:43:21.275266 +## +## mpfr@4.0.2%gcc@11.3.0 build_system=autotools libs=shared,static patches=3f80b83 arch=linux-ubuntu22.04-x86_64_v2/vrmviet +## +## Configure options: --with-gmp=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gmp-6.2.1-qyjndnvcjkrswgso5x4ef52hjzxvsmhw --enable-shared --enable-static --with-pic +## + + +module-whatis "The MPFR library is a C library for multiple-precision floating-point computations with correct rounding." + +proc ModulesHelp { } { + puts stderr "Name : mpfr" + puts stderr "Version: 4.0.2" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "The MPFR library is a C library for multiple-precision floating-point" + puts stderr "computations with correct rounding." +} + +conflict mpfr + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mpfr-4.0.2-vrmvietrw2n6qyqunp32llkqiw34uqlr/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mpfr-4.0.2-vrmvietrw2n6qyqunp32llkqiw34uqlr/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mpfr-4.0.2-vrmvietrw2n6qyqunp32llkqiw34uqlr/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mpfr-4.0.2-vrmvietrw2n6qyqunp32llkqiw34uqlr/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mpfr-4.0.2-vrmvietrw2n6qyqunp32llkqiw34uqlr/lib" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mpfr-4.0.2-vrmvietrw2n6qyqunp32llkqiw34uqlr/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mpfr-4.0.2-vrmvietrw2n6qyqunp32llkqiw34uqlr/." +setenv MPFR_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mpfr-4.0.2-vrmvietrw2n6qyqunp32llkqiw34uqlr" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/libs/netcdf-c/4.9.2 b/modulefiles/hpccf/peloton/libs/netcdf-c/4.9.2 new file mode 100644 index 00000000..05af5c7a --- /dev/null +++ b/modulefiles/hpccf/peloton/libs/netcdf-c/4.9.2 @@ -0,0 +1,35 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 12:43:21.347379 +## +## netcdf-c@4.9.2%gcc@11.3.0+blosc~byterange~dap~fsync~hdf4~jna+mpi~nczarr_zip+optimize~parallel-netcdf+pic+shared+szip+zstd build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/hwezlw7 +## + + +module-whatis "NetCDF (network Common Data Form) is a set of software libraries and machine-independent data formats that support the creation, access, and sharing of array-oriented scientific data. This is the C distribution." + +proc ModulesHelp { } { + puts stderr "Name : netcdf-c" + puts stderr "Version: 4.9.2" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "NetCDF (network Common Data Form) is a set of software libraries and" + puts stderr "machine-independent data formats that support the creation, access, and" + puts stderr "sharing of array-oriented scientific data. This is the C distribution." +} + +conflict netcdf-c + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-c-4.9.2-hwezlw7ydf7flj6nanavqth5tnftqs3i/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-c-4.9.2-hwezlw7ydf7flj6nanavqth5tnftqs3i/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-c-4.9.2-hwezlw7ydf7flj6nanavqth5tnftqs3i/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-c-4.9.2-hwezlw7ydf7flj6nanavqth5tnftqs3i/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-c-4.9.2-hwezlw7ydf7flj6nanavqth5tnftqs3i/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-c-4.9.2-hwezlw7ydf7flj6nanavqth5tnftqs3i/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-c-4.9.2-hwezlw7ydf7flj6nanavqth5tnftqs3i/share/man" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-c-4.9.2-hwezlw7ydf7flj6nanavqth5tnftqs3i/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-c-4.9.2-hwezlw7ydf7flj6nanavqth5tnftqs3i/." +append-path --delim ":" HDF5_PLUGIN_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-c-4.9.2-hwezlw7ydf7flj6nanavqth5tnftqs3i/plugins" +setenv NETCDF_C_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-c-4.9.2-hwezlw7ydf7flj6nanavqth5tnftqs3i" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/libs/netcdf-cxx4/4.3.1 b/modulefiles/hpccf/peloton/libs/netcdf-cxx4/4.3.1 new file mode 100644 index 00000000..0cb5c5cb --- /dev/null +++ b/modulefiles/hpccf/peloton/libs/netcdf-cxx4/4.3.1 @@ -0,0 +1,35 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 12:43:21.406732 +## +## netcdf-cxx4@4.3.1%gcc@11.3.0~doc+pic+shared build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/pwezry7 +## +## Configure options: --enable-shared --disable-doxygen --disable-filter-testing +## + + +module-whatis "NetCDF (network Common Data Form) is a set of software libraries and machine-independent data formats that support the creation, access, and sharing of array-oriented scientific data. This is the C++ distribution." + +proc ModulesHelp { } { + puts stderr "Name : netcdf-cxx4" + puts stderr "Version: 4.3.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "NetCDF (network Common Data Form) is a set of software libraries and" + puts stderr "machine-independent data formats that support the creation, access, and" + puts stderr "sharing of array-oriented scientific data. This is the C++ distribution." +} + +conflict netcdf-cxx4 + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-cxx4-4.3.1-pwezry76uwpnr56azsapvnaiq74y7yho/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-cxx4-4.3.1-pwezry76uwpnr56azsapvnaiq74y7yho/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-cxx4-4.3.1-pwezry76uwpnr56azsapvnaiq74y7yho/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-cxx4-4.3.1-pwezry76uwpnr56azsapvnaiq74y7yho/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-cxx4-4.3.1-pwezry76uwpnr56azsapvnaiq74y7yho/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-cxx4-4.3.1-pwezry76uwpnr56azsapvnaiq74y7yho/bin" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-cxx4-4.3.1-pwezry76uwpnr56azsapvnaiq74y7yho/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-cxx4-4.3.1-pwezry76uwpnr56azsapvnaiq74y7yho/." +setenv NETCDF_CXX4_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-cxx4-4.3.1-pwezry76uwpnr56azsapvnaiq74y7yho" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/libs/netcdf-fortran/4.6.0 b/modulefiles/hpccf/peloton/libs/netcdf-fortran/4.6.0 new file mode 100644 index 00000000..da30ec5f --- /dev/null +++ b/modulefiles/hpccf/peloton/libs/netcdf-fortran/4.6.0 @@ -0,0 +1,37 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 12:43:21.451932 +## +## netcdf-fortran@4.6.0%gcc@11.3.0~doc+pic+shared build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/ryorul2 +## +## Configure options: --enable-static --enable-shared --disable-doxygen --disable-parallel-tests +## + + +module-whatis "NetCDF (network Common Data Form) is a set of software libraries and machine-independent data formats that support the creation, access, and sharing of array-oriented scientific data. This is the Fortran distribution." + +proc ModulesHelp { } { + puts stderr "Name : netcdf-fortran" + puts stderr "Version: 4.6.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "NetCDF (network Common Data Form) is a set of software libraries and" + puts stderr "machine-independent data formats that support the creation, access, and" + puts stderr "sharing of array-oriented scientific data. This is the Fortran" + puts stderr "distribution." +} + +conflict netcdf-fortran + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-fortran-4.6.0-ryorul2jouedi2ozhhmt7roiumt3347x/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-fortran-4.6.0-ryorul2jouedi2ozhhmt7roiumt3347x/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-fortran-4.6.0-ryorul2jouedi2ozhhmt7roiumt3347x/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-fortran-4.6.0-ryorul2jouedi2ozhhmt7roiumt3347x/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-fortran-4.6.0-ryorul2jouedi2ozhhmt7roiumt3347x/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-fortran-4.6.0-ryorul2jouedi2ozhhmt7roiumt3347x/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-fortran-4.6.0-ryorul2jouedi2ozhhmt7roiumt3347x/share/man" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-fortran-4.6.0-ryorul2jouedi2ozhhmt7roiumt3347x/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-fortran-4.6.0-ryorul2jouedi2ozhhmt7roiumt3347x/." +setenv NETCDF_FORTRAN_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-fortran-4.6.0-ryorul2jouedi2ozhhmt7roiumt3347x" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/libs/nlohmann-json/3.11.2 b/modulefiles/hpccf/peloton/libs/nlohmann-json/3.11.2 new file mode 100644 index 00000000..96a3015f --- /dev/null +++ b/modulefiles/hpccf/peloton/libs/nlohmann-json/3.11.2 @@ -0,0 +1,30 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 12:43:21.512357 +## +## nlohmann-json@3.11.2%gcc@11.3.0~ipo+multiple_headers build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v2/q6bdta4 +## +## Configure options: -DJSON_MultipleHeaders:BOOL=ON -DJSON_BuildTests:BOOL=OFF +## + + +module-whatis "JSON for Modern C++" + +proc ModulesHelp { } { + puts stderr "Name : nlohmann-json" + puts stderr "Version: 3.11.2" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "JSON for Modern C++" +} + +conflict nlohmann-json + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/nlohmann-json-3.11.2-q6bdta4jj2l5kk4uehxmp2ofcbk5rx6i/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/nlohmann-json-3.11.2-q6bdta4jj2l5kk4uehxmp2ofcbk5rx6i/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/nlohmann-json-3.11.2-q6bdta4jj2l5kk4uehxmp2ofcbk5rx6i/include" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/nlohmann-json-3.11.2-q6bdta4jj2l5kk4uehxmp2ofcbk5rx6i/share/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/nlohmann-json-3.11.2-q6bdta4jj2l5kk4uehxmp2ofcbk5rx6i/." +setenv NLOHMANN_JSON_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/nlohmann-json-3.11.2-q6bdta4jj2l5kk4uehxmp2ofcbk5rx6i" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/libs/zlib/1.2.13 b/modulefiles/hpccf/peloton/libs/zlib/1.2.13 new file mode 100644 index 00000000..ca10e555 --- /dev/null +++ b/modulefiles/hpccf/peloton/libs/zlib/1.2.13 @@ -0,0 +1,32 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 12:48:57.546643 +## +## zlib@1.2.13%gcc@11.3.0+optimize+pic+shared build_system=makefile arch=linux-ubuntu22.04-x86_64_v2/77qi6rv +## + + +module-whatis "A free, general-purpose, legally unencumbered lossless data-compression library. " + +proc ModulesHelp { } { + puts stderr "Name : zlib" + puts stderr "Version: 1.2.13" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "A free, general-purpose, legally unencumbered lossless data-compression" + puts stderr "library." +} + +conflict zlib + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/zlib-1.2.13-77qi6rvrwc4iwqziogd6vdxucahcm5qe/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/zlib-1.2.13-77qi6rvrwc4iwqziogd6vdxucahcm5qe/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/zlib-1.2.13-77qi6rvrwc4iwqziogd6vdxucahcm5qe/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/zlib-1.2.13-77qi6rvrwc4iwqziogd6vdxucahcm5qe/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/zlib-1.2.13-77qi6rvrwc4iwqziogd6vdxucahcm5qe/lib" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/zlib-1.2.13-77qi6rvrwc4iwqziogd6vdxucahcm5qe/share/man" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/zlib-1.2.13-77qi6rvrwc4iwqziogd6vdxucahcm5qe/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/zlib-1.2.13-77qi6rvrwc4iwqziogd6vdxucahcm5qe/." +setenv ZLIB_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/zlib-1.2.13-77qi6rvrwc4iwqziogd6vdxucahcm5qe" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64/genrich-0.6.1-gcc-11.3.0-2gw2oyq b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64/genrich-0.6.1-gcc-11.3.0-2gw2oyq new file mode 100644 index 00000000..40869f1f --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64/genrich-0.6.1-gcc-11.3.0-2gw2oyq @@ -0,0 +1,22 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:37.273643 +## +## genrich@0.6.1%gcc@11.3.0 build_system=makefile arch=linux-ubuntu22.04-x86_64/2gw2oyq +## + + +module-whatis "Genrich is a peak-caller for genomic enrichment assays." + +proc ModulesHelp { } { + puts stderr "Name : genrich" + puts stderr "Version: 0.6.1" + puts stderr "Target : x86_64" + puts stderr "" + puts stderr "Genrich is a peak-caller for genomic enrichment assays." +} + +module load zlib-1.2.13-gcc-11.3.0-lu7f4vc + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64/gcc-11.3.0/genrich-0.6.1-2gw2oyqzzqgydoco2ajvydh5ajm2khqq/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64/gcc-11.3.0/genrich-0.6.1-2gw2oyqzzqgydoco2ajvydh5ajm2khqq/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64/miniasm-2018-3-30-gcc-11.3.0-dhlhq5s b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64/miniasm-2018-3-30-gcc-11.3.0-dhlhq5s new file mode 100644 index 00000000..2f1db752 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64/miniasm-2018-3-30-gcc-11.3.0-dhlhq5s @@ -0,0 +1,22 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:38.159226 +## +## miniasm@2018-3-30%gcc@11.3.0 build_system=makefile arch=linux-ubuntu22.04-x86_64/dhlhq5s +## + + +module-whatis "Miniasm is a very fast OLC-based de novo assembler for noisy long reads." + +proc ModulesHelp { } { + puts stderr "Name : miniasm" + puts stderr "Version: 2018-3-30" + puts stderr "Target : x86_64" + puts stderr "" + puts stderr "Miniasm is a very fast OLC-based de novo assembler for noisy long reads." +} + +module load zlib-1.2.13-gcc-11.3.0-lu7f4vc + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64/gcc-11.3.0/miniasm-2018-3-30-dhlhq5skdfpqcn7x3qxlxabxrwlstpeb/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64/gcc-11.3.0/miniasm-2018-3-30-dhlhq5skdfpqcn7x3qxlxabxrwlstpeb/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64/ngsadmix-2018-03-19-gcc-11.3.0-77t7yam b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64/ngsadmix-2018-03-19-gcc-11.3.0-77t7yam new file mode 100644 index 00000000..674ad47b --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64/ngsadmix-2018-03-19-gcc-11.3.0-77t7yam @@ -0,0 +1,22 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:38.493107 +## +## ngsadmix@2018-03-19%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64/77t7yam +## + + +module-whatis "Inferring admixture proportions from NGS data." + +proc ModulesHelp { } { + puts stderr "Name : ngsadmix" + puts stderr "Version: 2018-03-19" + puts stderr "Target : x86_64" + puts stderr "" + puts stderr "Inferring admixture proportions from NGS data." +} + +module load zlib-1.2.13-gcc-11.3.0-lu7f4vc + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64/gcc-11.3.0/ngsadmix-2018-03-19-77t7yamuh6dyediwixuxg6lu4e6aqmc3/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64/gcc-11.3.0/ngsadmix-2018-03-19-77t7yamuh6dyediwixuxg6lu4e6aqmc3/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64/sabre-2013-09-27-gcc-11.3.0-wyfoqp2 b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64/sabre-2013-09-27-gcc-11.3.0-wyfoqp2 new file mode 100644 index 00000000..bfdf22ad --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64/sabre-2013-09-27-gcc-11.3.0-wyfoqp2 @@ -0,0 +1,28 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:38.759343 +## +## sabre@2013-09-27%gcc@11.3.0 build_system=makefile arch=linux-ubuntu22.04-x86_64/wyfoqp2 +## + + +module-whatis "Sabre is a tool that will demultiplex barcoded reads into separate files. It will work on both single-end and paired-end data in fastq format. It simply compares the provided barcodes with each read and separates the read into its appropriate barcode file, after stripping the barcode from the read (and also stripping the quality values of the barcode bases). If a read does not have a recognized barcode, then it is put into the unknown file. " + +proc ModulesHelp { } { + puts stderr "Name : sabre" + puts stderr "Version: 2013-09-27" + puts stderr "Target : x86_64" + puts stderr "" + puts stderr "Sabre is a tool that will demultiplex barcoded reads into separate" + puts stderr "files. It will work on both single-end and paired-end data in fastq" + puts stderr "format. It simply compares the provided barcodes with each read and" + puts stderr "separates the read into its appropriate barcode file, after stripping" + puts stderr "the barcode from the read (and also stripping the quality values of the" + puts stderr "barcode bases). If a read does not have a recognized barcode, then it is" + puts stderr "put into the unknown file." +} + +module load zlib-1.2.13-gcc-11.3.0-lu7f4vc + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64/gcc-11.3.0/sabre-2013-09-27-wyfoqp2towue6e3mzu22lbwxwoifxfbv/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64/gcc-11.3.0/sabre-2013-09-27-wyfoqp2towue6e3mzu22lbwxwoifxfbv/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64/seqprep-1.3.2-gcc-11.3.0-ag5baor b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64/seqprep-1.3.2-gcc-11.3.0-ag5baor new file mode 100644 index 00000000..6f7dfc88 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64/seqprep-1.3.2-gcc-11.3.0-ag5baor @@ -0,0 +1,23 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:38.855010 +## +## seqprep@1.3.2%gcc@11.3.0 build_system=makefile arch=linux-ubuntu22.04-x86_64/ag5baor +## + + +module-whatis "SeqPrep is a program to merge paired end Illumina reads that are overlapping into a single longer read." + +proc ModulesHelp { } { + puts stderr "Name : seqprep" + puts stderr "Version: 1.3.2" + puts stderr "Target : x86_64" + puts stderr "" + puts stderr "SeqPrep is a program to merge paired end Illumina reads that are" + puts stderr "overlapping into a single longer read." +} + +module load zlib-1.2.13-gcc-11.3.0-lu7f4vc + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64/gcc-11.3.0/seqprep-1.3.2-ag5baorysycoprsre6ruidh46rfy2skf/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64/gcc-11.3.0/seqprep-1.3.2-ag5baorysycoprsre6ruidh46rfy2skf/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64/sickle-1.33-gcc-11.3.0-dagdyrg b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64/sickle-1.33-gcc-11.3.0-dagdyrg new file mode 100644 index 00000000..fb59b2e1 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64/sickle-1.33-gcc-11.3.0-dagdyrg @@ -0,0 +1,25 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:38.905868 +## +## sickle@1.33%gcc@11.3.0 build_system=makefile arch=linux-ubuntu22.04-x86_64/dagdyrg +## + + +module-whatis "Sickle is a tool that uses sliding windows along with quality and length thresholds to determine when quality is sufficiently low to trim the 3'-end of reads and also determines when the quality is sufficiently high enough to trim the 5'-end of reads." + +proc ModulesHelp { } { + puts stderr "Name : sickle" + puts stderr "Version: 1.33" + puts stderr "Target : x86_64" + puts stderr "" + puts stderr "Sickle is a tool that uses sliding windows along with quality and length" + puts stderr "thresholds to determine when quality is sufficiently low to trim the" + puts stderr "3'-end of reads and also determines when the quality is sufficiently" + puts stderr "high enough to trim the 5'-end of reads." +} + +module load zlib-1.2.13-gcc-11.3.0-lu7f4vc + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64/gcc-11.3.0/sickle-1.33-dagdyrglte2yrs5cjnrmr24mgcpsustf/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64/gcc-11.3.0/sickle-1.33-dagdyrglte2yrs5cjnrmr24mgcpsustf/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64/zlib-1.2.13-gcc-11.3.0-lu7f4vc b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64/zlib-1.2.13-gcc-11.3.0-lu7f4vc new file mode 100644 index 00000000..9cbdb9d6 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64/zlib-1.2.13-gcc-11.3.0-lu7f4vc @@ -0,0 +1,23 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:39.167456 +## +## zlib@1.2.13%gcc@11.3.0+optimize+pic+shared build_system=makefile arch=linux-ubuntu22.04-x86_64/lu7f4vc +## + + +module-whatis "A free, general-purpose, legally unencumbered lossless data-compression library. " + +proc ModulesHelp { } { + puts stderr "Name : zlib" + puts stderr "Version: 1.2.13" + puts stderr "Target : x86_64" + puts stderr "" + puts stderr "A free, general-purpose, legally unencumbered lossless data-compression" + puts stderr "library." +} + + +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64/gcc-11.3.0/zlib-1.2.13-lu7f4vcnkn2lt7hxs6odplxtqa7etfbt/share/man" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64/gcc-11.3.0/zlib-1.2.13-lu7f4vcnkn2lt7hxs6odplxtqa7etfbt/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64/gcc-11.3.0/zlib-1.2.13-lu7f4vcnkn2lt7hxs6odplxtqa7etfbt/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/abyss-2.3.5-gcc-11.3.0-77qubro b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/abyss-2.3.5-gcc-11.3.0-77qubro new file mode 100644 index 00000000..01838391 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/abyss-2.3.5-gcc-11.3.0-77qubro @@ -0,0 +1,31 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:35.615036 +## +## abyss@2.3.5%gcc@11.3.0 build_system=autotools maxk=128 arch=linux-ubuntu22.04-x86_64_v2/77qubro +## +## Configure options: --with-boost=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/boost-1.79.0-zfgjt4m2kjlie7wjogyqsihuab56czg5 --with-sqlite=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/sqlite-3.40.1-dfvdmpo7xq4pd337cok5doaiykgm3cgc --with-mpi=/share/apps/22.04/manual/openmpi/4.1.5 --enable-maxk=128 +## + + +module-whatis "ABySS is a de novo, parallel, paired-end sequence assembler that is designed for short reads. The single-processor version is useful for assembling genomes up to 100 Mbases in size." + +proc ModulesHelp { } { + puts stderr "Name : abyss" + puts stderr "Version: 2.3.5" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "ABySS is a de novo, parallel, paired-end sequence assembler that is" + puts stderr "designed for short reads. The single-processor version is useful for" + puts stderr "assembling genomes up to 100 Mbases in size." +} + +module load boost-1.79.0-gcc-11.3.0-zfgjt4m +module load bwa-0.7.17-gcc-11.3.0-abpnms7 +module load libtool-2.4.7-gcc-11.3.0-bfz3kcw +module load openmpi-4.1.5-gcc-11.3.0-63v4xd2 +module load sparsehash-2.0.4-gcc-11.3.0-qd3wkh7 +module load sqlite-3.40.1-gcc-11.3.0-dfvdmpo + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/abyss-2.3.5-77qubrox2gwt7dppu7hnupjwusnyy2er/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/abyss-2.3.5-77qubrox2gwt7dppu7hnupjwusnyy2er/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/abyss-2.3.5-gcc-11.3.0-obavyvn b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/abyss-2.3.5-gcc-11.3.0-obavyvn new file mode 100644 index 00000000..de5eedfa --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/abyss-2.3.5-gcc-11.3.0-obavyvn @@ -0,0 +1,31 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:03.831899 +## +## abyss@2.3.5%gcc@11.3.0 build_system=autotools maxk=128 arch=linux-ubuntu22.04-x86_64_v2/obavyvn +## +## Configure options: --with-boost=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/boost-1.82.0-qwtzu7tpga4mlh2i3v2u3mm722bkgyeb --with-sqlite=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/sqlite-3.40.1-4lhpdh33huvpelfja6mi5tzjy26mijze --with-mpi=/share/apps/22.04/manual/openmpi/4.1.5 --enable-maxk=128 +## + + +module-whatis "ABySS is a de novo, parallel, paired-end sequence assembler that is designed for short reads. The single-processor version is useful for assembling genomes up to 100 Mbases in size." + +proc ModulesHelp { } { + puts stderr "Name : abyss" + puts stderr "Version: 2.3.5" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "ABySS is a de novo, parallel, paired-end sequence assembler that is" + puts stderr "designed for short reads. The single-processor version is useful for" + puts stderr "assembling genomes up to 100 Mbases in size." +} + +module load boost-1.82.0-gcc-11.3.0-qwtzu7t +module load bwa-0.7.17-gcc-11.3.0-xz4ny7r +module load libtool-2.4.7-gcc-11.3.0-bfz3kcw +module load openmpi-4.1.5-gcc-11.3.0-63v4xd2 +module load sparsehash-2.0.4-gcc-11.3.0-qd3wkh7 +module load sqlite-3.40.1-gcc-11.3.0-4lhpdh3 + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/abyss-2.3.5-obavyvnrq6gsfe6qlnvoltzyyc77wd6u/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/abyss-2.3.5-obavyvnrq6gsfe6qlnvoltzyyc77wd6u/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/aria2-1.36.0-gcc-11.3.0-3nbosab b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/aria2-1.36.0-gcc-11.3.0-3nbosab new file mode 100644 index 00000000..7508dbff --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/aria2-1.36.0-gcc-11.3.0-3nbosab @@ -0,0 +1,28 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:02.282600 +## +## aria2@1.36.0%gcc@11.3.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/3nbosab +## + + +module-whatis "An ultra fast download utility" + +proc ModulesHelp { } { + puts stderr "Name : aria2" + puts stderr "Version: 1.36.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "An ultra fast download utility" +} + +module load c-ares-1.15.0-gcc-11.3.0-s2pxf24 +module load libgcrypt-1.10.2-gcc-11.3.0-33xya6r +module load libssh2-1.10.0-gcc-11.3.0-h4w4rsj +module load libxml2-2.10.2-gcc-11.3.0-cymuqdb +module load sqlite-3.40.1-gcc-11.3.0-4lhpdh3 +module load zlib-1.2.13-gcc-11.3.0-77qi6rv + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/aria2-1.36.0-3nbosab6kinjix5byuknci6m4iwdkr7a/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/aria2-1.36.0-3nbosab6kinjix5byuknci6m4iwdkr7a/share/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/aria2-1.36.0-3nbosab6kinjix5byuknci6m4iwdkr7a/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/aria2-1.36.0-gcc-11.3.0-osdhwzo b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/aria2-1.36.0-gcc-11.3.0-osdhwzo new file mode 100644 index 00000000..1b014348 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/aria2-1.36.0-gcc-11.3.0-osdhwzo @@ -0,0 +1,28 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:36.018647 +## +## aria2@1.36.0%gcc@11.3.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/osdhwzo +## + + +module-whatis "An ultra fast download utility" + +proc ModulesHelp { } { + puts stderr "Name : aria2" + puts stderr "Version: 1.36.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "An ultra fast download utility" +} + +module load c-ares-1.15.0-gcc-11.3.0-4p2tdea +module load libgcrypt-1.10.2-gcc-11.3.0-3bvvbwa +module load libssh2-1.10.0-gcc-11.3.0-stiyns5 +module load libxml2-2.10.2-gcc-11.3.0-bvlt4ur +module load sqlite-3.40.1-gcc-11.3.0-dfvdmpo +module load zlib-1.2.13-gcc-11.3.0-lu7f4vc + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/aria2-1.36.0-osdhwzoz5te76tgd7smqmjo3unj66blj/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/aria2-1.36.0-osdhwzoz5te76tgd7smqmjo3unj66blj/share/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/aria2-1.36.0-osdhwzoz5te76tgd7smqmjo3unj66blj/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/awscli-1.27.84-gcc-11.3.0-cepb73k b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/awscli-1.27.84-gcc-11.3.0-cepb73k new file mode 100644 index 00000000..f16d8728 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/awscli-1.27.84-gcc-11.3.0-cepb73k @@ -0,0 +1,42 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:02.376683 +## +## awscli@1.27.84%gcc@11.3.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v2/cepb73k +## + + +module-whatis "This package provides a unified command line interface to Amazon Web Services" + +proc ModulesHelp { } { + puts stderr "Name : awscli" + puts stderr "Version: 1.27.84" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "This package provides a unified command line interface to Amazon Web" + puts stderr "Services" +} + +module load py-botocore-1.29.84-gcc-11.3.0-bdzi25j +module load py-colorama-0.4.4-gcc-11.3.0-a66i2ll +module load py-docutils-0.16-gcc-11.3.0-wivmtay +module load py-pyyaml-5.4.1-gcc-11.3.0-rv6olba +module load py-rsa-4.7.2-gcc-11.3.0-m2nk5q5 +module load py-s3transfer-0.6.0-gcc-11.3.0-nym7cdm +module load python-3.10.10-gcc-11.3.0-v5jpfln + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/awscli-1.27.84-cepb73kjwaewkrok6mzxxs2j6a4r5q2t/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/awscli-1.27.84-cepb73kjwaewkrok6mzxxs2j6a4r5q2t/." +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/awscli-1.27.84-cepb73kjwaewkrok6mzxxs2j6a4r5q2t/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-botocore-1.29.84-bdzi25jqikelwthsezrktqxps7ereolf/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-jmespath-1.0.1-ji7l6q2slkvbasun2jvq34ml66ztlno5/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-python-dateutil-2.8.2-ac4pemjhfr2uqvbvagm3q5bclphzosh2/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-six-1.16.0-4z5qm3tqrdhsixfcfkzhz6yzei6vjzzd/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-urllib3-1.26.12-nxvoto46dk4dj5swfkgtxhucawt3p6pw/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-colorama-0.4.4-a66i2ll6arjv5z2rlzbjbcwlh34l777l/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-docutils-0.16-wivmtay7kvegj2lhlmzk73ilqkuj2mmo/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-pyyaml-5.4.1-rv6olbazwbmwms6oimcnek5omumyswgv/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-rsa-4.7.2-m2nk5q5gvkzp37cy455r2heqi6nwupi4/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-pyasn1-0.4.8-ij2dqhy5ize5yfxmbucszr4wvbgorytd/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-setuptools-67.6.0-73pqhmiv63aez67x7bfchimen7vyv77c/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-s3transfer-0.6.0-nym7cdmihv7ocjnvnrhwxtm77k7radaz/lib/python3.10/site-packages" + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/bbmap-39.01-gcc-11.3.0-ij3pq56 b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/bbmap-39.01-gcc-11.3.0-ij3pq56 new file mode 100644 index 00000000..4e4b498b --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/bbmap-39.01-gcc-11.3.0-ij3pq56 @@ -0,0 +1,24 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:03.908355 +## +## bbmap@39.01%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/ij3pq56 +## + + +module-whatis "Short read aligner for DNA and RNA-seq data." + +proc ModulesHelp { } { + puts stderr "Name : bbmap" + puts stderr "Version: 39.01" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Short read aligner for DNA and RNA-seq data." +} + +module load openjdk-11.0.17_8-gcc-11.3.0-oucx2ae + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/bbmap-39.01-ij3pq56fl7ijpjjpugcvu455umkjacsf/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/bbmap-39.01-ij3pq56fl7ijpjjpugcvu455umkjacsf/." +setenv BBMAP_CONFIG "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/bbmap-39.01-ij3pq56fl7ijpjjpugcvu455umkjacsf/bin/config" +setenv BBMAP_RESOURCES "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/bbmap-39.01-ij3pq56fl7ijpjjpugcvu455umkjacsf/bin/resources" + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/beagle-5.4-gcc-11.3.0-4b3n2yd b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/beagle-5.4-gcc-11.3.0-4b3n2yd new file mode 100644 index 00000000..16c117cb --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/beagle-5.4-gcc-11.3.0-4b3n2yd @@ -0,0 +1,23 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:03.944509 +## +## beagle@5.4%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/4b3n2yd +## + + +module-whatis "Beagle is a software package for phasing genotypes and for imputing ungenotyped markers." + +proc ModulesHelp { } { + puts stderr "Name : beagle" + puts stderr "Version: 5.4" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Beagle is a software package for phasing genotypes and for imputing" + puts stderr "ungenotyped markers." +} + +module load openjdk-11.0.17_8-gcc-11.3.0-oucx2ae + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/beagle-5.4-4b3n2ydf6i4jq4uaqojf5whnlkz5jrwl/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/beagle-5.4-4b3n2ydf6i4jq4uaqojf5whnlkz5jrwl/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/bedtools2-2.31.0-gcc-11.3.0-ajpxrya b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/bedtools2-2.31.0-gcc-11.3.0-ajpxrya new file mode 100644 index 00000000..8c8a984a --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/bedtools2-2.31.0-gcc-11.3.0-ajpxrya @@ -0,0 +1,26 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:36.254205 +## +## bedtools2@2.31.0%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/ajpxrya +## + + +module-whatis "Collectively, the bedtools utilities are a swiss-army knife of tools for a wide-range of genomics analysis tasks. The most widely-used tools enable genome arithmetic: that is, set theory on the genome." + +proc ModulesHelp { } { + puts stderr "Name : bedtools2" + puts stderr "Version: 2.31.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Collectively, the bedtools utilities are a swiss-army knife of tools for" + puts stderr "a wide-range of genomics analysis tasks. The most widely-used tools" + puts stderr "enable genome arithmetic: that is, set theory on the genome." +} + +module load bzip2-1.0.8-gcc-11.3.0-dtsdvar +module load xz-5.4.1-gcc-11.3.0-gx6iuud +module load zlib-1.2.13-gcc-11.3.0-lu7f4vc + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/bedtools2-2.31.0-ajpxryalgoormswo5o5k7r65z7hd5nyp/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/bedtools2-2.31.0-ajpxryalgoormswo5o5k7r65z7hd5nyp/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/bedtools2-2.31.0-gcc-11.3.0-zzffpfz b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/bedtools2-2.31.0-gcc-11.3.0-zzffpfz new file mode 100644 index 00000000..20f52907 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/bedtools2-2.31.0-gcc-11.3.0-zzffpfz @@ -0,0 +1,26 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:03.964962 +## +## bedtools2@2.31.0%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/zzffpfz +## + + +module-whatis "Collectively, the bedtools utilities are a swiss-army knife of tools for a wide-range of genomics analysis tasks. The most widely-used tools enable genome arithmetic: that is, set theory on the genome." + +proc ModulesHelp { } { + puts stderr "Name : bedtools2" + puts stderr "Version: 2.31.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Collectively, the bedtools utilities are a swiss-army knife of tools for" + puts stderr "a wide-range of genomics analysis tasks. The most widely-used tools" + puts stderr "enable genome arithmetic: that is, set theory on the genome." +} + +module load bzip2-1.0.8-gcc-11.3.0-dtsdvar +module load xz-5.4.1-gcc-11.3.0-gx6iuud +module load zlib-1.2.13-gcc-11.3.0-77qi6rv + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/bedtools2-2.31.0-zzffpfzwqqzexr2ax5px65g5wj5vn2se/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/bedtools2-2.31.0-zzffpfzwqqzexr2ax5px65g5wj5vn2se/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/blast-plus-2.13.0-gcc-11.3.0-vttkjtr b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/blast-plus-2.13.0-gcc-11.3.0-vttkjtr new file mode 100644 index 00000000..66e31137 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/blast-plus-2.13.0-gcc-11.3.0-vttkjtr @@ -0,0 +1,35 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:03.996073 +## +## blast-plus@2.13.0%gcc@11.3.0+bzip2+freetype+gnutls+jpeg+lzo+openssl+pcre+perl+png+python~static+zlib build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/vttkjtr +## +## Configure options: --with-bin-release --without-debug --with-mt --without-boost --with-64 --with-dll --without-static --without-static-exe --with-jpeg=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libjpeg-turbo-2.1.5-gb3femnfzpbq6vyi5p3zj3a66dy6k2sc --with-png=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libpng-1.6.39-evb6o4wkmierehtdjlngxqjpfkcin3bu --with-freetype=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/freetype-2.11.1-is3fadjxbzxsv5z2rg3cg3nhhck4beeb --without-hdf5 --with-z=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/zlib-1.2.13-77qi6rvrwc4iwqziogd6vdxucahcm5qe --with-bz2=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/bzip2-1.0.8-dtsdvarms4sm5nhcsdmhljkzfplepf4p --with-lzo=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/lzo-2.10-mfboq4tvy55xhselzqwajhlxvwgyv2xq --with-gnutls=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gnutls-3.7.8-bxz5vxuzyglavapdu3g7ugq7nmu2zldz --with-openssl=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openssl-1.1.1t-cqmdmwkhnvflzle4etbhd4kz6bf5jxsk --with-pcre=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/pcre-8.45-4ukbbhvt6vwboawbi6aiq3grsgablcbk --with-python=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/python-3.10.10-flhvzx3yiwu2lzb5as2qrpkdiijbgouq --with-perl=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-5.36.0-65ysuw5shizjrytbbjmx2srgqz7y6uim +## + + +module-whatis "Basic Local Alignment Search Tool." + +proc ModulesHelp { } { + puts stderr "Name : blast-plus" + puts stderr "Version: 2.13.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Basic Local Alignment Search Tool." +} + +module load bzip2-1.0.8-gcc-11.3.0-dtsdvar +module load freetype-2.11.1-gcc-11.3.0-is3fadj +module load gnutls-3.7.8-gcc-11.3.0-bxz5vxu +module load libjpeg-turbo-2.1.5-gcc-11.3.0-gb3femn +module load libpng-1.6.39-gcc-11.3.0-evb6o4w +module load lmdb-0.9.29-gcc-11.3.0-pzqdknn +module load lzo-2.10-gcc-11.3.0-mfboq4t +module load openssl-1.1.1t-gcc-11.3.0-cqmdmwk +module load pcre-8.45-gcc-11.3.0-4ukbbhv +module load perl-5.36.0-gcc-11.3.0-65ysuw5 +module load python-3.10.10-gcc-11.3.0-flhvzx3 +module load zlib-1.2.13-gcc-11.3.0-77qi6rv + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/blast-plus-2.13.0-vttkjtrajdx35frqsp2wvun6qhiit6ci/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/blast-plus-2.13.0-vttkjtrajdx35frqsp2wvun6qhiit6ci/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/blast2go-5.2.5-gcc-11.3.0-tobcxlx b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/blast2go-5.2.5-gcc-11.3.0-tobcxlx new file mode 100644 index 00000000..1210e4bc --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/blast2go-5.2.5-gcc-11.3.0-tobcxlx @@ -0,0 +1,23 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:04.116489 +## +## blast2go@5.2.5%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/tobcxlx +## + + +module-whatis "Blast2GO is a bioinformatics platform for high-quality functional annotation and analysis of genomic datasets." + +proc ModulesHelp { } { + puts stderr "Name : blast2go" + puts stderr "Version: 5.2.5" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Blast2GO is a bioinformatics platform for high-quality functional" + puts stderr "annotation and analysis of genomic datasets." +} + +module load blast-plus-2.13.0-gcc-11.3.0-zaltoxf + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/blast2go-5.2.5-tobcxlxoqnsz6qshaosdji3hhm3jfoiv/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/blast2go-5.2.5-tobcxlxoqnsz6qshaosdji3hhm3jfoiv/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/blat-37-gcc-11.3.0-ne53ujh b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/blat-37-gcc-11.3.0-ne53ujh new file mode 100644 index 00000000..ff67be42 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/blat-37-gcc-11.3.0-ne53ujh @@ -0,0 +1,26 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:04.169291 +## +## blat@37%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/ne53ujh +## + + +module-whatis "BLAT (BLAST-like alignment tool) is a pairwise sequence alignment algorithm." + +proc ModulesHelp { } { + puts stderr "Name : blat" + puts stderr "Version: 37" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "BLAT (BLAST-like alignment tool) is a pairwise sequence alignment" + puts stderr "algorithm." +} + +module load libpng-1.6.39-gcc-11.3.0-sfp764p +module load libuuid-1.0.3-gcc-11.3.0-jrg4ae3 +module load mariadb-10.8.2-gcc-11.3.0-czxnp4h +module load openssl-1.1.0l-gcc-11.3.0-hvz5qcr + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/blat-37-ne53ujh3f4cw72frrc6emjge34dxfarf/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/blat-37-ne53ujh3f4cw72frrc6emjge34dxfarf/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/bowtie-1.3.1-gcc-11.3.0-wwcuzdt b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/bowtie-1.3.1-gcc-11.3.0-wwcuzdt new file mode 100644 index 00000000..88646645 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/bowtie-1.3.1-gcc-11.3.0-wwcuzdt @@ -0,0 +1,23 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:36.422164 +## +## bowtie@1.3.1%gcc@11.3.0~tbb build_system=makefile patches=55bcf00 arch=linux-ubuntu22.04-x86_64_v2/wwcuzdt +## + + +module-whatis "Bowtie is an ultrafast, memory-efficient short read aligner for short DNA sequences (reads) from next-gen sequencers." + +proc ModulesHelp { } { + puts stderr "Name : bowtie" + puts stderr "Version: 1.3.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Bowtie is an ultrafast, memory-efficient short read aligner for short" + puts stderr "DNA sequences (reads) from next-gen sequencers." +} + +module load zlib-1.2.13-gcc-11.3.0-lu7f4vc + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/bowtie-1.3.1-wwcuzdtwvjcsb5qsdteig4rx2u7vqnyd/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/bowtie-1.3.1-wwcuzdtwvjcsb5qsdteig4rx2u7vqnyd/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/bowtie2-2.4.2-gcc-11.3.0-7x4tqmz b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/bowtie2-2.4.2-gcc-11.3.0-7x4tqmz new file mode 100644 index 00000000..195e654e --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/bowtie2-2.4.2-gcc-11.3.0-7x4tqmz @@ -0,0 +1,27 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:36.442455 +## +## bowtie2@2.4.2%gcc@11.3.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v2/7x4tqmz +## + + +module-whatis "Bowtie 2 is an ultrafast and memory-efficient tool for aligning sequencing reads to long reference sequences" + +proc ModulesHelp { } { + puts stderr "Name : bowtie2" + puts stderr "Version: 2.4.2" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Bowtie 2 is an ultrafast and memory-efficient tool for aligning" + puts stderr "sequencing reads to long reference sequences" +} + +module load intel-oneapi-tbb-2021.9.0-gcc-11.3.0-pdkleen +module load perl-5.36.0-gcc-11.3.0-a36qqup +module load python-3.10.10-gcc-11.3.0-dstxvfi +module load readline-8.2-gcc-11.3.0-m2v7tzs +module load zlib-1.2.13-gcc-11.3.0-lu7f4vc + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/bowtie2-2.4.2-7x4tqmzqfm27zuz6pqbxhl64schuddxj/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/bowtie2-2.4.2-7x4tqmzqfm27zuz6pqbxhl64schuddxj/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/bowtie2-2.4.2-gcc-11.3.0-rfd3iu2 b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/bowtie2-2.4.2-gcc-11.3.0-rfd3iu2 new file mode 100644 index 00000000..30155bb3 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/bowtie2-2.4.2-gcc-11.3.0-rfd3iu2 @@ -0,0 +1,27 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:04.229727 +## +## bowtie2@2.4.2%gcc@11.3.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v2/rfd3iu2 +## + + +module-whatis "Bowtie 2 is an ultrafast and memory-efficient tool for aligning sequencing reads to long reference sequences" + +proc ModulesHelp { } { + puts stderr "Name : bowtie2" + puts stderr "Version: 2.4.2" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Bowtie 2 is an ultrafast and memory-efficient tool for aligning" + puts stderr "sequencing reads to long reference sequences" +} + +module load intel-oneapi-tbb-2021.9.0-gcc-11.3.0-pdkleen +module load perl-5.36.0-gcc-11.3.0-65ysuw5 +module load python-3.10.10-gcc-11.3.0-flhvzx3 +module load readline-8.2-gcc-11.3.0-m2v7tzs +module load zlib-1.2.13-gcc-11.3.0-77qi6rv + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/bowtie2-2.4.2-rfd3iu2wljwxilf4vpiu223nlbh35rrt/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/bowtie2-2.4.2-rfd3iu2wljwxilf4vpiu223nlbh35rrt/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/bwa-0.7.17-gcc-11.3.0-abpnms7 b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/bwa-0.7.17-gcc-11.3.0-abpnms7 new file mode 100644 index 00000000..3b479c4f --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/bwa-0.7.17-gcc-11.3.0-abpnms7 @@ -0,0 +1,23 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:36.492292 +## +## bwa@0.7.17%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/abpnms7 +## + + +module-whatis "Burrow-Wheeler Aligner for pairwise alignment between DNA sequences." + +proc ModulesHelp { } { + puts stderr "Name : bwa" + puts stderr "Version: 0.7.17" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Burrow-Wheeler Aligner for pairwise alignment between DNA sequences." +} + +module load zlib-1.2.13-gcc-11.3.0-lu7f4vc + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/bwa-0.7.17-abpnms7hsrxgee4dj6qsrsp7rn7lezis/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/bwa-0.7.17-abpnms7hsrxgee4dj6qsrsp7rn7lezis/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/bwa-0.7.17-abpnms7hsrxgee4dj6qsrsp7rn7lezis/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/ccfits-2.6-gcc-11.3.0-2ifo6gc b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/ccfits-2.6-gcc-11.3.0-2ifo6gc new file mode 100644 index 00000000..7354ea24 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/ccfits-2.6-gcc-11.3.0-2ifo6gc @@ -0,0 +1,27 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:01.510634 +## +## ccfits@2.6%gcc@11.3.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/2ifo6gc +## + + +module-whatis "CCfits is an object oriented interface to the cfitsio library. It is designed to make the capabilities of cfitsio available to programmers working in C++. It is written in ANSI C++ and implemented using the C++ Standard Library with namespaces, exception handling, and member template functions." + +proc ModulesHelp { } { + puts stderr "Name : ccfits" + puts stderr "Version: 2.6" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "CCfits is an object oriented interface to the cfitsio library. It is" + puts stderr "designed to make the capabilities of cfitsio available to programmers" + puts stderr "working in C++. It is written in ANSI C++ and implemented using the C++" + puts stderr "Standard Library with namespaces, exception handling, and member" + puts stderr "template functions." +} + +module load cfitsio-4.2.0-gcc-11.3.0-jf4nazr + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ccfits-2.6-2ifo6gciy63xcwe64xbhrbmtlztf2omo/bin" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ccfits-2.6-2ifo6gciy63xcwe64xbhrbmtlztf2omo/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ccfits-2.6-2ifo6gciy63xcwe64xbhrbmtlztf2omo/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/cdhit-4.8.1-gcc-11.3.0-575a3d4 b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/cdhit-4.8.1-gcc-11.3.0-575a3d4 new file mode 100644 index 00000000..e7251653 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/cdhit-4.8.1-gcc-11.3.0-575a3d4 @@ -0,0 +1,24 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:36.510825 +## +## cdhit@4.8.1%gcc@11.3.0+openmp+zlib build_system=makefile arch=linux-ubuntu22.04-x86_64_v2/575a3d4 +## + + +module-whatis "CD-HIT is a very widely used program for clustering and comparing protein or nucleotide sequences." + +proc ModulesHelp { } { + puts stderr "Name : cdhit" + puts stderr "Version: 4.8.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "CD-HIT is a very widely used program for clustering and comparing" + puts stderr "protein or nucleotide sequences." +} + +module load perl-5.36.0-gcc-11.3.0-a36qqup +module load zlib-1.2.13-gcc-11.3.0-lu7f4vc + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cdhit-4.8.1-575a3d4fvcip3gg4azpqvn3w3ygmzpr5/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cdhit-4.8.1-575a3d4fvcip3gg4azpqvn3w3ygmzpr5/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/cdo-2.1.1-gcc-11.3.0-uqd4bcf b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/cdo-2.1.1-gcc-11.3.0-uqd4bcf new file mode 100644 index 00000000..da250fc8 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/cdo-2.1.1-gcc-11.3.0-uqd4bcf @@ -0,0 +1,34 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:02.641336 +## +## cdo@2.1.1%gcc@11.3.0~curl~external-grib1+fftw3+hdf5+libxml2~magics+netcdf+openmp+proj+szip+udunits2 build_system=autotools grib2=eccodes arch=linux-ubuntu22.04-x86_64_v2/uqd4bcf +## +## Configure options: --with-netcdf=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-c-4.9.2-muqr7es3ldayqz5vmfhig42wro7gzx3c --with-eccodes=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/eccodes-2.25.0-j6bsah3rlmxso7gxg2ojeamjfafvbq2p --without-grib_api --enable-cgribex --with-szlib=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libaec-1.0.6-m5vggf3f65wr5wea47t6ty7tz4earg4r --with-hdf5=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/hdf5-1.14.1-2-pkil3y66rhqrm22gtkoesdq2ccwhm3ps --with-udunits2=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/udunits-2.2.28-4td67tqewcxhvggqjkcbwkuspqtxccwd --with-libxml2=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libxml2-2.10.2-h27zwzlr2aokc3c2fmjvjfbdi4fy2sud --with-proj=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/proj-9.2.0-a7x2ck6hapnmbokazqkpi7a6qzogbscx --without-curl --without-magics --with-fftw3 --enable-openmp LDFLAGS=-L/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/hdf5-1.14.1-2-pkil3y66rhqrm22gtkoesdq2ccwhm3ps/lib CPPFLAGS=-DOMPI_SKIP_MPICXX -DMPICH_SKIP_MPICXX +## + + +module-whatis "CDO is a collection of command line Operators to manipulate and analyse Climate and NWP model Data. " + +proc ModulesHelp { } { + puts stderr "Name : cdo" + puts stderr "Version: 2.1.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "CDO is a collection of command line Operators to manipulate and analyse" + puts stderr "Climate and NWP model Data." +} + +module load eccodes-2.25.0-gcc-11.3.0-j6bsah3 +module load fftw-3.3.10-gcc-11.3.0-pr4hd22 +module load hdf5-1.14.1-2-gcc-11.3.0-pkil3y6 +module load libaec-1.0.6-gcc-11.3.0-m5vggf3 +module load libxml2-2.10.2-gcc-11.3.0-h27zwzl +module load netcdf-c-4.9.2-gcc-11.3.0-muqr7es +module load proj-9.2.0-gcc-11.3.0-a7x2ck6 +module load udunits-2.2.28-gcc-11.3.0-4td67tq +module load util-linux-uuid-2.38.1-gcc-11.3.0-oxde4uu + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cdo-2.1.1-uqd4bcfcoxvwccrt6x2mgd4kq4mhga5v/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cdo-2.1.1-uqd4bcfcoxvwccrt6x2mgd4kq4mhga5v/." +setenv PROJ_LIB "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/proj-9.2.0-a7x2ck6hapnmbokazqkpi7a6qzogbscx/share/proj" + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/cfitsio-4.2.0-gcc-11.3.0-pqyld7p b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/cfitsio-4.2.0-gcc-11.3.0-pqyld7p new file mode 100644 index 00000000..165466dd --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/cfitsio-4.2.0-gcc-11.3.0-pqyld7p @@ -0,0 +1,27 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:01.571050 +## +## cfitsio@4.2.0%gcc@11.3.0+bzip2+shared build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/pqyld7p +## +## Configure options: --with-bzip2=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/bzip2-1.0.8-dtsdvarms4sm5nhcsdmhljkzfplepf4p +## + + +module-whatis "CFITSIO is a library of C and Fortran subroutines for reading and writing data files in FITS (Flexible Image Transport System) data format. " + +proc ModulesHelp { } { + puts stderr "Name : cfitsio" + puts stderr "Version: 4.2.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "CFITSIO is a library of C and Fortran subroutines for reading and" + puts stderr "writing data files in FITS (Flexible Image Transport System) data" + puts stderr "format." +} + +module load bzip2-1.0.8-gcc-11.3.0-dtsdvar +module load curl-8.0.1-gcc-11.3.0-2vsczof + +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cfitsio-4.2.0-pqyld7pe7wegi337y5sk6fqmy4bjc5ay/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cfitsio-4.2.0-pqyld7pe7wegi337y5sk6fqmy4bjc5ay/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/cgal-5.4.1-gcc-11.3.0-ff5qza6 b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/cgal-5.4.1-gcc-11.3.0-ff5qza6 new file mode 100644 index 00000000..442fabef --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/cgal-5.4.1-gcc-11.3.0-ff5qza6 @@ -0,0 +1,34 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:01.612038 +## +## cgal@5.4.1%gcc@11.3.0~core~demos+eigen~header_only~imageio~ipo+shared build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v2/ff5qza6 +## +## Configure options: -DBUILD_SHARED_LIBS:BOOL=True -DWITH_CGAL_Core:BOOL=False -DWITH_CGAL_ImageIO:BOOL=False -DWITH_CGAL_Qt5:BOOL=False -DCGAL_HEADER_ONLY:BOOL=False +## + + +module-whatis "The Computational Geometry Algorithms Library (CGAL) is a C++ library that aims to provide easy access to efficient and reliable algorithms in computational geometry. CGAL is used in various areas needing geometric computation, such as geographic information systems, computer aided design, molecular biology, medical imaging, computer graphics, and robotics. " + +proc ModulesHelp { } { + puts stderr "Name : cgal" + puts stderr "Version: 5.4.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "The Computational Geometry Algorithms Library (CGAL) is a C++ library" + puts stderr "that aims to provide easy access to efficient and reliable algorithms in" + puts stderr "computational geometry. CGAL is used in various areas needing geometric" + puts stderr "computation, such as geographic information systems, computer aided" + puts stderr "design, molecular biology, medical imaging, computer graphics, and" + puts stderr "robotics." +} + +module load boost-1.82.0-gcc-11.3.0-pafzrtu +module load eigen-3.4.0-gcc-11.3.0-byn7gmg +module load gmp-6.2.1-gcc-11.3.0-s6757r7 +module load mpfr-4.0.2-gcc-11.3.0-3n7r5ug +module load zlib-1.2.13-gcc-11.3.0-77qi6rv + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cgal-5.4.1-ff5qza6saibuevdnjf35eqeqbho5jhyq/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cgal-5.4.1-ff5qza6saibuevdnjf35eqeqbho5jhyq/share/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cgal-5.4.1-ff5qza6saibuevdnjf35eqeqbho5jhyq/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/cgal-5.4.1-gcc-11.3.0-frevfhe b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/cgal-5.4.1-gcc-11.3.0-frevfhe new file mode 100644 index 00000000..4c328896 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/cgal-5.4.1-gcc-11.3.0-frevfhe @@ -0,0 +1,34 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:36.538661 +## +## cgal@5.4.1%gcc@11.3.0~core~demos+eigen~header_only~imageio~ipo+shared build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v2/frevfhe +## +## Configure options: -DBUILD_SHARED_LIBS:BOOL=True -DWITH_CGAL_Core:BOOL=False -DWITH_CGAL_ImageIO:BOOL=False -DWITH_CGAL_Qt5:BOOL=False -DCGAL_HEADER_ONLY:BOOL=False +## + + +module-whatis "The Computational Geometry Algorithms Library (CGAL) is a C++ library that aims to provide easy access to efficient and reliable algorithms in computational geometry. CGAL is used in various areas needing geometric computation, such as geographic information systems, computer aided design, molecular biology, medical imaging, computer graphics, and robotics. " + +proc ModulesHelp { } { + puts stderr "Name : cgal" + puts stderr "Version: 5.4.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "The Computational Geometry Algorithms Library (CGAL) is a C++ library" + puts stderr "that aims to provide easy access to efficient and reliable algorithms in" + puts stderr "computational geometry. CGAL is used in various areas needing geometric" + puts stderr "computation, such as geographic information systems, computer aided" + puts stderr "design, molecular biology, medical imaging, computer graphics, and" + puts stderr "robotics." +} + +module load boost-1.79.0-gcc-11.3.0-zfgjt4m +module load eigen-3.4.0-gcc-11.3.0-eseowcc +module load gmp-6.2.1-gcc-11.3.0-s6757r7 +module load mpfr-4.2.0-gcc-11.3.0-zhxh7uh +module load zlib-1.2.13-gcc-11.3.0-lu7f4vc + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cgal-5.4.1-frevfhe4hz7htjuh6xx4jgssiujjgwho/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cgal-5.4.1-frevfhe4hz7htjuh6xx4jgssiujjgwho/share/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cgal-5.4.1-frevfhe4hz7htjuh6xx4jgssiujjgwho/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/circos-0.69-9-gcc-11.3.0-wwq5hw7 b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/circos-0.69-9-gcc-11.3.0-wwq5hw7 new file mode 100644 index 00000000..ee4b7dcb --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/circos-0.69-9-gcc-11.3.0-wwq5hw7 @@ -0,0 +1,41 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:04.290850 +## +## circos@0.69-9%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/wwq5hw7 +## + + +module-whatis "Circos is a software package for visualizing data and information." + +proc ModulesHelp { } { + puts stderr "Name : circos" + puts stderr "Version: 0.69-9" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Circos is a software package for visualizing data and information." +} + +module load perl-5.36.0-gcc-11.3.0-rp6rwls +module load perl-clone-0.46-gcc-11.3.0-ve4gb6a +module load perl-config-general-2.65-gcc-11.3.0-cui2sco +module load perl-exporter-tiny-1.006002-gcc-11.3.0-4zqn5jw +module load perl-font-ttf-1.06-gcc-11.3.0-xg5cqqs +module load perl-gd-2.53-gcc-11.3.0-tjienqf +module load perl-io-string-1.08-gcc-11.3.0-xinf5rl +module load perl-list-moreutils-0.430-gcc-11.3.0-mdc472j +module load perl-math-bezier-0.01-gcc-11.3.0-odlcosp +module load perl-math-round-0.07-gcc-11.3.0-osbmxn5 +module load perl-math-vecstat-0.08-gcc-11.3.0-7q725bi +module load perl-params-validate-1.31-gcc-11.3.0-5gmlkrd +module load perl-readonly-2.05-gcc-11.3.0-wl3k4xb +module load perl-regexp-common-2017060201-gcc-11.3.0-zcs2xqv +module load perl-set-intspan-1.19-gcc-11.3.0-6hbys4m +module load perl-statistics-basic-1.6611-gcc-11.3.0-7t32bo3 +module load perl-svg-2.87-gcc-11.3.0-ufs4wju +module load perl-text-format-0.62-gcc-11.3.0-as2vbgd + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/circos-0.69-9-wwq5hw7pogh4ritzfvhor2byapk277iv/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/circos-0.69-9-wwq5hw7pogh4ritzfvhor2byapk277iv/." +prepend-path --delim ":" PERL5LIB "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-clone-0.46-ve4gb6auwf4a53r4jeah2rgt3nodtddi/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-config-general-2.65-cui2scobe2wvhezidd3esxzyeww6bdcn/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-exporter-tiny-1.006002-4zqn5jwmxwhvgehp3cq42nsol635h7um/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-font-ttf-1.06-xg5cqqsf35rkvwdnqg2xpyesx2rnrkq3/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-gd-2.53-tjienqfflpp5syovjt6w2vuvuzm3zgt7/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-extutils-makemaker-7.70-xrjw6ydbb3mhmo26jjg7dumac6jgk2j7/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-extutils-pkgconfig-1.16-l4hjun2rxhd2r74kfrq2vzbz25u6eua7/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-io-string-1.08-xinf5rluu7q7j6vcuqgec2zloqrtxhrw/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-list-moreutils-0.430-mdc472j2vx7p7uvt3umcxfvzpfhqqmik/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-list-moreutils-xs-0.430-hjt25ottegq5pwrncrqqsv3lfswsmajw/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-math-bezier-0.01-odlcospgx7eywj5jzvexym75lz6mcjzw/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-math-round-0.07-osbmxn54ob5tkouectup4jmtt5zw2ssf/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-math-vecstat-0.08-7q725biqn6ozcjznaiofmslp4b55npuz/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-params-validate-1.31-5gmlkrdepgwk4k35kglcoq4k2ngg5tjp/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-module-implementation-0.09-wxf6moy2agcawf4kkzmluwgzs6vsmzxr/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-module-runtime-0.016-zczwss4ckorzzf3jaqugrrb7gowj55vk/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-test-fatal-0.017-g2ilc5xwiq75s57m4nnyyneudplab2km/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-try-tiny-0.31-432e3zpsxdhmrfcx4avstmyhdofr4wgo/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-test-requires-0.11-btv4gk2ua2stdvpj7jyijcay6xklmygq/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-readonly-2.05-wl3k4xbkzotfahuq4hyjwnc4kxcyhq7j/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-regexp-common-2017060201-zcs2xqvh6gqywsyaj6igokhqsrfr6h5o/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-set-intspan-1.19-6hbys4mwbo3n75asrr5wn67dumx2anod/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-statistics-basic-1.6611-7t32bo3bnh7cfmpyba53npptqsxflynl/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-number-format-1.75-s4x46q4gzfsoh7joneotkxnikbck2fr4/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-scalar-list-utils-1.63-2fmrhxvuwnhf6qpu3kzytbah4csue5xj/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-svg-2.87-ufs4wjufsucigm2mzaj2qfqqd5gk6k2b/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-text-format-0.62-as2vbgdu4snsaejusvpljbatrcpcgvdx/lib/perl5" +prepend-path --delim ":" XLOCALEDIR "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libx11-1.8.4-elhqje4pmr6c4jp256hrfear2cp45szn/share/X11/locale" + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/cmake-3.26.3-gcc-11.3.0-v6udq33 b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/cmake-3.26.3-gcc-11.3.0-v6udq33 new file mode 100644 index 00000000..33a5abd4 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/cmake-3.26.3-gcc-11.3.0-v6udq33 @@ -0,0 +1,25 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:36.624184 +## +## cmake@3.26.3%gcc@11.3.0~doc+ncurses+ownlibs~qt build_system=generic build_type=Release arch=linux-ubuntu22.04-x86_64_v2/v6udq33 +## + + +module-whatis "A cross-platform, open-source build system. CMake is a family of tools designed to build, test and package software. " + +proc ModulesHelp { } { + puts stderr "Name : cmake" + puts stderr "Version: 3.26.3" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "A cross-platform, open-source build system. CMake is a family of tools" + puts stderr "designed to build, test and package software." +} + +module load ncurses-6.4-gcc-11.3.0-jierbsy +module load openssl-3.1.0-gcc-11.3.0-4r5qwcb + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cmake-3.26.3-v6udq33dfmnweldekiiwbw2oayic7pa6/bin" +prepend-path --delim ":" ACLOCAL_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cmake-3.26.3-v6udq33dfmnweldekiiwbw2oayic7pa6/share/aclocal" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cmake-3.26.3-v6udq33dfmnweldekiiwbw2oayic7pa6/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/cuda-11.7.1-gcc-11.3.0-66qffrf b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/cuda-11.7.1-gcc-11.3.0-66qffrf new file mode 100644 index 00000000..422ff4f7 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/cuda-11.7.1-gcc-11.3.0-66qffrf @@ -0,0 +1,28 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:01.179731 +## +## cuda@11.7.1%gcc@11.3.0~allow-unsupported-compilers~dev build_system=generic arch=linux-ubuntu22.04-x86_64_v2/66qffrf +## + + +module-whatis "CUDA is a parallel computing platform and programming model invented by NVIDIA. It enables dramatic increases in computing performance by harnessing the power of the graphics processing unit (GPU)." + +proc ModulesHelp { } { + puts stderr "Name : cuda" + puts stderr "Version: 11.7.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "CUDA is a parallel computing platform and programming model invented by" + puts stderr "NVIDIA. It enables dramatic increases in computing performance by" + puts stderr "harnessing the power of the graphics processing unit (GPU). Note: This" + puts stderr "package does not currently install the drivers necessary to run CUDA." + puts stderr "These will need to be installed manually. See:" + puts stderr "https://docs.nvidia.com/cuda/ for details." +} + +module load libxml2-2.10.2-gcc-11.3.0-cymuqdb + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cuda-11.7.1-66qffrfzf7w5sbvqm62unwy55d33bwip/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cuda-11.7.1-66qffrfzf7w5sbvqm62unwy55d33bwip/." +setenv CUDA_HOME "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cuda-11.7.1-66qffrfzf7w5sbvqm62unwy55d33bwip" + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/cuda-11.7.1-gcc-11.3.0-bxbn5pp b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/cuda-11.7.1-gcc-11.3.0-bxbn5pp new file mode 100644 index 00000000..04a69871 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/cuda-11.7.1-gcc-11.3.0-bxbn5pp @@ -0,0 +1,28 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 12:22:43.543960 +## +## cuda@11.7.1%gcc@11.3.0~allow-unsupported-compilers~dev build_system=generic arch=linux-ubuntu22.04-x86_64_v2/bxbn5pp +## + + +module-whatis "CUDA is a parallel computing platform and programming model invented by NVIDIA. It enables dramatic increases in computing performance by harnessing the power of the graphics processing unit (GPU)." + +proc ModulesHelp { } { + puts stderr "Name : cuda" + puts stderr "Version: 11.7.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "CUDA is a parallel computing platform and programming model invented by" + puts stderr "NVIDIA. It enables dramatic increases in computing performance by" + puts stderr "harnessing the power of the graphics processing unit (GPU). Note: This" + puts stderr "package does not currently install the drivers necessary to run CUDA." + puts stderr "These will need to be installed manually. See:" + puts stderr "https://docs.nvidia.com/cuda/ for details." +} + +module load libxml2-2.10.2-gcc-11.3.0-e3ncgjo + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cuda-11.7.1-bxbn5ppn3atawq2yaz6ga75ygrwkypis/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cuda-11.7.1-bxbn5ppn3atawq2yaz6ga75ygrwkypis/." +setenv CUDA_HOME "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cuda-11.7.1-bxbn5ppn3atawq2yaz6ga75ygrwkypis" + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/cuda-11.7.1-gcc-11.3.0-cgd6wou b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/cuda-11.7.1-gcc-11.3.0-cgd6wou new file mode 100644 index 00000000..b7dc6f28 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/cuda-11.7.1-gcc-11.3.0-cgd6wou @@ -0,0 +1,28 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:36.670903 +## +## cuda@11.7.1%gcc@11.3.0~allow-unsupported-compilers~dev build_system=generic arch=linux-ubuntu22.04-x86_64_v2/cgd6wou +## + + +module-whatis "CUDA is a parallel computing platform and programming model invented by NVIDIA. It enables dramatic increases in computing performance by harnessing the power of the graphics processing unit (GPU)." + +proc ModulesHelp { } { + puts stderr "Name : cuda" + puts stderr "Version: 11.7.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "CUDA is a parallel computing platform and programming model invented by" + puts stderr "NVIDIA. It enables dramatic increases in computing performance by" + puts stderr "harnessing the power of the graphics processing unit (GPU). Note: This" + puts stderr "package does not currently install the drivers necessary to run CUDA." + puts stderr "These will need to be installed manually. See:" + puts stderr "https://docs.nvidia.com/cuda/ for details." +} + +module load libxml2-2.10.2-gcc-11.3.0-bvlt4ur + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cuda-11.7.1-cgd6wouh52bl6dxcijtbon5cmygczjzh/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cuda-11.7.1-cgd6wouh52bl6dxcijtbon5cmygczjzh/." +setenv CUDA_HOME "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cuda-11.7.1-cgd6wouh52bl6dxcijtbon5cmygczjzh" + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/dealii-9.4.2-gcc-11.3.0-amd4qgi b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/dealii-9.4.2-gcc-11.3.0-amd4qgi new file mode 100644 index 00000000..da7d7bd7 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/dealii-9.4.2-gcc-11.3.0-amd4qgi @@ -0,0 +1,51 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:01.705743 +## +## dealii@9.4.2%gcc@11.3.0+adol-c+arborx+arpack+assimp+cgal~cuda~doc+examples+ginkgo+gmsh+gsl+hdf5~int64~ipo+metis+mpi+muparser~nanoflann~netcdf+oce~optflags+p4est+petsc~python+scalapack+simplex+slepc+sundials+symengine+threads+trilinos build_system=cmake build_type=DebugRelease cxxstd=17 generator=ninja patches=7869dfa,8a1f7b9,c9884eb arch=linux-ubuntu22.04-x86_64_v2/amd4qgi +## +## Configure options: -DDEAL_II_EXAMPLES_RELDIR:STRING=share/deal.II/examples -DDEAL_II_DOCREADME_RELDIR:STRING=share/deal.II/ -DDEAL_II_DOCHTML_RELDIR:STRING=share/deal.II/doc -DBOOST_DIR:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/boost-1.79.0-jpmedgdd7f6xvtmecliqlkdyzc5mty7m -DLAPACK_FOUND:BOOL=ON -DLAPACK_INCLUDE_DIRS:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openblas-0.3.23-vfu3m2svnjvpeoxiskmm43gm7dm7sf6b/include -DLAPACK_LIBRARIES:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openblas-0.3.23-vfu3m2svnjvpeoxiskmm43gm7dm7sf6b/lib/libopenblas.so -DUMFPACK_DIR:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/suite-sparse-5.13.0-qxdugb2a4yvgfd2sghpdlzrfawy5uhd6 -DZLIB_DIR:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/zlib-1.2.13-77qi6rvrwc4iwqziogd6vdxucahcm5qe -DDEAL_II_ALLOW_BUNDLED:BOOL=OFF -DDEAL_II_COMPONENT_DOCUMENTATION:BOOL=OFF -DDEAL_II_COMPONENT_EXAMPLES:BOOL=ON -DDEAL_II_WITH_64BIT_INDICES:BOOL=OFF -DDEAL_II_WITH_CUDA:BOOL=OFF -DDEAL_II_WITH_MPI:BOOL=ON -DCMAKE_C_COMPILER:STRING=/share/apps/22.04/manual/openmpi/4.1.5-mpi-io/bin/mpicc -DCMAKE_CXX_COMPILER:STRING=/share/apps/22.04/manual/openmpi/4.1.5-mpi-io/bin/mpic++ -DCMAKE_Fortran_COMPILER:STRING=/share/apps/22.04/manual/openmpi/4.1.5-mpi-io/bin/mpif90 -DMPI_C_COMPILER:STRING=/share/apps/22.04/manual/openmpi/4.1.5-mpi-io/bin/mpicc -DMPI_CXX_COMPILER:STRING=/share/apps/22.04/manual/openmpi/4.1.5-mpi-io/bin/mpic++ -DMPI_Fortran_COMPILER:STRING=/share/apps/22.04/manual/openmpi/4.1.5-mpi-io/bin/mpif90 -DMPI_CXX_LINK_FLAGS:STRING=-lopen-pal -DDEAL_II_COMPONENT_PYTHON_BINDINGS:BOOL=OFF -DDEAL_II_WITH_TBB:BOOL=ON -DTBB_DIR:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-tbb-2021.9.0-pdkleenlgn32v245lvlrvgfczcykun64 -DDEAL_II_WITH_GSL:BOOL=ON -DGSL_DIR:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gsl-2.7.1-7z5dz5cle3byaeyf4uvq6x3biakagq2b -DDEAL_II_WITH_HDF5:BOOL=ON -DHDF5_DIR:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/hdf5-1.10.7-rcmxzu36dojkio7zk2doidcj5hetu6sf -DDEAL_II_WITH_P4EST:BOOL=ON -DP4EST_DIR:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/p4est-2.8-oieqf5hobgmhlujkpctucx7uyxunei2b -DDEAL_II_WITH_PETSC:BOOL=ON -DPETSC_DIR:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/petsc-3.19.1-jpnccs35fgssak5buk3ibcbpygnx7fjg -DDEAL_II_WITH_SLEPC:BOOL=ON -DSLEPC_DIR:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/slepc-3.19.0-oegsqdhxpoppquobdfl62uzfqeyrsakh -DDEAL_II_WITH_TRILINOS:BOOL=ON -DTRILINOS_DIR:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/trilinos-13.0.1-swnurw2n7sycaoxx5oejym2gh6oicdy6 -DDEAL_II_WITH_METIS:BOOL=ON -DMETIS_DIR:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/metis-5.1.0-koewlvcthuotliz2aetim6uorzsbewj5 -DDEAL_II_WITH_SUNDIALS:BOOL=ON -DSUNDIALS_DIR:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/sundials-6.5.0-gfzegpfyp3kfhaxg2e5egmqg32ri3fro -DDEAL_II_WITH_NANOFLANN:BOOL=OFF -DDEAL_II_WITH_ASSIMP:BOOL=ON -DASSIMP_DIR:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/assimp-5.2.5-bnvpoz6uv6shcsg2rtendx43yjunxwaq -DDEAL_II_WITH_GMSH:BOOL=ON -DGMSH_DIR:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gmsh-4.8.4-qa3r5p5kgajxqidanwnistng32p4cgjx -DDEAL_II_WITH_MUPARSER:BOOL=ON -DMUPARSER_DIR:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/muparser-2.3.4-3a5qmm6gnclpwmcn7wczvsdz2mmpk6si -DDEAL_II_WITH_SYMENGINE:BOOL=ON -DSYMENGINE_DIR:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/symengine-0.9.0-pbulj45mxji66d2yro24etdllr5g4ycz -DDEAL_II_WITH_GINKGO:BOOL=ON -DGINKGO_DIR:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ginkgo-1.5.0-uldwbfpde4yuoendw7snpemicjomlqij -DDEAL_II_WITH_ARBORX:BOOL=ON -DARBORX_DIR:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/arborx-1.1-t7lje6prv3ac3dcyiacssoj2bhwrvs27 -DDEAL_II_WITH_CGAL:BOOL=ON -DCGAL_DIR:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cgal-5.4.1-ka7yybpddbd23phhp2jamssb23vmho55 -DDEAL_II_WITH_ADOLC:BOOL=ON -DADOLC_DIR:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/adol-c-2.7.2-4p2bdsxzuoqwwaxyaxdpout74birj76v -DDEAL_II_WITH_ARPACK:BOOL=ON -DARPACK_DIR:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/arpack-ng-3.9.0-w7qztl5n3wmkrnmfpzviku32v6rhhmkx -DDEAL_II_ARPACK_WITH_PARPACK:BOOL=ON -DDEAL_II_WITH_NETCDF:BOOL=OFF -DDEAL_II_WITH_SCALAPACK:BOOL=ON -DSCALAPACK_FOUND:BOOL=ON -DSCALAPACK_INCLUDE_DIRS:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netlib-scalapack-2.2.0-dta5rzscj2dil424rxvzfonpjxpxofwd/include -DSCALAPACK_LIBRARIES:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netlib-scalapack-2.2.0-dta5rzscj2dil424rxvzfonpjxpxofwd/lib/libscalapack.so -DSCALAPACK_LIBRARY:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netlib-scalapack-2.2.0-dta5rzscj2dil424rxvzfonpjxpxofwd/lib/libscalapack.so -DDEAL_II_WITH_OPENCASCADE:BOOL=ON -DOPENCASCADE_DIR:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/oce-0.18.3-7ynkhsq7ksr7lvtox7sghidrys5mehd2 -DCMAKE_CXX_FLAGS:STRING=-std=c++17 -DDEAL_II_CXX_FLAGS:STRING=-march=x86-64-v2 -mtune=generic +## + + +module-whatis "C++ software library providing well-documented tools to build finite element codes for a broad variety of PDEs." + +proc ModulesHelp { } { + puts stderr "Name : dealii" + puts stderr "Version: 9.4.2" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "C++ software library providing well-documented tools to build finite" + puts stderr "element codes for a broad variety of PDEs." +} + +module load adol-c-2.7.2-gcc-11.3.0-4p2bdsx +module load arborx-1.1-gcc-11.3.0-t7lje6p +module load arpack-ng-3.9.0-gcc-11.3.0-w7qztl5 +module load assimp-5.2.5-gcc-11.3.0-bnvpoz6 +module load boost-1.79.0-gcc-11.3.0-jpmedgd +module load cgal-5.4.1-gcc-11.3.0-ka7yybp +module load ginkgo-1.5.0-gcc-11.3.0-uldwbfp +module load gmsh-4.8.4-gcc-11.3.0-qa3r5p5 +module load gsl-2.7.1-gcc-11.3.0-7z5dz5c +module load hdf5-1.10.7-gcc-11.3.0-rcmxzu3 +module load intel-oneapi-tbb-2021.9.0-gcc-11.3.0-pdkleen +module load metis-5.1.0-gcc-11.3.0-koewlvc +module load muparser-2.3.4-gcc-11.3.0-3a5qmm6 +module load netlib-scalapack-2.2.0-gcc-11.3.0-dta5rzs +module load oce-0.18.3-gcc-11.3.0-7ynkhsq +module load openblas-0.3.23-gcc-11.3.0-vfu3m2s +module load openmpi-4.1.5-gcc-11.3.0-mi6igmv +module load p4est-2.8-gcc-11.3.0-oieqf5h +module load petsc-3.19.1-gcc-11.3.0-jpnccs3 +module load slepc-3.19.0-gcc-11.3.0-oegsqdh +module load suite-sparse-5.13.0-gcc-11.3.0-qxdugb2 +module load sundials-6.5.0-gcc-11.3.0-gfzegpf +module load symengine-0.9.0-gcc-11.3.0-pbulj45 +module load trilinos-13.0.1-gcc-11.3.0-swnurw2 +module load zlib-1.2.13-gcc-11.3.0-77qi6rv + +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/dealii-9.4.2-amd4qgiiy45iq65nw4ue6nucntm5zys6/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/dealii-9.4.2-amd4qgiiy45iq65nw4ue6nucntm5zys6/." +prepend-path --delim ":" XLOCALEDIR "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libx11-1.8.4-elhqje4pmr6c4jp256hrfear2cp45szn/share/X11/locale" +setenv DEAL_II_DIR "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/dealii-9.4.2-amd4qgiiy45iq65nw4ue6nucntm5zys6" + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/diamond-2.0.15-gcc-11.3.0-w23zjzp b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/diamond-2.0.15-gcc-11.3.0-w23zjzp new file mode 100644 index 00000000..8302055e --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/diamond-2.0.15-gcc-11.3.0-w23zjzp @@ -0,0 +1,23 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:36.744488 +## +## diamond@2.0.15%gcc@11.3.0~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v2/w23zjzp +## + + +module-whatis "DIAMOND is a sequence aligner for protein and translated DNA searches, designed for high performance analysis of big sequence data." + +proc ModulesHelp { } { + puts stderr "Name : diamond" + puts stderr "Version: 2.0.15" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "DIAMOND is a sequence aligner for protein and translated DNA searches," + puts stderr "designed for high performance analysis of big sequence data." +} + +module load zlib-1.2.13-gcc-11.3.0-lu7f4vc + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/diamond-2.0.15-w23zjzpquapuegotkm2hkcv4bo2lwt56/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/diamond-2.0.15-w23zjzpquapuegotkm2hkcv4bo2lwt56/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/doxygen-1.9.6-gcc-11.3.0-6pmayng b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/doxygen-1.9.6-gcc-11.3.0-6pmayng new file mode 100644 index 00000000..88f1d5ac --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/doxygen-1.9.6-gcc-11.3.0-6pmayng @@ -0,0 +1,28 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:02.769423 +## +## doxygen@1.9.6%gcc@11.3.0~graphviz~ipo~mscgen build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v2/6pmayng +## +## Configure options: -DPYTHON_EXECUTABLE:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/python-3.10.10-v5jpflnztkbw3n2odw6nx4ty6hzajvem/bin/python3.10 +## + + +module-whatis "Doxygen is the de facto standard tool for generating documentation from annotated C++ sources, but it also supports other popular programming languages such as C, Objective-C, C#, PHP, Java, Python, IDL (Corba, Microsoft, and UNO/OpenOffice flavors), Fortran, VHDL, Tcl, and to some extent D.." + +proc ModulesHelp { } { + puts stderr "Name : doxygen" + puts stderr "Version: 1.9.6" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Doxygen is the de facto standard tool for generating documentation from" + puts stderr "annotated C++ sources, but it also supports other popular programming" + puts stderr "languages such as C, Objective-C, C#, PHP, Java, Python, IDL (Corba," + puts stderr "Microsoft, and UNO/OpenOffice flavors), Fortran, VHDL, Tcl, and to some" + puts stderr "extent D.." +} + +module load libiconv-1.17-gcc-11.3.0-5uksiej + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/doxygen-1.9.6-6pmayng6wlois3fojo45rdupqdnycabl/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/doxygen-1.9.6-6pmayng6wlois3fojo45rdupqdnycabl/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/doxygen-1.9.6-gcc-11.3.0-uurnfhr b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/doxygen-1.9.6-gcc-11.3.0-uurnfhr new file mode 100644 index 00000000..b25dfe99 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/doxygen-1.9.6-gcc-11.3.0-uurnfhr @@ -0,0 +1,28 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:36.784859 +## +## doxygen@1.9.6%gcc@11.3.0~graphviz~ipo~mscgen build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v2/uurnfhr +## +## Configure options: -DPYTHON_EXECUTABLE:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/python-3.10.10-dstxvfiascdug6im36lyxkevgyfsdnzn/bin/python3.10 +## + + +module-whatis "Doxygen is the de facto standard tool for generating documentation from annotated C++ sources, but it also supports other popular programming languages such as C, Objective-C, C#, PHP, Java, Python, IDL (Corba, Microsoft, and UNO/OpenOffice flavors), Fortran, VHDL, Tcl, and to some extent D.." + +proc ModulesHelp { } { + puts stderr "Name : doxygen" + puts stderr "Version: 1.9.6" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Doxygen is the de facto standard tool for generating documentation from" + puts stderr "annotated C++ sources, but it also supports other popular programming" + puts stderr "languages such as C, Objective-C, C#, PHP, Java, Python, IDL (Corba," + puts stderr "Microsoft, and UNO/OpenOffice flavors), Fortran, VHDL, Tcl, and to some" + puts stderr "extent D.." +} + +module load libiconv-1.17-gcc-11.3.0-5uksiej + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/doxygen-1.9.6-uurnfhrkboukfcixko5k3dsacwvwm3ra/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/doxygen-1.9.6-uurnfhrkboukfcixko5k3dsacwvwm3ra/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/dssp-3.1.4-gcc-11.3.0-n7h5hez b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/dssp-3.1.4-gcc-11.3.0-n7h5hez new file mode 100644 index 00000000..7e76a746 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/dssp-3.1.4-gcc-11.3.0-n7h5hez @@ -0,0 +1,24 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:36.836032 +## +## dssp@3.1.4%gcc@11.3.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/n7h5hez +## +## Configure options: --with-boost=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/boost-1.79.0-zfgjt4m2kjlie7wjogyqsihuab56czg5 +## + + +module-whatis "'mkdssp' utility. (dictionary of protein secondary structure)" + +proc ModulesHelp { } { + puts stderr "Name : dssp" + puts stderr "Version: 3.1.4" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "'mkdssp' utility. (dictionary of protein secondary structure)" +} + +module load boost-1.79.0-gcc-11.3.0-zfgjt4m + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/dssp-3.1.4-n7h5hez4ab2q6nfiny3zk3ugf5qnixwb/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/dssp-3.1.4-n7h5hez4ab2q6nfiny3zk3ugf5qnixwb/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/ea-utils-2021-10-20-gcc-11.3.0-75gbuli b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/ea-utils-2021-10-20-gcc-11.3.0-75gbuli new file mode 100644 index 00000000..b0ce6a26 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/ea-utils-2021-10-20-gcc-11.3.0-75gbuli @@ -0,0 +1,28 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:36.883355 +## +## ea-utils@2021-10-20%gcc@11.3.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v2/75gbuli +## + + +module-whatis "Command-line tools for processing biological sequencing data. Barcode demultiplexing, adapter trimming, etc. Primarily written to support an Illumina based pipeline - but should work with any FASTQs." + +proc ModulesHelp { } { + puts stderr "Name : ea-utils" + puts stderr "Version: 2021-10-20" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Command-line tools for processing biological sequencing data. Barcode" + puts stderr "demultiplexing, adapter trimming, etc. Primarily written to support an" + puts stderr "Illumina based pipeline - but should work with any FASTQs." +} + +module load bamtools-2.5.2-gcc-11.3.0-zu6vk4d +module load gsl-2.7.1-gcc-11.3.0-7z5dz5c +module load perl-5.36.0-gcc-11.3.0-a36qqup +module load sparsehash-2.0.4-gcc-11.3.0-qd3wkh7 +module load zlib-1.2.13-gcc-11.3.0-lu7f4vc + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ea-utils-2021-10-20-75gbulihonsbc4xnefzrz7v5ej44f7x4/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ea-utils-2021-10-20-75gbulihonsbc4xnefzrz7v5ej44f7x4/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/ea-utils-2021-10-20-gcc-11.3.0-xyuhf2t b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/ea-utils-2021-10-20-gcc-11.3.0-xyuhf2t new file mode 100644 index 00000000..e8632b46 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/ea-utils-2021-10-20-gcc-11.3.0-xyuhf2t @@ -0,0 +1,28 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:04.546444 +## +## ea-utils@2021-10-20%gcc@11.3.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v2/xyuhf2t +## + + +module-whatis "Command-line tools for processing biological sequencing data. Barcode demultiplexing, adapter trimming, etc. Primarily written to support an Illumina based pipeline - but should work with any FASTQs." + +proc ModulesHelp { } { + puts stderr "Name : ea-utils" + puts stderr "Version: 2021-10-20" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Command-line tools for processing biological sequencing data. Barcode" + puts stderr "demultiplexing, adapter trimming, etc. Primarily written to support an" + puts stderr "Illumina based pipeline - but should work with any FASTQs." +} + +module load bamtools-2.5.2-gcc-11.3.0-qud5drr +module load gsl-2.7.1-gcc-11.3.0-7z5dz5c +module load perl-5.36.0-gcc-11.3.0-rp6rwls +module load sparsehash-2.0.4-gcc-11.3.0-qd3wkh7 +module load zlib-1.2.13-gcc-11.3.0-77qi6rv + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ea-utils-2021-10-20-xyuhf2t4ncrjkr2hfxbruhot4vx4ex2n/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ea-utils-2021-10-20-xyuhf2t4ncrjkr2hfxbruhot4vx4ex2n/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/elk-8.3.22-gcc-11.3.0-5aetlaj b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/elk-8.3.22-gcc-11.3.0-5aetlaj new file mode 100644 index 00000000..07c91603 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/elk-8.3.22-gcc-11.3.0-5aetlaj @@ -0,0 +1,24 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:36.952501 +## +## elk@8.3.22%gcc@11.3.0+libxc+mpi+openmp~w90 build_system=makefile fft=internal linalg=internal arch=linux-ubuntu22.04-x86_64_v2/5aetlaj +## + + +module-whatis "An all-electron full-potential linearised augmented-plane wave (FP-LAPW) code with many advanced features." + +proc ModulesHelp { } { + puts stderr "Name : elk" + puts stderr "Version: 8.3.22" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "An all-electron full-potential linearised augmented-plane wave (FP-LAPW)" + puts stderr "code with many advanced features." +} + +module load libxc-5.1.7-gcc-11.3.0-erhh5en +module load openmpi-4.1.5-gcc-11.3.0-63v4xd2 + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/elk-8.3.22-5aetlajmewwsdfcf5rnyylcyzwsukeft/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/elk-8.3.22-5aetlajmewwsdfcf5rnyylcyzwsukeft/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/elk-8.3.22-gcc-11.3.0-guahfqs b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/elk-8.3.22-gcc-11.3.0-guahfqs new file mode 100644 index 00000000..a5357d43 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/elk-8.3.22-gcc-11.3.0-guahfqs @@ -0,0 +1,24 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:02.821352 +## +## elk@8.3.22%gcc@11.3.0+libxc+mpi+openmp~w90 build_system=makefile fft=internal linalg=internal arch=linux-ubuntu22.04-x86_64_v2/guahfqs +## + + +module-whatis "An all-electron full-potential linearised augmented-plane wave (FP-LAPW) code with many advanced features." + +proc ModulesHelp { } { + puts stderr "Name : elk" + puts stderr "Version: 8.3.22" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "An all-electron full-potential linearised augmented-plane wave (FP-LAPW)" + puts stderr "code with many advanced features." +} + +module load libxc-6.1.0-gcc-11.3.0-wdsy6p2 +module load openmpi-4.1.5-gcc-11.3.0-63v4xd2 + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/elk-8.3.22-guahfqs2fxcppzj4wlzrupn53f3v5257/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/elk-8.3.22-guahfqs2fxcppzj4wlzrupn53f3v5257/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/environment-modules-5.2.0-gcc-11.3.0-dpkgrab b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/environment-modules-5.2.0-gcc-11.3.0-dpkgrab new file mode 100644 index 00000000..860b593b --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/environment-modules-5.2.0-gcc-11.3.0-dpkgrab @@ -0,0 +1,24 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:37.003066 +## +## environment-modules@5.2.0%gcc@11.3.0+X build_system=generic arch=linux-ubuntu22.04-x86_64_v2/dpkgrab +## + + +module-whatis "The Environment Modules package provides for the dynamic modification of a user's environment via module files. " + +proc ModulesHelp { } { + puts stderr "Name : environment-modules" + puts stderr "Version: 5.2.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "The Environment Modules package provides for the dynamic modification of" + puts stderr "a user's environment via module files." +} + +module load tcl-8.6.12-gcc-11.3.0-2t5tcm5 + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/environment-modules-5.2.0-dpkgrabaz7qjev45yet3iz32fosdd4wh/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/environment-modules-5.2.0-dpkgrabaz7qjev45yet3iz32fosdd4wh/share/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/environment-modules-5.2.0-dpkgrabaz7qjev45yet3iz32fosdd4wh/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/exonerate-2.4.0-gcc-11.3.0-lgy5uw4 b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/exonerate-2.4.0-gcc-11.3.0-lgy5uw4 new file mode 100644 index 00000000..82c7f10f --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/exonerate-2.4.0-gcc-11.3.0-lgy5uw4 @@ -0,0 +1,25 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:04.610306 +## +## exonerate@2.4.0%gcc@11.3.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/lgy5uw4 +## +## Configure options: --disable-debug --disable-dependency-tracking +## + + +module-whatis "Pairwise sequence alignment of DNA and proteins" + +proc ModulesHelp { } { + puts stderr "Name : exonerate" + puts stderr "Version: 2.4.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Pairwise sequence alignment of DNA and proteins" +} + +module load glib-2.76.1-gcc-11.3.0-7gcbeqe + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/exonerate-2.4.0-lgy5uw4mblomjvbxtzohkb4gqaatmpix/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/exonerate-2.4.0-lgy5uw4mblomjvbxtzohkb4gqaatmpix/share/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/exonerate-2.4.0-lgy5uw4mblomjvbxtzohkb4gqaatmpix/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/exonerate-gff3-2.3.0-gcc-11.3.0-oahlh4a b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/exonerate-gff3-2.3.0-gcc-11.3.0-oahlh4a new file mode 100644 index 00000000..de23629c --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/exonerate-gff3-2.3.0-gcc-11.3.0-oahlh4a @@ -0,0 +1,24 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:04.684746 +## +## exonerate-gff3@2.3.0%gcc@11.3.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/oahlh4a +## + + +module-whatis "This is an exonerate fork with added gff3 support. Original website with user guides: http://www.ebi.ac.uk/~guy/exonerate/" + +proc ModulesHelp { } { + puts stderr "Name : exonerate-gff3" + puts stderr "Version: 2.3.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "This is an exonerate fork with added gff3 support. Original website with" + puts stderr "user guides: http://www.ebi.ac.uk/~guy/exonerate/" +} + +module load glib-2.76.1-gcc-11.3.0-7gcbeqe + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/exonerate-gff3-2.3.0-oahlh4azjwqonrbqz5pxtdrz3dj4gvy2/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/exonerate-gff3-2.3.0-oahlh4azjwqonrbqz5pxtdrz3dj4gvy2/share/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/exonerate-gff3-2.3.0-oahlh4azjwqonrbqz5pxtdrz3dj4gvy2/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/fastqc-0.11.9-gcc-11.3.0-jfmr2s7 b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/fastqc-0.11.9-gcc-11.3.0-jfmr2s7 new file mode 100644 index 00000000..1123a224 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/fastqc-0.11.9-gcc-11.3.0-jfmr2s7 @@ -0,0 +1,23 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:37.043892 +## +## fastqc@0.11.9%gcc@11.3.0 build_system=generic patches=b237b24 arch=linux-ubuntu22.04-x86_64_v2/jfmr2s7 +## + + +module-whatis "A quality control tool for high throughput sequence data." + +proc ModulesHelp { } { + puts stderr "Name : fastqc" + puts stderr "Version: 0.11.9" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "A quality control tool for high throughput sequence data." +} + +module load openjdk-16.0.2-gcc-11.3.0-4yopvxz +module load perl-5.36.0-gcc-11.3.0-a36qqup + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/fastqc-0.11.9-jfmr2s7tkl6dg7apint3m75nw6y45pvy/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/fastqc-0.11.9-jfmr2s7tkl6dg7apint3m75nw6y45pvy/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/fastqc-0.11.9-gcc-11.3.0-pmgmc5k b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/fastqc-0.11.9-gcc-11.3.0-pmgmc5k new file mode 100644 index 00000000..20eb0958 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/fastqc-0.11.9-gcc-11.3.0-pmgmc5k @@ -0,0 +1,23 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:04.755791 +## +## fastqc@0.11.9%gcc@11.3.0 build_system=generic patches=b237b24 arch=linux-ubuntu22.04-x86_64_v2/pmgmc5k +## + + +module-whatis "A quality control tool for high throughput sequence data." + +proc ModulesHelp { } { + puts stderr "Name : fastqc" + puts stderr "Version: 0.11.9" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "A quality control tool for high throughput sequence data." +} + +module load openjdk-11.0.17_8-gcc-11.3.0-oucx2ae +module load perl-5.36.0-gcc-11.3.0-65ysuw5 + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/fastqc-0.11.9-pmgmc5kgzhiish6ts37l6op23rvcpjye/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/fastqc-0.11.9-pmgmc5kgzhiish6ts37l6op23rvcpjye/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/freesurfer-7.2.0-gcc-11.3.0-losbaok b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/freesurfer-7.2.0-gcc-11.3.0-losbaok new file mode 100644 index 00000000..79d448ea --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/freesurfer-7.2.0-gcc-11.3.0-losbaok @@ -0,0 +1,33 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:02.875446 +## +## freesurfer@7.2.0%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/losbaok +## + + +module-whatis "Freesurfer is an open source software suite for processing and analyzing (human) brain MRI images." + +proc ModulesHelp { } { + puts stderr "Name : freesurfer" + puts stderr "Version: 7.2.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Freesurfer is an open source software suite for processing and analyzing" + puts stderr "(human) brain MRI images." +} + +module load mesa-glu-9.0.2-gcc-11.3.0-6ecwdvm +module load qt-5.15.9-gcc-11.3.0-san7kf5 + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/freesurfer-7.2.0-losbaokzv2ud674pprxnaxspxro54yyo/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/freesurfer-7.2.0-losbaokzv2ud674pprxnaxspxro54yyo/." +prepend-path --delim ":" XLOCALEDIR "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libx11-1.8.4-elhqje4pmr6c4jp256hrfear2cp45szn/share/X11/locale" +prepend-path --delim ":" XDG_DATA_DIRS "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gobject-introspection-1.72.1-n5odutqmfpdluz2zmfrzrekrxotahsp2/share" +prepend-path --delim ":" GI_TYPELIB_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gobject-introspection-1.72.1-n5odutqmfpdluz2zmfrzrekrxotahsp2/lib/girepository-1.0" +prepend-path --delim ":" XDG_DATA_DIRS "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/harfbuzz-5.3.1-gl2fjsgyveuqo3z3scxkypps5iu7rkcm/share" +prepend-path --delim ":" GI_TYPELIB_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/harfbuzz-5.3.1-gl2fjsgyveuqo3z3scxkypps5iu7rkcm/lib/girepository-1.0" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/freesurfer-7.2.0-losbaokzv2ud674pprxnaxspxro54yyo/bin" +setenv FREESURFER_HOME "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/freesurfer-7.2.0-losbaokzv2ud674pprxnaxspxro54yyo" +setenv SUBJECTS_DIR "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/freesurfer-7.2.0-losbaokzv2ud674pprxnaxspxro54yyo/subjects" +setenv FUNCTIONALS_DIR "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/freesurfer-7.2.0-losbaokzv2ud674pprxnaxspxro54yyo/sessions" + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/gatk-3.8.1-gcc-11.3.0-544esfp b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/gatk-3.8.1-gcc-11.3.0-544esfp new file mode 100644 index 00000000..ea125317 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/gatk-3.8.1-gcc-11.3.0-544esfp @@ -0,0 +1,24 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:04.803848 +## +## gatk@3.8.1%gcc@11.3.0~r build_system=generic arch=linux-ubuntu22.04-x86_64_v2/544esfp +## + + +module-whatis " Genome Analysis Toolkit Variant Discovery in High-Throughput Sequencing Data " + +proc ModulesHelp { } { + puts stderr "Name : gatk" + puts stderr "Version: 3.8.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr " Genome Analysis Toolkit Variant Discovery in High-Throughput Sequencing" + puts stderr "Data" +} + +module load openjdk-11.0.17_8-gcc-11.3.0-oucx2ae + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gatk-3.8.1-544esfp74ayaibyakmjti5qarui3xldd/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gatk-3.8.1-544esfp74ayaibyakmjti5qarui3xldd/." +prepend-path --delim ":" GATK "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gatk-3.8.1-544esfp74ayaibyakmjti5qarui3xldd/bin/GenomeAnalysisTK.jar" + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/gatk-4.2.6.1-gcc-11.3.0-c265aqt b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/gatk-4.2.6.1-gcc-11.3.0-c265aqt new file mode 100644 index 00000000..f06f2843 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/gatk-4.2.6.1-gcc-11.3.0-c265aqt @@ -0,0 +1,25 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:04.837174 +## +## gatk@4.2.6.1%gcc@11.3.0~r build_system=generic arch=linux-ubuntu22.04-x86_64_v2/c265aqt +## + + +module-whatis " Genome Analysis Toolkit Variant Discovery in High-Throughput Sequencing Data " + +proc ModulesHelp { } { + puts stderr "Name : gatk" + puts stderr "Version: 4.2.6.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr " Genome Analysis Toolkit Variant Discovery in High-Throughput Sequencing" + puts stderr "Data" +} + +module load openjdk-11.0.17_8-gcc-11.3.0-oucx2ae +module load python-3.10.10-gcc-11.3.0-flhvzx3 + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gatk-4.2.6.1-c265aqtzukro5toirobip3ss2ttp3yt2/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gatk-4.2.6.1-c265aqtzukro5toirobip3ss2ttp3yt2/." +prepend-path --delim ":" GATK "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gatk-4.2.6.1-c265aqtzukro5toirobip3ss2ttp3yt2/bin/GenomeAnalysisTK.jar" + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0-gcc-11.3.0-oanvzrm b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0-gcc-11.3.0-oanvzrm new file mode 100644 index 00000000..1b1b6fde --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0-gcc-11.3.0-oanvzrm @@ -0,0 +1,26 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 12:06:03.398745 +## +## gcc@11.3.0%gcc@11.3.0~binutils+bootstrap~graphite~nvptx~piclibs~profiled~strip build_system=autotools build_type=RelWithDebInfo languages=c,c++,fortran arch=linux-ubuntu22.04-x86_64_v2/oanvzrm +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis "The GNU Compiler Collection includes front ends for C, C++, Objective-C, Fortran, Ada, and Go, as well as libraries for these languages." + +proc ModulesHelp { } { + puts stderr "Name : gcc" + puts stderr "Version: 11.3.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "The GNU Compiler Collection includes front ends for C, C++, Objective-C," + puts stderr "Fortran, Ada, and Go, as well as libraries for these languages." +} + + +prepend-path --delim ":" MANPATH "/usr/share/man" +prepend-path --delim ":" ACLOCAL_PATH "/usr/share/aclocal" +prepend-path --delim ":" PKG_CONFIG_PATH "/usr/lib/pkgconfig" +prepend-path --delim ":" PKG_CONFIG_PATH "/usr/share/pkgconfig" + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/gcc-9.5.0-gcc-11.3.0-g6h5z5i b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/gcc-9.5.0-gcc-11.3.0-g6h5z5i new file mode 100644 index 00000000..60f6e936 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/gcc-9.5.0-gcc-11.3.0-g6h5z5i @@ -0,0 +1,26 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 12:06:03.371913 +## +## gcc@9.5.0%gcc@11.3.0~binutils+bootstrap~graphite~nvptx~piclibs~profiled~strip build_system=autotools build_type=RelWithDebInfo languages=c,c++,fortran arch=linux-ubuntu22.04-x86_64_v2/g6h5z5i +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis "The GNU Compiler Collection includes front ends for C, C++, Objective-C, Fortran, Ada, and Go, as well as libraries for these languages." + +proc ModulesHelp { } { + puts stderr "Name : gcc" + puts stderr "Version: 9.5.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "The GNU Compiler Collection includes front ends for C, C++, Objective-C," + puts stderr "Fortran, Ada, and Go, as well as libraries for these languages." +} + + +prepend-path --delim ":" MANPATH "/usr/share/man" +prepend-path --delim ":" ACLOCAL_PATH "/usr/share/aclocal" +prepend-path --delim ":" PKG_CONFIG_PATH "/usr/lib/pkgconfig" +prepend-path --delim ":" PKG_CONFIG_PATH "/usr/share/pkgconfig" + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/geant4-11.1.1-gcc-11.3.0-oxvl3k7 b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/geant4-11.1.1-gcc-11.3.0-oxvl3k7 new file mode 100644 index 00000000..dbbc8726 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/geant4-11.1.1-gcc-11.3.0-oxvl3k7 @@ -0,0 +1,43 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:03.473939 +## +## geant4@11.1.1%gcc@11.3.0~ipo~motif~opengl~qt~tbb+threads~vecgeom~vtk~x11 build_system=cmake build_type=Release cxxstd=17 generator=make arch=linux-ubuntu22.04-x86_64_v2/oxvl3k7 +## +## Configure options: -DGEANT4_USE_SYSTEM_CLHEP:BOOL=ON -DGEANT4_USE_SYSTEM_EXPAT:BOOL=ON -DGEANT4_USE_SYSTEM_ZLIB:BOOL=ON -DGEANT4_USE_G3TOG4:BOOL=ON -DGEANT4_USE_GDML:BOOL=ON -DXERCESC_ROOT_DIR:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/xerces-c-3.2.4-ld55z644l2ocg2d6z3maohyqv3dae7f4 -DCMAKE_CXX_STANDARD:STRING=17 -DGEANT4_INSTALL_PACKAGE_CACHE:BOOL=ON -DGEANT4_BUILD_MULTITHREADED:BOOL=ON -DGEANT4_USE_TBB:BOOL=OFF -DGEANT4_BUILD_TLS_MODEL=global-dynamic -DGEANT4_INSTALL_DATA:BOOL=OFF -DGEANT4_INSTALL_DATADIR:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/geant4-data-11.1.0-7xya7o6qpr37gpkw5lkuq4xky7sxb5de/share/geant4-data-11.1.0 -DGEANT4_USE_VTK:BOOL=OFF +## + + +module-whatis "Geant4 is a toolkit for the simulation of the passage of particles through matter. Its areas of application include high energy, nuclear and accelerator physics, as well as studies in medical and space science." + +proc ModulesHelp { } { + puts stderr "Name : geant4" + puts stderr "Version: 11.1.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Geant4 is a toolkit for the simulation of the passage of particles" + puts stderr "through matter. Its areas of application include high energy, nuclear" + puts stderr "and accelerator physics, as well as studies in medical and space" + puts stderr "science." +} + +module load clhep-2.4.6.4-gcc-11.3.0-fidk7nw +module load expat-2.5.0-gcc-11.3.0-lzi4kj7 +module load geant4-data-11.1.0-gcc-11.3.0-7xya7o6 +module load xerces-c-3.2.4-gcc-11.3.0-ld55z64 +module load zlib-1.2.13-gcc-11.3.0-77qi6rv + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/geant4-11.1.1-oxvl3k7kczzb6gognppc6ibrpwxs2xyx/bin" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/geant4-11.1.1-oxvl3k7kczzb6gognppc6ibrpwxs2xyx/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/geant4-11.1.1-oxvl3k7kczzb6gognppc6ibrpwxs2xyx/." +setenv G4ABLADATA "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/g4abla-3.1-76evgfjmdjg5wxuktnmb4l2ut2shjviu/share/data/G4ABLA3.1" +setenv G4LEDATA "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/g4emlow-8.2-5owg2sowgwbqvmvkzlqsasctmjifxgq2/share/data/G4EMLOW8.2" +setenv G4ENSDFSTATEDATA "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/g4ensdfstate-2.3-uyjpnuwpwo5gtyz2rsmsz3fy2r5p5u3e/share/data/G4ENSDFSTATE2.3" +setenv G4INCLDATA "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/g4incl-1.0-go7yhdn6sawd4ztenjv3rycgcgjvcmxj/share/data/G4INCL1.0" +setenv G4NEUTRONHPDATA "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/g4ndl-4.7-d76o3uprt2giidbnadaiojzowmybvprp/share/data/G4NDL4.7" +setenv G4PARTICLEXSDATA "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/g4particlexs-4.0-varor6eytegofrgtbdkzs4sl3y5xvtru/share/data/G4PARTICLEXS4.0" +setenv G4LEVELGAMMADATA "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/g4photonevaporation-5.7-sjlvtjswfiuioclexxsdp4yfzlz5sgs2/share/data/PhotonEvaporation5.7" +setenv G4PIIDATA "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/g4pii-1.3-btjrfgnntjpiiy4zzt5fpxucbv2v6a2n/share/data/G4PII1.3" +setenv G4RADIOACTIVEDATA "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/g4radioactivedecay-5.6-ftehg7meig5lfndsygedwztejwk36hh7/share/data/RadioactiveDecay5.6" +setenv G4REALSURFACEDATA "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/g4realsurface-2.2-clx3bkbr5e4yyp6jpp7pwgw6kldiw6wc/share/data/RealSurface2.2" +setenv G4SAIDXSDATA "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/g4saiddata-2.0-w2fo7plcht7b2vyakhtagtqeacgpozs7/share/data/G4SAIDDATA2.0" + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/gemma-0.98.5-gcc-11.3.0-s2mfomt b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/gemma-0.98.5-gcc-11.3.0-s2mfomt new file mode 100644 index 00000000..13457252 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/gemma-0.98.5-gcc-11.3.0-s2mfomt @@ -0,0 +1,26 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:37.226128 +## +## gemma@0.98.5%gcc@11.3.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v2/s2mfomt +## + + +module-whatis "GEMMA is a software toolkit for fast application of linear mixed models (LMMs) and related models to genome-wide association studies (GWAS) and other large-scale data sets." + +proc ModulesHelp { } { + puts stderr "Name : gemma" + puts stderr "Version: 0.98.5" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "GEMMA is a software toolkit for fast application of linear mixed models" + puts stderr "(LMMs) and related models to genome-wide association studies (GWAS) and" + puts stderr "other large-scale data sets." +} + +module load gsl-2.7.1-gcc-11.3.0-7z5dz5c +module load openblas-0.3.23-gcc-11.3.0-s3rmti6 +module load zlib-1.2.13-gcc-11.3.0-lu7f4vc + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gemma-0.98.5-s2mfomtsa25rye4hlt3dbpwmuzztj6ol/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gemma-0.98.5-s2mfomtsa25rye4hlt3dbpwmuzztj6ol/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/genometools-1.6.2-gcc-11.3.0-k67f47b b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/genometools-1.6.2-gcc-11.3.0-k67f47b new file mode 100644 index 00000000..eb66e2b1 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/genometools-1.6.2-gcc-11.3.0-k67f47b @@ -0,0 +1,32 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:04.879419 +## +## genometools@1.6.2%gcc@11.3.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v2/k67f47b +## + + +module-whatis "genometools is a free collection of bioinformatics tools (in the realm of genome informatics) combined into a single binary named gt." + +proc ModulesHelp { } { + puts stderr "Name : genometools" + puts stderr "Version: 1.6.2" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "genometools is a free collection of bioinformatics tools (in the realm" + puts stderr "of genome informatics) combined into a single binary named gt." +} + +module load cairo-1.16.0-gcc-11.3.0-62eb56m +module load pango-1.50.13-gcc-11.3.0-dgfrigc +module load perl-5.36.0-gcc-11.3.0-65ysuw5 + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/genometools-1.6.2-k67f47buajepecntawrzxdji6otzk7zz/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/genometools-1.6.2-k67f47buajepecntawrzxdji6otzk7zz/." +prepend-path --delim ":" XLOCALEDIR "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libx11-1.8.4-rx4ruu6iblxc6tsoulpncimn5jrtpnly/share/X11/locale" +prepend-path --delim ":" XDG_DATA_DIRS "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gobject-introspection-1.72.1-3l7imrgr56ycxzde2m6ml5lz3rgpv4pw/share" +prepend-path --delim ":" GI_TYPELIB_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gobject-introspection-1.72.1-3l7imrgr56ycxzde2m6ml5lz3rgpv4pw/lib/girepository-1.0" +prepend-path --delim ":" XDG_DATA_DIRS "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/harfbuzz-5.3.1-hmxveerptbtr3d5omsa3x3nwyhvu6bps/share" +prepend-path --delim ":" GI_TYPELIB_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/harfbuzz-5.3.1-hmxveerptbtr3d5omsa3x3nwyhvu6bps/lib/girepository-1.0" +prepend-path --delim ":" XDG_DATA_DIRS "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/pango-1.50.13-dgfrigcbjtwemykr5gkmciwoatox5olx/share" +prepend-path --delim ":" GI_TYPELIB_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/pango-1.50.13-dgfrigcbjtwemykr5gkmciwoatox5olx/lib/girepository-1.0" + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/gmt-6.2.0-gcc-11.3.0-i6anvgk b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/gmt-6.2.0-gcc-11.3.0-i6anvgk new file mode 100644 index 00000000..9af18bbb --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/gmt-6.2.0-gcc-11.3.0-i6anvgk @@ -0,0 +1,28 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:03.568421 +## +## gmt@6.2.0%gcc@11.3.0~blas~docs~ffmpeg~fftw~gdal~ghostscript~glib~graphicsmagick~lapack~pcre build_system=generic arch=linux-ubuntu22.04-x86_64_v2/i6anvgk +## + + +module-whatis "GMT (Generic Mapping Tools) is an open source collection of about 80 command-line tools for manipulating geographic and Cartesian data sets (including filtering, trend fitting, gridding, projecting, etc.) and producing PostScript illustrations ranging from simple x-y plots via contour maps to artificially illuminated surfaces and 3D perspective views. " + +proc ModulesHelp { } { + puts stderr "Name : gmt" + puts stderr "Version: 6.2.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "GMT (Generic Mapping Tools) is an open source collection of about 80" + puts stderr "command-line tools for manipulating geographic and Cartesian data sets" + puts stderr "(including filtering, trend fitting, gridding, projecting, etc.) and" + puts stderr "producing PostScript illustrations ranging from simple x-y plots via" + puts stderr "contour maps to artificially illuminated surfaces and 3D perspective" + puts stderr "views." +} + +module load curl-8.0.1-gcc-11.3.0-lgk3gn3 +module load netcdf-c-4.9.2-gcc-11.3.0-mc64qxq + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gmt-6.2.0-i6anvgk73qwur3foqisftq6nvjjn46ro/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gmt-6.2.0-i6anvgk73qwur3foqisftq6nvjjn46ro/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/gromacs-2019.6-gcc-11.3.0-33ctcbi b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/gromacs-2019.6-gcc-11.3.0-33ctcbi new file mode 100644 index 00000000..f3bb91a7 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/gromacs-2019.6-gcc-11.3.0-33ctcbi @@ -0,0 +1,34 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:03.609193 +## +## gromacs@2019.6%gcc@11.3.0~blas~cp2k~cuda~cycle_subcounters~double+hwloc~ipo~lapack~mdrun_only+mpi~nosuffix~opencl+openmp~plumed~relaxed_double_precision+shared~sycl build_system=cmake build_type=Release generator=make openmp_max_threads=none arch=linux-ubuntu22.04-x86_64_v2/33ctcbi +## + + +module-whatis "GROMACS is a molecular dynamics package primarily designed for simulations of proteins, lipids and nucleic acids. It was originally developed in the Biophysical Chemistry department of University of Groningen, and is now maintained by contributors in universities and research centers across the world." + +proc ModulesHelp { } { + puts stderr "Name : gromacs" + puts stderr "Version: 2019.6" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "GROMACS is a molecular dynamics package primarily designed for" + puts stderr "simulations of proteins, lipids and nucleic acids. It was originally" + puts stderr "developed in the Biophysical Chemistry department of University of" + puts stderr "Groningen, and is now maintained by contributors in universities and" + puts stderr "research centers across the world. GROMACS is one of the fastest and" + puts stderr "most popular software packages available and can run on CPUs as well as" + puts stderr "GPUs. It is free, open source released under the GNU Lesser General" + puts stderr "Public License. Before the version 4.6, GROMACS was released under the" + puts stderr "GNU General Public License." +} + +module load fftw-3.3.10-gcc-11.3.0-pr4hd22 +module load hwloc-2.9.0-gcc-11.3.0-jh42wxu +module load openmpi-4.1.5-gcc-11.3.0-63v4xd2 + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gromacs-2019.6-33ctcbirxrq7c2uhy6s3z6y6sqy4mckw/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gromacs-2019.6-33ctcbirxrq7c2uhy6s3z6y6sqy4mckw/share/man" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gromacs-2019.6-33ctcbirxrq7c2uhy6s3z6y6sqy4mckw/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gromacs-2019.6-33ctcbirxrq7c2uhy6s3z6y6sqy4mckw/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/hdf5-1.14.1-2-gcc-11.3.0-u5qx6lj b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/hdf5-1.14.1-2-gcc-11.3.0-u5qx6lj new file mode 100644 index 00000000..c5fac817 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/hdf5-1.14.1-2-gcc-11.3.0-u5qx6lj @@ -0,0 +1,29 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:37.373216 +## +## hdf5@1.14.1-2%gcc@11.3.0~cxx+fortran+hl~ipo~java~map+mpi+shared~szip+threadsafe+tools api=default build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v2/u5qx6lj +## +## Configure options: -DALLOW_UNSUPPORTED:BOOL=ON -DHDF5_BUILD_EXAMPLES:BOOL=OFF -DBUILD_TESTING:BOOL=OFF -DHDF5_ENABLE_MAP_API:BOOL=OFF -DHDF5_ENABLE_Z_LIB_SUPPORT:BOOL=ON -DHDF5_ENABLE_SZIP_SUPPORT:BOOL=OFF -DHDF5_ENABLE_SZIP_ENCODING:BOOL=OFF -DBUILD_SHARED_LIBS:BOOL=ON -DONLY_SHARED_LIBS:BOOL=OFF -DHDF5_ENABLE_PARALLEL:BOOL=ON -DHDF5_ENABLE_THREADSAFE:BOOL=ON -DHDF5_BUILD_HL_LIB:BOOL=ON -DHDF5_BUILD_CPP_LIB:BOOL=OFF -DHDF5_BUILD_FORTRAN:BOOL=ON -DHDF5_BUILD_JAVA:BOOL=OFF -DHDF5_BUILD_TOOLS:BOOL=ON -DMPI_CXX_COMPILER:PATH=/share/apps/22.04/manual/openmpi/4.1.5/bin/mpic++ -DMPI_C_COMPILER:PATH=/share/apps/22.04/manual/openmpi/4.1.5/bin/mpicc -DMPI_Fortran_COMPILER:PATH=/share/apps/22.04/manual/openmpi/4.1.5/bin/mpif90 +## + + +module-whatis "HDF5 is a data model, library, and file format for storing and managing data. It supports an unlimited variety of datatypes, and is designed for flexible and efficient I/O and for high volume and complex data. " + +proc ModulesHelp { } { + puts stderr "Name : hdf5" + puts stderr "Version: 1.14.1-2" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "HDF5 is a data model, library, and file format for storing and managing" + puts stderr "data. It supports an unlimited variety of datatypes, and is designed for" + puts stderr "flexible and efficient I/O and for high volume and complex data." +} + +module load openmpi-4.1.5-gcc-11.3.0-63v4xd2 +module load pkgconf-1.9.5-gcc-11.3.0-ccjkwsb +module load zlib-1.2.13-gcc-11.3.0-lu7f4vc + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/hdf5-1.14.1-2-u5qx6ljrxxsycnh5dwbhiqkoga2l6gpv/bin" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/hdf5-1.14.1-2-u5qx6ljrxxsycnh5dwbhiqkoga2l6gpv/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/hdf5-1.14.1-2-u5qx6ljrxxsycnh5dwbhiqkoga2l6gpv/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/hisat2-2.2.1-gcc-11.3.0-k36ywa2 b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/hisat2-2.2.1-gcc-11.3.0-k36ywa2 new file mode 100644 index 00000000..00123495 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/hisat2-2.2.1-gcc-11.3.0-k36ywa2 @@ -0,0 +1,26 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:37.428575 +## +## hisat2@2.2.1%gcc@11.3.0~sra build_system=makefile arch=linux-ubuntu22.04-x86_64_v2/k36ywa2 +## + + +module-whatis "HISAT2 is a fast and sensitive alignment program for mapping next-generation sequencing reads (whole-genome, transcriptome, and exome sequencing data) against the general human population (as well as against a single reference genome)." + +proc ModulesHelp { } { + puts stderr "Name : hisat2" + puts stderr "Version: 2.2.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "HISAT2 is a fast and sensitive alignment program for mapping next-" + puts stderr "generation sequencing reads (whole-genome, transcriptome, and exome" + puts stderr "sequencing data) against the general human population (as well as" + puts stderr "against a single reference genome)." +} + +module load perl-5.36.0-gcc-11.3.0-a36qqup +module load python-3.10.10-gcc-11.3.0-dstxvfi + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/hisat2-2.2.1-k36ywa2hl5ttofp2atrdo6ubki62tj5w/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/hisat2-2.2.1-k36ywa2hl5ttofp2atrdo6ubki62tj5w/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/homer-4.11.1-gcc-11.3.0-25kn7tx b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/homer-4.11.1-gcc-11.3.0-25kn7tx new file mode 100644 index 00000000..22c19a02 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/homer-4.11.1-gcc-11.3.0-25kn7tx @@ -0,0 +1,27 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:05.099970 +## +## homer@4.11.1%gcc@11.3.0~data build_system=generic arch=linux-ubuntu22.04-x86_64_v2/25kn7tx +## + + +module-whatis "Software for motif discovery and next generation sequencing analysis" + +proc ModulesHelp { } { + puts stderr "Name : homer" + puts stderr "Version: 4.11.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Software for motif discovery and next generation sequencing analysis" +} + +module load perl-5.36.0-gcc-11.3.0-rp6rwls +module load r-biocgenerics-0.44.0-gcc-11.3.0-i5rz47c +module load r-biocparallel-1.32.1-gcc-11.3.0-rtlrvzb +module load r-deseq2-1.38.0-gcc-11.3.0-pecwm2u +module load r-edger-3.40.0-gcc-11.3.0-uadqghe + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/homer-4.11.1-25kn7tx7uvf7oslkuycuqn7hvivoc2s3/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/homer-4.11.1-25kn7tx7uvf7oslkuycuqn7hvivoc2s3/." +setenv R_HOME "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/r-4.2.2-u4eerkm4ii7fyrdixtwbcwhzerobevmw/rlib/R" + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/hypre-2.28.0-gcc-11.3.0-mglwyci b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/hypre-2.28.0-gcc-11.3.0-mglwyci new file mode 100644 index 00000000..bd4c3389 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/hypre-2.28.0-gcc-11.3.0-mglwyci @@ -0,0 +1,26 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 12:22:43.813699 +## +## hypre@2.28.0%gcc@11.3.0~complex~cuda~debug+fortran~gptune~int64~internal-superlu~mixedint+mpi~openmp~rocm+shared~superlu-dist~sycl~umpire~unified-memory build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/mglwyci +## +## Configure options: --prefix=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/hypre-2.28.0-mglwyci2rzcegnqtmijckltpp42octc4 --with-lapack-libs=mkl_intel_lp64 mkl_sequential mkl_core m --with-lapack-lib-dirs=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-mkl-2022.2.1-wtu2kcp2bxbjcjjxa3ohkjn3wg76hvs3/mkl/2022.2.1/lib/intel64 /lib/x86_64-linux-gnu --with-blas-libs=mkl_intel_lp64 mkl_sequential mkl_core m --with-blas-lib-dirs=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-mkl-2022.2.1-wtu2kcp2bxbjcjjxa3ohkjn3wg76hvs3/mkl/2022.2.1/lib/intel64 /lib/x86_64-linux-gnu --with-MPI --with-MPI-lib-dirs=/share/apps/22.04/manual/openmpi/4.1.5/lib --with-MPI-include=/share/apps/22.04/manual/openmpi/4.1.5/include --without-openmp --disable-bigint --disable-mixedint --disable-complex --enable-shared --without-superlu --without-mli --without-fei --disable-debug --without-cuda --disable-curand --disable-cusparse --without-hip --disable-rocrand --disable-rocsparse --enable-fortran +## + + +module-whatis "Hypre is a library of high performance preconditioners that features parallel multigrid methods for both structured and unstructured grid problems." + +proc ModulesHelp { } { + puts stderr "Name : hypre" + puts stderr "Version: 2.28.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Hypre is a library of high performance preconditioners that features" + puts stderr "parallel multigrid methods for both structured and unstructured grid" + puts stderr "problems." +} + +module load intel-oneapi-mkl-2022.2.1-gcc-11.3.0-wtu2kcp +module load openmpi-4.1.5-gcc-11.3.0-63v4xd2 + +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/hypre-2.28.0-mglwyci2rzcegnqtmijckltpp42octc4/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/hypre-2.28.0-gcc-11.3.0-vjyyh6v b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/hypre-2.28.0-gcc-11.3.0-vjyyh6v new file mode 100644 index 00000000..633194e1 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/hypre-2.28.0-gcc-11.3.0-vjyyh6v @@ -0,0 +1,26 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:37.478447 +## +## hypre@2.28.0%gcc@11.3.0~complex~cuda~debug+fortran~gptune~int64~internal-superlu~mixedint+mpi~openmp~rocm+shared~superlu-dist~sycl~umpire~unified-memory build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/vjyyh6v +## +## Configure options: --prefix=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/hypre-2.28.0-vjyyh6vowici43rmxwstq4twintin74r --with-lapack-libs=openblas --with-lapack-lib-dirs=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openblas-0.3.23-s3rmti6rm3n2dw7sgyaaswn6usynmw5z/lib --with-blas-libs=openblas --with-blas-lib-dirs=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openblas-0.3.23-s3rmti6rm3n2dw7sgyaaswn6usynmw5z/lib --with-MPI --with-MPI-lib-dirs=/share/apps/22.04/manual/openmpi/4.1.5/lib --with-MPI-include=/share/apps/22.04/manual/openmpi/4.1.5/include --without-openmp --disable-bigint --disable-mixedint --disable-complex --enable-shared --without-superlu --without-mli --without-fei --disable-debug --without-cuda --disable-curand --disable-cusparse --without-hip --disable-rocrand --disable-rocsparse --enable-fortran +## + + +module-whatis "Hypre is a library of high performance preconditioners that features parallel multigrid methods for both structured and unstructured grid problems." + +proc ModulesHelp { } { + puts stderr "Name : hypre" + puts stderr "Version: 2.28.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Hypre is a library of high performance preconditioners that features" + puts stderr "parallel multigrid methods for both structured and unstructured grid" + puts stderr "problems." +} + +module load openblas-0.3.23-gcc-11.3.0-s3rmti6 +module load openmpi-4.1.5-gcc-11.3.0-63v4xd2 + +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/hypre-2.28.0-vjyyh6vowici43rmxwstq4twintin74r/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/igv-2.12.3-gcc-11.3.0-flms2lt b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/igv-2.12.3-gcc-11.3.0-flms2lt new file mode 100644 index 00000000..8254f396 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/igv-2.12.3-gcc-11.3.0-flms2lt @@ -0,0 +1,25 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:05.588917 +## +## igv@2.12.3%gcc@11.3.0~igvtools build_system=generic arch=linux-ubuntu22.04-x86_64_v2/flms2lt +## + + +module-whatis "The Integrative Genomics Viewer (IGV) is a high-performance visualization tool for interactive exploration of large, integrated genomic datasets. It supports a wide variety of data types, including array-based and next-generation sequence data, and genomic annotations." + +proc ModulesHelp { } { + puts stderr "Name : igv" + puts stderr "Version: 2.12.3" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "The Integrative Genomics Viewer (IGV) is a high-performance" + puts stderr "visualization tool for interactive exploration of large, integrated" + puts stderr "genomic datasets. It supports a wide variety of data types, including" + puts stderr "array-based and next-generation sequence data, and genomic annotations." +} + +module load openjdk-11.0.17_8-gcc-11.3.0-oucx2ae + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/igv-2.12.3-flms2ltmeu4dtqkzqt3k3wxlxmkndykn/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/igv-2.12.3-flms2ltmeu4dtqkzqt3k3wxlxmkndykn/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/iq-tree-2.1.3-gcc-11.3.0-thvxgk7 b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/iq-tree-2.1.3-gcc-11.3.0-thvxgk7 new file mode 100644 index 00000000..41b70bc1 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/iq-tree-2.1.3-gcc-11.3.0-thvxgk7 @@ -0,0 +1,26 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:05.610106 +## +## iq-tree@2.1.3%gcc@11.3.0~ipo+lsd2~mpi+openmp build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v2/thvxgk7 +## +## Configure options: -DUSE_LSD2=ON -DIQTREE_FLAGS=omp +## + + +module-whatis "IQ-TREE Efficient software for phylogenomic inference" + +proc ModulesHelp { } { + puts stderr "Name : iq-tree" + puts stderr "Version: 2.1.3" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "IQ-TREE Efficient software for phylogenomic inference" +} + +module load boost-1.82.0-gcc-11.3.0-pms63ue +module load eigen-3.4.0-gcc-11.3.0-byn7gmg +module load zlib-1.2.13-gcc-11.3.0-77qi6rv + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/iq-tree-2.1.3-thvxgk7gve4una3zysxykxbl4qtkdget/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/iq-tree-2.1.3-thvxgk7gve4una3zysxykxbl4qtkdget/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/iq-tree-2.1.3-gcc-11.3.0-vuzq4k7 b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/iq-tree-2.1.3-gcc-11.3.0-vuzq4k7 new file mode 100644 index 00000000..3e4aabc1 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/iq-tree-2.1.3-gcc-11.3.0-vuzq4k7 @@ -0,0 +1,26 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:37.704630 +## +## iq-tree@2.1.3%gcc@11.3.0~ipo+lsd2~mpi+openmp build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v2/vuzq4k7 +## +## Configure options: -DUSE_LSD2=ON -DIQTREE_FLAGS=omp +## + + +module-whatis "IQ-TREE Efficient software for phylogenomic inference" + +proc ModulesHelp { } { + puts stderr "Name : iq-tree" + puts stderr "Version: 2.1.3" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "IQ-TREE Efficient software for phylogenomic inference" +} + +module load boost-1.79.0-gcc-11.3.0-zfgjt4m +module load eigen-3.4.0-gcc-11.3.0-eseowcc +module load zlib-1.2.13-gcc-11.3.0-lu7f4vc + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/iq-tree-2.1.3-vuzq4k7rmxb6j5adlp5pmdohmijnlj2j/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/iq-tree-2.1.3-vuzq4k7rmxb6j5adlp5pmdohmijnlj2j/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/iqtree2-2.1.2-gcc-11.3.0-paorgn6 b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/iqtree2-2.1.2-gcc-11.3.0-paorgn6 new file mode 100644 index 00000000..bb5226e5 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/iqtree2-2.1.2-gcc-11.3.0-paorgn6 @@ -0,0 +1,24 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:37.771590 +## +## iqtree2@2.1.2%gcc@11.3.0~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v2/paorgn6 +## + + +module-whatis "Efficient and versatile phylogenomic software by maximum likelihood" + +proc ModulesHelp { } { + puts stderr "Name : iqtree2" + puts stderr "Version: 2.1.2" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Efficient and versatile phylogenomic software by maximum likelihood" +} + +module load boost-1.79.0-gcc-11.3.0-zfgjt4m +module load eigen-3.4.0-gcc-11.3.0-eseowcc +module load zlib-1.2.13-gcc-11.3.0-lu7f4vc + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/iqtree2-2.1.2-paorgn6bzqhgf76mutmu2kj5xucux5id/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/iqtree2-2.1.2-paorgn6bzqhgf76mutmu2kj5xucux5id/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/iqtree2-2.1.2-gcc-11.3.0-tel6cgi b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/iqtree2-2.1.2-gcc-11.3.0-tel6cgi new file mode 100644 index 00000000..0caaa7c9 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/iqtree2-2.1.2-gcc-11.3.0-tel6cgi @@ -0,0 +1,24 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:05.641842 +## +## iqtree2@2.1.2%gcc@11.3.0~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v2/tel6cgi +## + + +module-whatis "Efficient and versatile phylogenomic software by maximum likelihood" + +proc ModulesHelp { } { + puts stderr "Name : iqtree2" + puts stderr "Version: 2.1.2" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Efficient and versatile phylogenomic software by maximum likelihood" +} + +module load boost-1.82.0-gcc-11.3.0-wgxpvwq +module load eigen-3.4.0-gcc-11.3.0-eseowcc +module load zlib-1.2.13-gcc-11.3.0-77qi6rv + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/iqtree2-2.1.2-tel6cginrj34sthoepr3vhlecpubuk27/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/iqtree2-2.1.2-tel6cginrj34sthoepr3vhlecpubuk27/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/jags-4.3.0-gcc-11.3.0-sqtivh7 b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/jags-4.3.0-gcc-11.3.0-sqtivh7 new file mode 100644 index 00000000..522c7758 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/jags-4.3.0-gcc-11.3.0-sqtivh7 @@ -0,0 +1,28 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:37.833025 +## +## jags@4.3.0%gcc@11.3.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/sqtivh7 +## +## Configure options: --with-blas=-L/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openblas-0.3.23-s3rmti6rm3n2dw7sgyaaswn6usynmw5z/lib -lopenblas --with-lapack=-L/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openblas-0.3.23-s3rmti6rm3n2dw7sgyaaswn6usynmw5z/lib -lopenblas +## + + +module-whatis "JAGS is Just Another Gibbs Sampler. It is a program for analysis of Bayesian hierarchical models using Markov Chain Monte Carlo (MCMC) simulation not wholly unlike BUGS" + +proc ModulesHelp { } { + puts stderr "Name : jags" + puts stderr "Version: 4.3.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "JAGS is Just Another Gibbs Sampler. It is a program for analysis of" + puts stderr "Bayesian hierarchical models using Markov Chain Monte Carlo (MCMC)" + puts stderr "simulation not wholly unlike BUGS" +} + +module load openblas-0.3.23-gcc-11.3.0-s3rmti6 + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/jags-4.3.0-sqtivh7obkixfbvorjqse7cyzotxgrxj/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/jags-4.3.0-sqtivh7obkixfbvorjqse7cyzotxgrxj/share/man" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/jags-4.3.0-sqtivh7obkixfbvorjqse7cyzotxgrxj/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/jags-4.3.0-sqtivh7obkixfbvorjqse7cyzotxgrxj/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/jags-4.3.0-gcc-11.3.0-sre7nwa b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/jags-4.3.0-gcc-11.3.0-sre7nwa new file mode 100644 index 00000000..b2c9cbc9 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/jags-4.3.0-gcc-11.3.0-sre7nwa @@ -0,0 +1,28 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:03.654056 +## +## jags@4.3.0%gcc@11.3.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/sre7nwa +## +## Configure options: --with-blas=-L/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openblas-0.3.23-hjvgpb5hmku762lpowdlqs4qoxmmizv3/lib -lopenblas --with-lapack=-L/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openblas-0.3.23-hjvgpb5hmku762lpowdlqs4qoxmmizv3/lib -lopenblas +## + + +module-whatis "JAGS is Just Another Gibbs Sampler. It is a program for analysis of Bayesian hierarchical models using Markov Chain Monte Carlo (MCMC) simulation not wholly unlike BUGS" + +proc ModulesHelp { } { + puts stderr "Name : jags" + puts stderr "Version: 4.3.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "JAGS is Just Another Gibbs Sampler. It is a program for analysis of" + puts stderr "Bayesian hierarchical models using Markov Chain Monte Carlo (MCMC)" + puts stderr "simulation not wholly unlike BUGS" +} + +module load openblas-0.3.23-gcc-11.3.0-hjvgpb5 + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/jags-4.3.0-sre7nwat3chvseucugqlih2wifnrv4pt/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/jags-4.3.0-sre7nwat3chvseucugqlih2wifnrv4pt/share/man" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/jags-4.3.0-sre7nwat3chvseucugqlih2wifnrv4pt/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/jags-4.3.0-sre7nwat3chvseucugqlih2wifnrv4pt/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/kalign-3.3.1-gcc-11.3.0-mfbceke b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/kalign-3.3.1-gcc-11.3.0-mfbceke new file mode 100644 index 00000000..17564fdf --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/kalign-3.3.1-gcc-11.3.0-mfbceke @@ -0,0 +1,21 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:05.684351 +## +## kalign@3.3.1%gcc@11.3.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/mfbceke +## + + +module-whatis "A fast multiple sequence alignment program for biological sequences." + +proc ModulesHelp { } { + puts stderr "Name : kalign" + puts stderr "Version: 3.3.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "A fast multiple sequence alignment program for biological sequences." +} + + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/kalign-3.3.1-mfbcekehwmha6nh4rgay3ghv55s2p4wf/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/kalign-3.3.1-mfbcekehwmha6nh4rgay3ghv55s2p4wf/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/kallisto-0.48.0-gcc-11.3.0-mqla763 b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/kallisto-0.48.0-gcc-11.3.0-mqla763 new file mode 100644 index 00000000..f99fc1a1 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/kallisto-0.48.0-gcc-11.3.0-mqla763 @@ -0,0 +1,23 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:37.910052 +## +## kallisto@0.48.0%gcc@11.3.0~hdf5~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v2/mqla763 +## + + +module-whatis "kallisto is a program for quantifying abundances of transcripts from RNA-Seq data." + +proc ModulesHelp { } { + puts stderr "Name : kallisto" + puts stderr "Version: 0.48.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "kallisto is a program for quantifying abundances of transcripts from" + puts stderr "RNA-Seq data." +} + +module load zlib-1.2.13-gcc-11.3.0-lu7f4vc + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/kallisto-0.48.0-mqla76377ncc62nl5i45ua7jqsj5mgwa/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/kallisto-0.48.0-mqla76377ncc62nl5i45ua7jqsj5mgwa/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/kmergenie-1.7051-gcc-11.3.0-wpm7fsl b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/kmergenie-1.7051-gcc-11.3.0-wpm7fsl new file mode 100644 index 00000000..164cb320 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/kmergenie-1.7051-gcc-11.3.0-wpm7fsl @@ -0,0 +1,27 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:05.707190 +## +## kmergenie@1.7051%gcc@11.3.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v2/wpm7fsl +## + + +module-whatis "KmerGenie estimates the best k-mer length for genome de novo assembly." + +proc ModulesHelp { } { + puts stderr "Name : kmergenie" + puts stderr "Version: 1.7051" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "KmerGenie estimates the best k-mer length for genome de novo assembly." +} + +module load py-setuptools-67.6.0-gcc-11.3.0-6zptasw +module load python-3.10.10-gcc-11.3.0-flhvzx3 +module load r-4.2.2-gcc-11.3.0-kfibfnb +module load zlib-1.2.13-gcc-11.3.0-77qi6rv + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/kmergenie-1.7051-wpm7fslnxrvrlrqps7jgnccsb7jdt5w7/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/kmergenie-1.7051-wpm7fslnxrvrlrqps7jgnccsb7jdt5w7/." +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-setuptools-67.6.0-6zptasw65hqd5nybxil3qyqli5tcvvrm/lib/python3.10/site-packages" +setenv R_HOME "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/r-4.2.2-kfibfnbb4qyeu67brykexwi56hldkrwy/rlib/R" + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/kraken-1.1.1-gcc-11.3.0-dpwtspn b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/kraken-1.1.1-gcc-11.3.0-dpwtspn new file mode 100644 index 00000000..ff171742 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/kraken-1.1.1-gcc-11.3.0-dpwtspn @@ -0,0 +1,23 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:37.957141 +## +## kraken@1.1.1%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/dpwtspn +## + + +module-whatis "Kraken is a system for assigning taxonomic labels to short DNA sequences, usually obtained through metagenomic studies." + +proc ModulesHelp { } { + puts stderr "Name : kraken" + puts stderr "Version: 1.1.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Kraken is a system for assigning taxonomic labels to short DNA" + puts stderr "sequences, usually obtained through metagenomic studies." +} + +module load perl-5.36.0-gcc-11.3.0-a36qqup + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/kraken-1.1.1-dpwtspnwjquhaqgr66oemu5s5vghh6df/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/kraken-1.1.1-dpwtspnwjquhaqgr66oemu5s5vghh6df/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/kraken-1.1.1-gcc-11.3.0-onlqqxd b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/kraken-1.1.1-gcc-11.3.0-onlqqxd new file mode 100644 index 00000000..311f302e --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/kraken-1.1.1-gcc-11.3.0-onlqqxd @@ -0,0 +1,23 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:05.746082 +## +## kraken@1.1.1%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/onlqqxd +## + + +module-whatis "Kraken is a system for assigning taxonomic labels to short DNA sequences, usually obtained through metagenomic studies." + +proc ModulesHelp { } { + puts stderr "Name : kraken" + puts stderr "Version: 1.1.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Kraken is a system for assigning taxonomic labels to short DNA" + puts stderr "sequences, usually obtained through metagenomic studies." +} + +module load perl-5.36.0-gcc-11.3.0-rp6rwls + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/kraken-1.1.1-onlqqxd4jindsqxmfajxx5aluc3qid35/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/kraken-1.1.1-onlqqxd4jindsqxmfajxx5aluc3qid35/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/kraken2-2.1.2-gcc-11.3.0-cakwhmo b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/kraken2-2.1.2-gcc-11.3.0-cakwhmo new file mode 100644 index 00000000..0f529de4 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/kraken2-2.1.2-gcc-11.3.0-cakwhmo @@ -0,0 +1,25 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:37.994332 +## +## kraken2@2.1.2%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/cakwhmo +## + + +module-whatis "Kraken2 is a system for assigning taxonomic labels to short DNA sequences, usually obtained through metagenomic studies." + +proc ModulesHelp { } { + puts stderr "Name : kraken2" + puts stderr "Version: 2.1.2" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Kraken2 is a system for assigning taxonomic labels to short DNA" + puts stderr "sequences, usually obtained through metagenomic studies." +} + +module load perl-5.36.0-gcc-11.3.0-a36qqup +module load rsync-3.2.7-gcc-11.3.0-qsf6srj +module load wget-1.21.3-gcc-11.3.0-zlyatg3 + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/kraken2-2.1.2-cakwhmog25xelfbx6itfpp6tetv2xpny/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/kraken2-2.1.2-cakwhmog25xelfbx6itfpp6tetv2xpny/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/kraken2-2.1.2-gcc-11.3.0-zsde2na b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/kraken2-2.1.2-gcc-11.3.0-zsde2na new file mode 100644 index 00000000..668e27e8 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/kraken2-2.1.2-gcc-11.3.0-zsde2na @@ -0,0 +1,25 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:05.768692 +## +## kraken2@2.1.2%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/zsde2na +## + + +module-whatis "Kraken2 is a system for assigning taxonomic labels to short DNA sequences, usually obtained through metagenomic studies." + +proc ModulesHelp { } { + puts stderr "Name : kraken2" + puts stderr "Version: 2.1.2" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Kraken2 is a system for assigning taxonomic labels to short DNA" + puts stderr "sequences, usually obtained through metagenomic studies." +} + +module load perl-5.36.0-gcc-11.3.0-rp6rwls +module load rsync-3.2.7-gcc-11.3.0-z5oo4fa +module load wget-1.21.3-gcc-11.3.0-h5leb7j + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/kraken2-2.1.2-zsde2narofbjtic76pvgarc74f7cau6z/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/kraken2-2.1.2-zsde2narofbjtic76pvgarc74f7cau6z/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/krakenuniq-0.7.3-gcc-11.3.0-kvmg6az b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/krakenuniq-0.7.3-gcc-11.3.0-kvmg6az new file mode 100644 index 00000000..a149ad8b --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/krakenuniq-0.7.3-gcc-11.3.0-kvmg6az @@ -0,0 +1,24 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:38.045113 +## +## krakenuniq@0.7.3%gcc@11.3.0~jellyfish build_system=generic arch=linux-ubuntu22.04-x86_64_v2/kvmg6az +## + + +module-whatis "Metagenomics classifier with unique k-mer counting for more specific results." + +proc ModulesHelp { } { + puts stderr "Name : krakenuniq" + puts stderr "Version: 0.7.3" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Metagenomics classifier with unique k-mer counting for more specific" + puts stderr "results." +} + +module load bzip2-1.0.8-gcc-11.3.0-dtsdvar +module load zlib-1.2.13-gcc-11.3.0-lu7f4vc + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/krakenuniq-0.7.3-kvmg6azzwvotfg4kjzynfgfoqudvvatm/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/krakenuniq-0.7.3-kvmg6azzwvotfg4kjzynfgfoqudvvatm/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/mash-2.3-gcc-11.3.0-q4kfx6j b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/mash-2.3-gcc-11.3.0-q4kfx6j new file mode 100644 index 00000000..72d7512e --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/mash-2.3-gcc-11.3.0-q4kfx6j @@ -0,0 +1,26 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:38.069697 +## +## mash@2.3%gcc@11.3.0 build_system=autotools patches=3e6d6ee arch=linux-ubuntu22.04-x86_64_v2/q4kfx6j +## +## Configure options: --with-capnp=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/capnproto-0.10.2-6xjkf2nknhqlok24wjzok76f5bnkao3m --with-gsl=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gsl-2.7.1-7z5dz5cle3byaeyf4uvq6x3biakagq2b +## + + +module-whatis " Fast genome and metagenome distance estimation using MinHash. " + +proc ModulesHelp { } { + puts stderr "Name : mash" + puts stderr "Version: 2.3" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr " Fast genome and metagenome distance estimation using MinHash." +} + +module load capnproto-0.10.2-gcc-11.3.0-6xjkf2n +module load gsl-2.7.1-gcc-11.3.0-7z5dz5c + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mash-2.3-q4kfx6jfvuqadnkxasd3dadqg56tnwbi/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mash-2.3-q4kfx6jfvuqadnkxasd3dadqg56tnwbi/share/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mash-2.3-q4kfx6jfvuqadnkxasd3dadqg56tnwbi/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/mash-2.3-gcc-11.3.0-wydsvan b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/mash-2.3-gcc-11.3.0-wydsvan new file mode 100644 index 00000000..ea6ac6d4 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/mash-2.3-gcc-11.3.0-wydsvan @@ -0,0 +1,26 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:05.827528 +## +## mash@2.3%gcc@11.3.0 build_system=autotools patches=3e6d6ee arch=linux-ubuntu22.04-x86_64_v2/wydsvan +## +## Configure options: --with-capnp=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/capnproto-0.10.2-p5mw2o42lwtf5viwh4oln2ixmfomdgmt --with-gsl=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gsl-2.7.1-7z5dz5cle3byaeyf4uvq6x3biakagq2b +## + + +module-whatis " Fast genome and metagenome distance estimation using MinHash. " + +proc ModulesHelp { } { + puts stderr "Name : mash" + puts stderr "Version: 2.3" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr " Fast genome and metagenome distance estimation using MinHash." +} + +module load capnproto-0.10.2-gcc-11.3.0-p5mw2o4 +module load gsl-2.7.1-gcc-11.3.0-7z5dz5c + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mash-2.3-wydsvanz2vae47ez2guv2wlijornykwn/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mash-2.3-wydsvanz2vae47ez2guv2wlijornykwn/share/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mash-2.3-wydsvanz2vae47ez2guv2wlijornykwn/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/masurca-4.1.0-gcc-11.3.0-ogrvyeh b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/masurca-4.1.0-gcc-11.3.0-ogrvyeh new file mode 100644 index 00000000..61b859ba --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/masurca-4.1.0-gcc-11.3.0-ogrvyeh @@ -0,0 +1,27 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:38.104114 +## +## masurca@4.1.0%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/ogrvyeh +## + + +module-whatis "MaSuRCA is whole genome assembly software. It combines the efficiency of the de Bruijn graph and Overlap-Layout-Consensus (OLC) approaches." + +proc ModulesHelp { } { + puts stderr "Name : masurca" + puts stderr "Version: 4.1.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "MaSuRCA is whole genome assembly software. It combines the efficiency of" + puts stderr "the de Bruijn graph and Overlap-Layout-Consensus (OLC) approaches." +} + +module load boost-1.79.0-gcc-11.3.0-zfgjt4m +module load perl-5.36.0-gcc-11.3.0-a36qqup +module load zlib-1.2.13-gcc-11.3.0-lu7f4vc + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/masurca-4.1.0-ogrvyehowyifuczkbk3n3cyheqpcqjw6/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/masurca-4.1.0-ogrvyehowyifuczkbk3n3cyheqpcqjw6/share/man" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/masurca-4.1.0-ogrvyehowyifuczkbk3n3cyheqpcqjw6/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/masurca-4.1.0-ogrvyehowyifuczkbk3n3cyheqpcqjw6/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/mcl-14-137-gcc-11.3.0-jmhnvlt b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/mcl-14-137-gcc-11.3.0-jmhnvlt new file mode 100644 index 00000000..d63c4a3e --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/mcl-14-137-gcc-11.3.0-jmhnvlt @@ -0,0 +1,25 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:05.862538 +## +## mcl@14-137%gcc@11.3.0~blast build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/jmhnvlt +## + + +module-whatis "The MCL algorithm is short for the Markov Cluster Algorithm, a fast and scalable unsupervised cluster algorithm for graphs (also known as networks) based on simulation of (stochastic) flow in graphs." + +proc ModulesHelp { } { + puts stderr "Name : mcl" + puts stderr "Version: 14-137" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "The MCL algorithm is short for the Markov Cluster Algorithm, a fast and" + puts stderr "scalable unsupervised cluster algorithm for graphs (also known as" + puts stderr "networks) based on simulation of (stochastic) flow in graphs." +} + +module load perl-5.36.0-gcc-11.3.0-65ysuw5 + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mcl-14-137-jmhnvlt64vameqrmrapa4meuxqxzhv3f/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mcl-14-137-jmhnvlt64vameqrmrapa4meuxqxzhv3f/share/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mcl-14-137-jmhnvlt64vameqrmrapa4meuxqxzhv3f/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/mcl-14-137-gcc-11.3.0-o4vyftp b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/mcl-14-137-gcc-11.3.0-o4vyftp new file mode 100644 index 00000000..064c730f --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/mcl-14-137-gcc-11.3.0-o4vyftp @@ -0,0 +1,25 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:38.136703 +## +## mcl@14-137%gcc@11.3.0~blast build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/o4vyftp +## + + +module-whatis "The MCL algorithm is short for the Markov Cluster Algorithm, a fast and scalable unsupervised cluster algorithm for graphs (also known as networks) based on simulation of (stochastic) flow in graphs." + +proc ModulesHelp { } { + puts stderr "Name : mcl" + puts stderr "Version: 14-137" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "The MCL algorithm is short for the Markov Cluster Algorithm, a fast and" + puts stderr "scalable unsupervised cluster algorithm for graphs (also known as" + puts stderr "networks) based on simulation of (stochastic) flow in graphs." +} + +module load perl-5.36.0-gcc-11.3.0-a36qqup + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mcl-14-137-o4vyftpvj4hgp2ncrxmg4vo5peqhgqhf/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mcl-14-137-o4vyftpvj4hgp2ncrxmg4vo5peqhgqhf/share/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mcl-14-137-o4vyftpvj4hgp2ncrxmg4vo5peqhgqhf/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/minced-0.4.2-gcc-11.3.0-kttlxen b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/minced-0.4.2-gcc-11.3.0-kttlxen new file mode 100644 index 00000000..2d52df11 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/minced-0.4.2-gcc-11.3.0-kttlxen @@ -0,0 +1,25 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:05.885682 +## +## minced@0.4.2%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/kttlxen +## + + +module-whatis "MinCED is a program to find Clustered Regularly Interspaced Short Palindromic Repeats (CRISPRs) in full genomes or environmental datasets such as metagenomes, in which sequence size can be anywhere from 100 to 800 bp." + +proc ModulesHelp { } { + puts stderr "Name : minced" + puts stderr "Version: 0.4.2" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "MinCED is a program to find Clustered Regularly Interspaced Short" + puts stderr "Palindromic Repeats (CRISPRs) in full genomes or environmental datasets" + puts stderr "such as metagenomes, in which sequence size can be anywhere from 100 to" + puts stderr "800 bp." +} + +module load openjdk-11.0.17_8-gcc-11.3.0-oucx2ae + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/minced-0.4.2-kttlxengzxmiwe47okk5smkadsyyrlxo/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/minced-0.4.2-kttlxengzxmiwe47okk5smkadsyyrlxo/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/minimap2-2.14-gcc-11.3.0-dixx3xs b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/minimap2-2.14-gcc-11.3.0-dixx3xs new file mode 100644 index 00000000..11cd6421 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/minimap2-2.14-gcc-11.3.0-dixx3xs @@ -0,0 +1,26 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:05.907555 +## +## minimap2@2.14%gcc@11.3.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v2/dixx3xs +## + + +module-whatis "Minimap2 is a versatile sequence alignment program that aligns DNA or mRNA sequences against a large reference database. Mappy provides a convenient interface to minimap2." + +proc ModulesHelp { } { + puts stderr "Name : minimap2" + puts stderr "Version: 2.14" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Minimap2 is a versatile sequence alignment program that aligns DNA or" + puts stderr "mRNA sequences against a large reference database. Mappy provides a" + puts stderr "convenient interface to minimap2." +} + +module load python-3.10.10-gcc-11.3.0-flhvzx3 +module load zlib-1.2.13-gcc-11.3.0-77qi6rv + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/minimap2-2.14-dixx3xsvo5ruiffedzktry4632plx2vz/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/minimap2-2.14-dixx3xsvo5ruiffedzktry4632plx2vz/." +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/minimap2-2.14-dixx3xsvo5ruiffedzktry4632plx2vz/lib/python3.10/site-packages" + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/mirdeep2-0.0.8-gcc-11.3.0-4ar2uar b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/mirdeep2-0.0.8-gcc-11.3.0-4ar2uar new file mode 100644 index 00000000..c2fee720 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/mirdeep2-0.0.8-gcc-11.3.0-4ar2uar @@ -0,0 +1,29 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:05.945760 +## +## mirdeep2@0.0.8%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/4ar2uar +## + + +module-whatis "miRDeep2 is a completely overhauled tool which discovers microRNA genes by analyzing sequenced RNAs." + +proc ModulesHelp { } { + puts stderr "Name : mirdeep2" + puts stderr "Version: 0.0.8" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "miRDeep2 is a completely overhauled tool which discovers microRNA genes" + puts stderr "by analyzing sequenced RNAs." +} + +module load bowtie-1.3.1-gcc-11.3.0-givlfh7 +module load perl-5.36.0-gcc-11.3.0-65ysuw5 +module load perl-pdf-api2-2.044-gcc-11.3.0-cbqi5xf +module load randfold-2.0.1-gcc-11.3.0-xu6cnmm +module load squid-1.9g-gcc-11.3.0-a7nbgga +module load viennarna-2.5.0-gcc-11.3.0-vewtu3y + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mirdeep2-0.0.8-4ar2uarx5u324ng5leun3fwtpl2cf7ai/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mirdeep2-0.0.8-4ar2uarx5u324ng5leun3fwtpl2cf7ai/." +prepend-path --delim ":" PERL5LIB "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-pdf-api2-2.044-cbqi5xfyggc5qmzexlant7dkzrzns5kd/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-font-ttf-1.06-iw4gaimur4zgp742sejdcgkhqx5xosbl/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-test-exception-0.43-4nwuxhcxzhhn2yk3aj3ynjswvpyvhjy7/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-sub-uplevel-0.2800-jss357ct2ifo6fobdh4ec3su33mixbh7/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-test-memory-cycle-1.06-eysie33emybilbscor7b5dbfwgsqqmny/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-devel-cycle-1.12-ukabnaq2meo5puvsntmsaa4khnr3znzk/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-padwalker-2.5-ktvckewczzerpx3o7fbqlujencqkujl7/lib/perl5" + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/mirdeep2-0.0.8-gcc-11.3.0-hjistce b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/mirdeep2-0.0.8-gcc-11.3.0-hjistce new file mode 100644 index 00000000..8b2ebb0c --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/mirdeep2-0.0.8-gcc-11.3.0-hjistce @@ -0,0 +1,29 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:38.188929 +## +## mirdeep2@0.0.8%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/hjistce +## + + +module-whatis "miRDeep2 is a completely overhauled tool which discovers microRNA genes by analyzing sequenced RNAs." + +proc ModulesHelp { } { + puts stderr "Name : mirdeep2" + puts stderr "Version: 0.0.8" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "miRDeep2 is a completely overhauled tool which discovers microRNA genes" + puts stderr "by analyzing sequenced RNAs." +} + +module load bowtie-1.3.1-gcc-11.3.0-wwcuzdt +module load perl-5.36.0-gcc-11.3.0-a36qqup +module load perl-pdf-api2-2.044-gcc-11.3.0-qfavyob +module load randfold-2.0.1-gcc-11.3.0-xu6cnmm +module load squid-1.9g-gcc-11.3.0-a7nbgga +module load viennarna-2.5.0-gcc-11.3.0-46hehkf + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mirdeep2-0.0.8-hjistcemt2ezrbqdevzcvh5ochd73lsd/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mirdeep2-0.0.8-hjistcemt2ezrbqdevzcvh5ochd73lsd/." +prepend-path --delim ":" PERL5LIB "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-pdf-api2-2.044-qfavyobyyjvsxjhqeyxavhne3q4d2oij/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-font-ttf-1.06-5uscirrngfr53v7pxmiyimbwyrhtdklr/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-test-exception-0.43-e6x6kzaswsdvfwbzt6xpfbzvjnr5vnui/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-sub-uplevel-0.2800-4rb6oroflert5o5zjnxu2hkevhukosii/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-test-memory-cycle-1.06-fimkt4vgngsnphhpvvjgaxukatt4g27s/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-devel-cycle-1.12-5htb74lyrsznlkxhl5jdochaozl62nom/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-padwalker-2.5-mgq6ieq6un65mqy33eknco5orqt34npr/lib/perl5" + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/mmseqs2-14-7e284-gcc-11.3.0-6akhrty b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/mmseqs2-14-7e284-gcc-11.3.0-6akhrty new file mode 100644 index 00000000..6a9a9c0b --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/mmseqs2-14-7e284-gcc-11.3.0-6akhrty @@ -0,0 +1,25 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:38.267563 +## +## mmseqs2@14-7e284%gcc@11.3.0~ipo~mpi~openmp build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v2/6akhrty +## +## Configure options: -DVERSION_OVERRIDE=14-7e284 -DUSE_SYSTEM_ZSTD=1 -DREQUIRE_OPENMP=0 -DHAVE_MPI=0 +## + + +module-whatis "MMseqs2 (Many-against-Many sequence searching) is a software suite to search and cluster huge protein and nucleotide sequence sets" + +proc ModulesHelp { } { + puts stderr "Name : mmseqs2" + puts stderr "Version: 14-7e284" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "MMseqs2 (Many-against-Many sequence searching) is a software suite to" + puts stderr "search and cluster huge protein and nucleotide sequence sets" +} + +module load zstd-1.5.5-gcc-11.3.0-qjrrg3e + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mmseqs2-14-7e284-6akhrty2dx7fexq6vui6myr55nhnqklu/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mmseqs2-14-7e284-6akhrty2dx7fexq6vui6myr55nhnqklu/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/mmseqs2-14-7e284-gcc-11.3.0-ygqnehd b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/mmseqs2-14-7e284-gcc-11.3.0-ygqnehd new file mode 100644 index 00000000..081b5812 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/mmseqs2-14-7e284-gcc-11.3.0-ygqnehd @@ -0,0 +1,25 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:06.025784 +## +## mmseqs2@14-7e284%gcc@11.3.0~ipo~mpi~openmp build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v2/ygqnehd +## +## Configure options: -DVERSION_OVERRIDE=14-7e284 -DUSE_SYSTEM_ZSTD=1 -DREQUIRE_OPENMP=0 -DHAVE_MPI=0 +## + + +module-whatis "MMseqs2 (Many-against-Many sequence searching) is a software suite to search and cluster huge protein and nucleotide sequence sets" + +proc ModulesHelp { } { + puts stderr "Name : mmseqs2" + puts stderr "Version: 14-7e284" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "MMseqs2 (Many-against-Many sequence searching) is a software suite to" + puts stderr "search and cluster huge protein and nucleotide sequence sets" +} + +module load zstd-1.5.5-gcc-11.3.0-ukwq6ku + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mmseqs2-14-7e284-ygqnehd7bc6goabwsrpgh7wzlgsolgov/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mmseqs2-14-7e284-ygqnehd7bc6goabwsrpgh7wzlgsolgov/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/mothur-1.48.0-gcc-11.3.0-7brn3r6 b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/mothur-1.48.0-gcc-11.3.0-7brn3r6 new file mode 100644 index 00000000..f205889b --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/mothur-1.48.0-gcc-11.3.0-7brn3r6 @@ -0,0 +1,28 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:06.050612 +## +## mothur@1.48.0%gcc@11.3.0+boost~gsl~hdf5 build_system=makefile arch=linux-ubuntu22.04-x86_64_v2/7brn3r6 +## + + +module-whatis "This project seeks to develop a single piece of open-source, expandable software to fill the bioinformatics needs of the microbial ecology community." + +proc ModulesHelp { } { + puts stderr "Name : mothur" + puts stderr "Version: 1.48.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "This project seeks to develop a single piece of open-source, expandable" + puts stderr "software to fill the bioinformatics needs of the microbial ecology" + puts stderr "community." +} + +module load boost-1.82.0-gcc-11.3.0-ggrxvld +module load readline-8.2-gcc-11.3.0-m2v7tzs +module load usearch-11.0.667-gcc-11.3.0-4bepd6f +module load vsearch-2.22.1-gcc-11.3.0-jykqcmr +module load zlib-1.2.13-gcc-11.3.0-77qi6rv + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mothur-1.48.0-7brn3r6lvtd6vi74h5j7jdlib3nrziqu/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mothur-1.48.0-7brn3r6lvtd6vi74h5j7jdlib3nrziqu/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/mpfr-4.2.0-gcc-11.3.0-huvidfw b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/mpfr-4.2.0-gcc-11.3.0-huvidfw new file mode 100644 index 00000000..35d154cc --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/mpfr-4.2.0-gcc-11.3.0-huvidfw @@ -0,0 +1,25 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:02.006622 +## +## mpfr@4.2.0%gcc@11.3.0 build_system=autotools libs=shared,static arch=linux-ubuntu22.04-x86_64_v2/huvidfw +## +## Configure options: --with-gmp=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gmp-6.2.1-qyjndnvcjkrswgso5x4ef52hjzxvsmhw --enable-shared --enable-static --with-pic +## + + +module-whatis "The MPFR library is a C library for multiple-precision floating-point computations with correct rounding." + +proc ModulesHelp { } { + puts stderr "Name : mpfr" + puts stderr "Version: 4.2.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "The MPFR library is a C library for multiple-precision floating-point" + puts stderr "computations with correct rounding." +} + +module load gmp-6.2.1-gcc-11.3.0-qyjndnv + +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mpfr-4.2.0-huvidfw2qvo35geewumhef7x3hxalkz3/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mpfr-4.2.0-huvidfw2qvo35geewumhef7x3hxalkz3/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/mummer4-4.0.0rc1-gcc-11.3.0-ou3viqv b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/mummer4-4.0.0rc1-gcc-11.3.0-ou3viqv new file mode 100644 index 00000000..995ba6a0 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/mummer4-4.0.0rc1-gcc-11.3.0-ou3viqv @@ -0,0 +1,25 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:38.292782 +## +## mummer4@4.0.0rc1%gcc@11.3.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/ou3viqv +## + + +module-whatis "MUMmer is a versatil alignment tool for DNA and protein sequences." + +proc ModulesHelp { } { + puts stderr "Name : mummer4" + puts stderr "Version: 4.0.0rc1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "MUMmer is a versatil alignment tool for DNA and protein sequences." +} + +module load gawk-5.2.1-gcc-11.3.0-hwox4dn +module load perl-5.36.0-gcc-11.3.0-a36qqup +module load sed-4.9-gcc-11.3.0-tkybbng + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mummer4-4.0.0rc1-ou3viqvsaoiqmhj4g37bapo76icfszpu/bin" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mummer4-4.0.0rc1-ou3viqvsaoiqmhj4g37bapo76icfszpu/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mummer4-4.0.0rc1-ou3viqvsaoiqmhj4g37bapo76icfszpu/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/mummer4-4.0.0rc1-gcc-11.3.0-xjxwcnw b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/mummer4-4.0.0rc1-gcc-11.3.0-xjxwcnw new file mode 100644 index 00000000..97e4e1a2 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/mummer4-4.0.0rc1-gcc-11.3.0-xjxwcnw @@ -0,0 +1,25 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:06.122003 +## +## mummer4@4.0.0rc1%gcc@11.3.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/xjxwcnw +## + + +module-whatis "MUMmer is a versatil alignment tool for DNA and protein sequences." + +proc ModulesHelp { } { + puts stderr "Name : mummer4" + puts stderr "Version: 4.0.0rc1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "MUMmer is a versatil alignment tool for DNA and protein sequences." +} + +module load gawk-5.2.1-gcc-11.3.0-ae44keg +module load perl-5.36.0-gcc-11.3.0-rp6rwls +module load sed-4.9-gcc-11.3.0-tkybbng + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mummer4-4.0.0rc1-xjxwcnwokly73wxof2uaivjdzderivis/bin" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mummer4-4.0.0rc1-xjxwcnwokly73wxof2uaivjdzderivis/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mummer4-4.0.0rc1-xjxwcnwokly73wxof2uaivjdzderivis/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/ncbi-rmblastn-2.11.0-gcc-11.3.0-akwejhv b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/ncbi-rmblastn-2.11.0-gcc-11.3.0-akwejhv new file mode 100644 index 00000000..798c16c7 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/ncbi-rmblastn-2.11.0-gcc-11.3.0-akwejhv @@ -0,0 +1,25 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:38.334451 +## +## ncbi-rmblastn@2.11.0%gcc@11.3.0 build_system=autotools patches=ce985ab arch=linux-ubuntu22.04-x86_64_v2/akwejhv +## +## Configure options: --with-mt --without-debug --without-krb5 --without-openssl --without-libuv --with-projects=scripts/projects/rmblastn/project.lst +## + + +module-whatis "RMBlast search engine for NCBI" + +proc ModulesHelp { } { + puts stderr "Name : ncbi-rmblastn" + puts stderr "Version: 2.11.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "RMBlast search engine for NCBI" +} + +module load boost-1.79.0-gcc-11.3.0-zfgjt4m +module load lzo-2.10-gcc-11.3.0-mfboq4t + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ncbi-rmblastn-2.11.0-akwejhvtv64nqwcvaixj5npve46npb24/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ncbi-rmblastn-2.11.0-akwejhvtv64nqwcvaixj5npve46npb24/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/ncbi-vdb-3.0.2-gcc-11.3.0-vngmqyw b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/ncbi-vdb-3.0.2-gcc-11.3.0-vngmqyw new file mode 100644 index 00000000..b0c92b84 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/ncbi-vdb-3.0.2-gcc-11.3.0-vngmqyw @@ -0,0 +1,25 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:38.366883 +## +## ncbi-vdb@3.0.2%gcc@11.3.0~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v2/vngmqyw +## + + +module-whatis "The SRA Toolkit and SDK from NCBI is a collection of tools and libraries for using data in the INSDC Sequence Read Archives. This package contains the interface to the VDB." + +proc ModulesHelp { } { + puts stderr "Name : ncbi-vdb" + puts stderr "Version: 3.0.2" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "The SRA Toolkit and SDK from NCBI is a collection of tools and libraries" + puts stderr "for using data in the INSDC Sequence Read Archives. This package" + puts stderr "contains the interface to the VDB." +} + +module load flex-2.6.4-gcc-11.3.0-lxvkqdz +module load libxml2-2.10.2-gcc-11.3.0-bvlt4ur +module load openjdk-16.0.2-gcc-11.3.0-4yopvxz + +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ncbi-vdb-3.0.2-vngmqywajplld5hr63huhwknl5gnxmk3/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/ncbi-vdb-3.0.2-gcc-11.3.0-xnvnwz2 b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/ncbi-vdb-3.0.2-gcc-11.3.0-xnvnwz2 new file mode 100644 index 00000000..0324b444 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/ncbi-vdb-3.0.2-gcc-11.3.0-xnvnwz2 @@ -0,0 +1,25 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:06.191847 +## +## ncbi-vdb@3.0.2%gcc@11.3.0~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v2/xnvnwz2 +## + + +module-whatis "The SRA Toolkit and SDK from NCBI is a collection of tools and libraries for using data in the INSDC Sequence Read Archives. This package contains the interface to the VDB." + +proc ModulesHelp { } { + puts stderr "Name : ncbi-vdb" + puts stderr "Version: 3.0.2" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "The SRA Toolkit and SDK from NCBI is a collection of tools and libraries" + puts stderr "for using data in the INSDC Sequence Read Archives. This package" + puts stderr "contains the interface to the VDB." +} + +module load flex-2.6.3-gcc-11.3.0-nuovbl2 +module load libxml2-2.10.2-gcc-11.3.0-h27zwzl +module load openjdk-11.0.17_8-gcc-11.3.0-oucx2ae + +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ncbi-vdb-3.0.2-xnvnwz2xtwzky23ufoybfziuntmwunu5/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/netcdf-c-4.9.2-gcc-11.3.0-hwezlw7 b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/netcdf-c-4.9.2-gcc-11.3.0-hwezlw7 new file mode 100644 index 00000000..2f3fc016 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/netcdf-c-4.9.2-gcc-11.3.0-hwezlw7 @@ -0,0 +1,33 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 12:22:43.853381 +## +## netcdf-c@4.9.2%gcc@11.3.0+blosc~byterange~dap~fsync~hdf4~jna+mpi~nczarr_zip+optimize~parallel-netcdf+pic+shared+szip+zstd build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/hwezlw7 +## + + +module-whatis "NetCDF (network Common Data Form) is a set of software libraries and machine-independent data formats that support the creation, access, and sharing of array-oriented scientific data. This is the C distribution." + +proc ModulesHelp { } { + puts stderr "Name : netcdf-c" + puts stderr "Version: 4.9.2" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "NetCDF (network Common Data Form) is a set of software libraries and" + puts stderr "machine-independent data formats that support the creation, access, and" + puts stderr "sharing of array-oriented scientific data. This is the C distribution." +} + +module load bzip2-1.0.8-gcc-11.3.0-dtsdvar +module load c-blosc-1.21.2-gcc-11.3.0-uptb33y +module load hdf5-1.14.1-2-gcc-11.3.0-dof32z6 +module load libszip-2.1.1-gcc-11.3.0-zsteyuj +module load openmpi-4.1.5-gcc-11.3.0-63v4xd2 +module load zlib-1.2.13-gcc-11.3.0-77qi6rv +module load zstd-1.5.5-gcc-11.3.0-qjrrg3e + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-c-4.9.2-hwezlw7ydf7flj6nanavqth5tnftqs3i/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-c-4.9.2-hwezlw7ydf7flj6nanavqth5tnftqs3i/share/man" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-c-4.9.2-hwezlw7ydf7flj6nanavqth5tnftqs3i/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-c-4.9.2-hwezlw7ydf7flj6nanavqth5tnftqs3i/." +append-path --delim ":" HDF5_PLUGIN_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-c-4.9.2-hwezlw7ydf7flj6nanavqth5tnftqs3i/plugins" + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/netcdf-c-4.9.2-gcc-11.3.0-xzlr5cw b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/netcdf-c-4.9.2-gcc-11.3.0-xzlr5cw new file mode 100644 index 00000000..d5b446ca --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/netcdf-c-4.9.2-gcc-11.3.0-xzlr5cw @@ -0,0 +1,33 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:38.429808 +## +## netcdf-c@4.9.2%gcc@11.3.0+blosc~byterange~dap~fsync~hdf4~jna+mpi~nczarr_zip+optimize~parallel-netcdf+pic+shared+szip+zstd build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/xzlr5cw +## + + +module-whatis "NetCDF (network Common Data Form) is a set of software libraries and machine-independent data formats that support the creation, access, and sharing of array-oriented scientific data. This is the C distribution." + +proc ModulesHelp { } { + puts stderr "Name : netcdf-c" + puts stderr "Version: 4.9.2" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "NetCDF (network Common Data Form) is a set of software libraries and" + puts stderr "machine-independent data formats that support the creation, access, and" + puts stderr "sharing of array-oriented scientific data. This is the C distribution." +} + +module load bzip2-1.0.8-gcc-11.3.0-dtsdvar +module load c-blosc-1.21.2-gcc-11.3.0-3rwq6wu +module load hdf5-1.14.1-2-gcc-11.3.0-u5qx6lj +module load libszip-2.1.1-gcc-11.3.0-zsteyuj +module load openmpi-4.1.5-gcc-11.3.0-63v4xd2 +module load zlib-1.2.13-gcc-11.3.0-lu7f4vc +module load zstd-1.5.5-gcc-11.3.0-qjrrg3e + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-c-4.9.2-xzlr5cwhyugkum3byfvfwkhdoscy7yxn/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-c-4.9.2-xzlr5cwhyugkum3byfvfwkhdoscy7yxn/share/man" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-c-4.9.2-xzlr5cwhyugkum3byfvfwkhdoscy7yxn/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-c-4.9.2-xzlr5cwhyugkum3byfvfwkhdoscy7yxn/." +append-path --delim ":" HDF5_PLUGIN_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-c-4.9.2-xzlr5cwhyugkum3byfvfwkhdoscy7yxn/plugins" + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/netcdf-c-4.9.2-gcc-11.3.0-zw4h5k7 b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/netcdf-c-4.9.2-gcc-11.3.0-zw4h5k7 new file mode 100644 index 00000000..8d6296b2 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/netcdf-c-4.9.2-gcc-11.3.0-zw4h5k7 @@ -0,0 +1,33 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:02.041797 +## +## netcdf-c@4.9.2%gcc@11.3.0+blosc~byterange~dap~fsync~hdf4~jna+mpi~nczarr_zip+optimize~parallel-netcdf+pic+shared+szip+zstd build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/zw4h5k7 +## + + +module-whatis "NetCDF (network Common Data Form) is a set of software libraries and machine-independent data formats that support the creation, access, and sharing of array-oriented scientific data. This is the C distribution." + +proc ModulesHelp { } { + puts stderr "Name : netcdf-c" + puts stderr "Version: 4.9.2" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "NetCDF (network Common Data Form) is a set of software libraries and" + puts stderr "machine-independent data formats that support the creation, access, and" + puts stderr "sharing of array-oriented scientific data. This is the C distribution." +} + +module load bzip2-1.0.8-gcc-11.3.0-dtsdvar +module load c-blosc-1.21.2-gcc-11.3.0-s4jdv54 +module load hdf5-1.14.1-2-gcc-11.3.0-misd4ju +module load libaec-1.0.6-gcc-11.3.0-7bapw25 +module load openmpi-4.1.5-gcc-11.3.0-63v4xd2 +module load zlib-1.2.13-gcc-11.3.0-77qi6rv +module load zstd-1.5.5-gcc-11.3.0-ukwq6ku + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-c-4.9.2-zw4h5k7el6e3x53ml3cvx46pljzppxmq/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-c-4.9.2-zw4h5k7el6e3x53ml3cvx46pljzppxmq/share/man" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-c-4.9.2-zw4h5k7el6e3x53ml3cvx46pljzppxmq/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-c-4.9.2-zw4h5k7el6e3x53ml3cvx46pljzppxmq/." +append-path --delim ":" HDF5_PLUGIN_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-c-4.9.2-zw4h5k7el6e3x53ml3cvx46pljzppxmq/plugins" + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/netcdf-cxx4-4.3.1-gcc-11.3.0-b4zszl4 b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/netcdf-cxx4-4.3.1-gcc-11.3.0-b4zszl4 new file mode 100644 index 00000000..808acb58 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/netcdf-cxx4-4.3.1-gcc-11.3.0-b4zszl4 @@ -0,0 +1,27 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:02.140479 +## +## netcdf-cxx4@4.3.1%gcc@11.3.0~doc+pic+shared build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/b4zszl4 +## +## Configure options: --enable-shared --disable-doxygen --disable-filter-testing +## + + +module-whatis "NetCDF (network Common Data Form) is a set of software libraries and machine-independent data formats that support the creation, access, and sharing of array-oriented scientific data. This is the C++ distribution." + +proc ModulesHelp { } { + puts stderr "Name : netcdf-cxx4" + puts stderr "Version: 4.3.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "NetCDF (network Common Data Form) is a set of software libraries and" + puts stderr "machine-independent data formats that support the creation, access, and" + puts stderr "sharing of array-oriented scientific data. This is the C++ distribution." +} + +module load netcdf-c-4.9.2-gcc-11.3.0-zw4h5k7 + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-cxx4-4.3.1-b4zszl4zr4wwyanlmie2gc5ohc3czh3z/bin" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-cxx4-4.3.1-b4zszl4zr4wwyanlmie2gc5ohc3czh3z/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-cxx4-4.3.1-b4zszl4zr4wwyanlmie2gc5ohc3czh3z/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/netcdf-cxx4-4.3.1-gcc-11.3.0-pwezry7 b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/netcdf-cxx4-4.3.1-gcc-11.3.0-pwezry7 new file mode 100644 index 00000000..09a0cf89 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/netcdf-cxx4-4.3.1-gcc-11.3.0-pwezry7 @@ -0,0 +1,27 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 12:22:43.938943 +## +## netcdf-cxx4@4.3.1%gcc@11.3.0~doc+pic+shared build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/pwezry7 +## +## Configure options: --enable-shared --disable-doxygen --disable-filter-testing +## + + +module-whatis "NetCDF (network Common Data Form) is a set of software libraries and machine-independent data formats that support the creation, access, and sharing of array-oriented scientific data. This is the C++ distribution." + +proc ModulesHelp { } { + puts stderr "Name : netcdf-cxx4" + puts stderr "Version: 4.3.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "NetCDF (network Common Data Form) is a set of software libraries and" + puts stderr "machine-independent data formats that support the creation, access, and" + puts stderr "sharing of array-oriented scientific data. This is the C++ distribution." +} + +module load netcdf-c-4.9.2-gcc-11.3.0-hwezlw7 + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-cxx4-4.3.1-pwezry76uwpnr56azsapvnaiq74y7yho/bin" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-cxx4-4.3.1-pwezry76uwpnr56azsapvnaiq74y7yho/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-cxx4-4.3.1-pwezry76uwpnr56azsapvnaiq74y7yho/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/netcdf-fortran-4.6.0-gcc-11.3.0-ch2bhyp b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/netcdf-fortran-4.6.0-gcc-11.3.0-ch2bhyp new file mode 100644 index 00000000..6ba72c0f --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/netcdf-fortran-4.6.0-gcc-11.3.0-ch2bhyp @@ -0,0 +1,29 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:02.196828 +## +## netcdf-fortran@4.6.0%gcc@11.3.0~doc+pic+shared build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/ch2bhyp +## +## Configure options: --enable-static --enable-shared --disable-doxygen --disable-parallel-tests +## + + +module-whatis "NetCDF (network Common Data Form) is a set of software libraries and machine-independent data formats that support the creation, access, and sharing of array-oriented scientific data. This is the Fortran distribution." + +proc ModulesHelp { } { + puts stderr "Name : netcdf-fortran" + puts stderr "Version: 4.6.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "NetCDF (network Common Data Form) is a set of software libraries and" + puts stderr "machine-independent data formats that support the creation, access, and" + puts stderr "sharing of array-oriented scientific data. This is the Fortran" + puts stderr "distribution." +} + +module load netcdf-c-4.9.2-gcc-11.3.0-zw4h5k7 + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-fortran-4.6.0-ch2bhypi3sjwx44ir7bwue6c65i5pc7m/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-fortran-4.6.0-ch2bhypi3sjwx44ir7bwue6c65i5pc7m/share/man" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-fortran-4.6.0-ch2bhypi3sjwx44ir7bwue6c65i5pc7m/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-fortran-4.6.0-ch2bhypi3sjwx44ir7bwue6c65i5pc7m/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/netcdf-fortran-4.6.0-gcc-11.3.0-ryorul2 b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/netcdf-fortran-4.6.0-gcc-11.3.0-ryorul2 new file mode 100644 index 00000000..510adb36 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/netcdf-fortran-4.6.0-gcc-11.3.0-ryorul2 @@ -0,0 +1,29 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 12:22:43.980833 +## +## netcdf-fortran@4.6.0%gcc@11.3.0~doc+pic+shared build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/ryorul2 +## +## Configure options: --enable-static --enable-shared --disable-doxygen --disable-parallel-tests +## + + +module-whatis "NetCDF (network Common Data Form) is a set of software libraries and machine-independent data formats that support the creation, access, and sharing of array-oriented scientific data. This is the Fortran distribution." + +proc ModulesHelp { } { + puts stderr "Name : netcdf-fortran" + puts stderr "Version: 4.6.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "NetCDF (network Common Data Form) is a set of software libraries and" + puts stderr "machine-independent data formats that support the creation, access, and" + puts stderr "sharing of array-oriented scientific data. This is the Fortran" + puts stderr "distribution." +} + +module load netcdf-c-4.9.2-gcc-11.3.0-hwezlw7 + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-fortran-4.6.0-ryorul2jouedi2ozhhmt7roiumt3347x/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-fortran-4.6.0-ryorul2jouedi2ozhhmt7roiumt3347x/share/man" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-fortran-4.6.0-ryorul2jouedi2ozhhmt7roiumt3347x/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-fortran-4.6.0-ryorul2jouedi2ozhhmt7roiumt3347x/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/nextflow-22.10.4-gcc-11.3.0-f3shumn b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/nextflow-22.10.4-gcc-11.3.0-f3shumn new file mode 100644 index 00000000..60b9228a --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/nextflow-22.10.4-gcc-11.3.0-f3shumn @@ -0,0 +1,22 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:06.279967 +## +## nextflow@22.10.4%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/f3shumn +## + + +module-whatis "Data-driven computational pipelines." + +proc ModulesHelp { } { + puts stderr "Name : nextflow" + puts stderr "Version: 22.10.4" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Data-driven computational pipelines." +} + +module load openjdk-11.0.17_8-gcc-11.3.0-oucx2ae + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/nextflow-22.10.4-f3shumndd7vldoauby24zgnykskinbjg/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/nextflow-22.10.4-f3shumndd7vldoauby24zgnykskinbjg/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/nlohmann-json-3.11.2-gcc-11.3.0-3w2ciab b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/nlohmann-json-3.11.2-gcc-11.3.0-3w2ciab new file mode 100644 index 00000000..b1b59a9c --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/nlohmann-json-3.11.2-gcc-11.3.0-3w2ciab @@ -0,0 +1,23 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:02.248731 +## +## nlohmann-json@3.11.2%gcc@11.3.0~ipo+multiple_headers build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v2/3w2ciab +## +## Configure options: -DJSON_MultipleHeaders:BOOL=ON -DJSON_BuildTests:BOOL=OFF +## + + +module-whatis "JSON for Modern C++" + +proc ModulesHelp { } { + puts stderr "Name : nlohmann-json" + puts stderr "Version: 3.11.2" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "JSON for Modern C++" +} + + +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/nlohmann-json-3.11.2-3w2ciabjsofaaaprgnvao3opwi7pe7vy/share/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/nlohmann-json-3.11.2-3w2ciabjsofaaaprgnvao3opwi7pe7vy/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/openblas-0.3.23-gcc-11.3.0-s3rmti6 b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/openblas-0.3.23-gcc-11.3.0-s3rmti6 new file mode 100644 index 00000000..af0e883b --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/openblas-0.3.23-gcc-11.3.0-s3rmti6 @@ -0,0 +1,22 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:36.313527 +## +## openblas@0.3.23%gcc@11.3.0~bignuma~consistent_fpcsr+fortran~ilp64+locking+pic+shared build_system=makefile symbol_suffix=none threads=openmp arch=linux-ubuntu22.04-x86_64_v2/s3rmti6 +## + + +module-whatis "OpenBLAS: An optimized BLAS library" + +proc ModulesHelp { } { + puts stderr "Name : openblas" + puts stderr "Version: 0.3.23" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "OpenBLAS: An optimized BLAS library" +} + + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openblas-0.3.23-s3rmti6rm3n2dw7sgyaaswn6usynmw5z/bin" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openblas-0.3.23-s3rmti6rm3n2dw7sgyaaswn6usynmw5z/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openblas-0.3.23-s3rmti6rm3n2dw7sgyaaswn6usynmw5z/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/orthofinder-2.5.4-gcc-11.3.0-xotz5aw b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/orthofinder-2.5.4-gcc-11.3.0-xotz5aw new file mode 100644 index 00000000..5a1a8cbd --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/orthofinder-2.5.4-gcc-11.3.0-xotz5aw @@ -0,0 +1,38 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:06.313654 +## +## orthofinder@2.5.4%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/xotz5aw +## + + +module-whatis "OrthoFinder is a fast, accurate and comprehensive analysis tool for comparative genomics." + +proc ModulesHelp { } { + puts stderr "Name : orthofinder" + puts stderr "Version: 2.5.4" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "OrthoFinder is a fast, accurate and comprehensive analysis tool for" + puts stderr "comparative genomics. It finds orthologues and orthogroups infers rooted" + puts stderr "gene trees for all orthogroups and infers a rooted species tree for the" + puts stderr "species being analysed. OrthoFinder also provides comprehensive" + puts stderr "statistics for comparative genomic analyses. OrthoFinder is simple to" + puts stderr "use and all you need to run it is a set of protein sequence files (one" + puts stderr "per species) in FASTA format." +} + +module load blast-plus-2.13.0-gcc-11.3.0-vttkjtr +module load diamond-2.0.15-gcc-11.3.0-3efdjse +module load fastme-2.1.5.1-gcc-11.3.0-nhuih7m +module load mcl-14-137-gcc-11.3.0-jmhnvlt +module load py-numpy-1.24.3-gcc-11.3.0-ncgncvg +module load py-scipy-1.10.1-gcc-11.3.0-w2gbi73 + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/orthofinder-2.5.4-xotz5awqmeyuv3cas32zq6vsxxahn2fc/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/orthofinder-2.5.4-xotz5awqmeyuv3cas32zq6vsxxahn2fc/." +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-numpy-1.24.3-ncgncvgk3wg73eqiitkkumoniwwv5fnv/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-setuptools-63.4.3-lbj7d45k7odyhqivr4lk5oqyfeymtkux/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-scipy-1.10.1-w2gbi73whux5jp63j6dmsylfe6opntmn/lib/python3.10/site-packages" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/orthofinder-2.5.4-xotz5awqmeyuv3cas32zq6vsxxahn2fc/bin" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/orthofinder-2.5.4-xotz5awqmeyuv3cas32zq6vsxxahn2fc/bin/tools" + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/orthomcl-2.0.9-gcc-11.3.0-gs7dg2n b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/orthomcl-2.0.9-gcc-11.3.0-gs7dg2n new file mode 100644 index 00000000..ba783e70 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/orthomcl-2.0.9-gcc-11.3.0-gs7dg2n @@ -0,0 +1,27 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:06.421763 +## +## orthomcl@2.0.9%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/gs7dg2n +## + + +module-whatis "OrthoMCL is a genome-scale algorithm for grouping orthologous protein sequences." + +proc ModulesHelp { } { + puts stderr "Name : orthomcl" + puts stderr "Version: 2.0.9" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "OrthoMCL is a genome-scale algorithm for grouping orthologous protein" + puts stderr "sequences." +} + +module load blast-plus-2.13.0-gcc-11.3.0-zaltoxf +module load mariadb-10.8.2-gcc-11.3.0-czxnp4h +module load mcl-14-137-gcc-11.3.0-wju4wvr +module load perl-5.36.0-gcc-11.3.0-rp6rwls + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/orthomcl-2.0.9-gs7dg2nuufs74lvxqbj6g3sjxdqx4yhm/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/orthomcl-2.0.9-gs7dg2nuufs74lvxqbj6g3sjxdqx4yhm/." +prepend-path --delim ":" PERL5LIB "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/orthomcl-2.0.9-gs7dg2nuufs74lvxqbj6g3sjxdqx4yhm/lib" + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/parallel-20220522-gcc-11.3.0-nyeib6q b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/parallel-20220522-gcc-11.3.0-nyeib6q new file mode 100644 index 00000000..a3dc109b --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/parallel-20220522-gcc-11.3.0-nyeib6q @@ -0,0 +1,25 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:38.574001 +## +## parallel@20220522%gcc@11.3.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/nyeib6q +## + + +module-whatis "GNU parallel is a shell tool for executing jobs in parallel using one or more computers. A job can be a single command or a small script that has to be run for each of the lines in the input. " + +proc ModulesHelp { } { + puts stderr "Name : parallel" + puts stderr "Version: 20220522" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "GNU parallel is a shell tool for executing jobs in parallel using one or" + puts stderr "more computers. A job can be a single command or a small script that has" + puts stderr "to be run for each of the lines in the input." +} + +module load perl-5.36.0-gcc-11.3.0-a36qqup + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/parallel-20220522-nyeib6qdgw7gkt4cxzyatnq54reyjoxa/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/parallel-20220522-nyeib6qdgw7gkt4cxzyatnq54reyjoxa/share/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/parallel-20220522-nyeib6qdgw7gkt4cxzyatnq54reyjoxa/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/picard-2.26.2-gcc-11.3.0-iup5ash b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/picard-2.26.2-gcc-11.3.0-iup5ash new file mode 100644 index 00000000..d1b24f11 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/picard-2.26.2-gcc-11.3.0-iup5ash @@ -0,0 +1,24 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:06.515393 +## +## picard@2.26.2%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/iup5ash +## + + +module-whatis "Picard is a set of command line tools for manipulating high-throughput sequencing (HTS) data and formats such as SAM/BAM/CRAM and VCF. " + +proc ModulesHelp { } { + puts stderr "Name : picard" + puts stderr "Version: 2.26.2" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Picard is a set of command line tools for manipulating high-throughput" + puts stderr "sequencing (HTS) data and formats such as SAM/BAM/CRAM and VCF." +} + +module load openjdk-11.0.17_8-gcc-11.3.0-oucx2ae + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/picard-2.26.2-iup5ashsl7g35xtprc3564neu5x3veol/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/picard-2.26.2-iup5ashsl7g35xtprc3564neu5x3veol/." +prepend-path --delim ":" PICARD "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/picard-2.26.2-iup5ashsl7g35xtprc3564neu5x3veol/bin/picard.jar" + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/pigz-2.7-gcc-11.3.0-ipgujva b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/pigz-2.7-gcc-11.3.0-ipgujva new file mode 100644 index 00000000..8e205ac4 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/pigz-2.7-gcc-11.3.0-ipgujva @@ -0,0 +1,24 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:38.596801 +## +## pigz@2.7%gcc@11.3.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v2/ipgujva +## + + +module-whatis "A parallel implementation of gzip for modern multi-processor, multi-core machines." + +proc ModulesHelp { } { + puts stderr "Name : pigz" + puts stderr "Version: 2.7" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "A parallel implementation of gzip for modern multi-processor, multi-core" + puts stderr "machines." +} + +module load zlib-1.2.13-gcc-11.3.0-lu7f4vc + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/pigz-2.7-ipgujvans7v7cnd5z66wx4sluwh544f3/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/pigz-2.7-ipgujvans7v7cnd5z66wx4sluwh544f3/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/pigz-2.7-ipgujvans7v7cnd5z66wx4sluwh544f3/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/pilon-1.22-gcc-11.3.0-tdxae7l b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/pilon-1.22-gcc-11.3.0-tdxae7l new file mode 100644 index 00000000..995fe785 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/pilon-1.22-gcc-11.3.0-tdxae7l @@ -0,0 +1,23 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:06.550468 +## +## pilon@1.22%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/tdxae7l +## + + +module-whatis "Pilon is an automated genome assembly improvement and variant detection tool." + +proc ModulesHelp { } { + puts stderr "Name : pilon" + puts stderr "Version: 1.22" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Pilon is an automated genome assembly improvement and variant detection" + puts stderr "tool." +} + +module load openjdk-11.0.17_8-gcc-11.3.0-oucx2ae + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/pilon-1.22-tdxae7lhjw3libmgewkskxfqctrywuir/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/pilon-1.22-tdxae7lhjw3libmgewkskxfqctrywuir/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/prokka-1.14.6-gcc-11.3.0-y7i7c5r b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/prokka-1.14.6-gcc-11.3.0-y7i7c5r new file mode 100644 index 00000000..e4381496 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/prokka-1.14.6-gcc-11.3.0-y7i7c5r @@ -0,0 +1,31 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:06.583114 +## +## prokka@1.14.6%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/y7i7c5r +## + + +module-whatis "Prokka is a software tool to annotate bacterial, archaeal and viral genomes quickly and produce standards-compliant output files." + +proc ModulesHelp { } { + puts stderr "Name : prokka" + puts stderr "Version: 1.14.6" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Prokka is a software tool to annotate bacterial, archaeal and viral" + puts stderr "genomes quickly and produce standards-compliant output files." +} + +module load blast-plus-2.13.0-gcc-11.3.0-vttkjtr +module load hmmer-3.3.2-gcc-11.3.0-csjsnjv +module load perl-5.36.0-gcc-11.3.0-65ysuw5 +module load perl-bio-searchio-hmmer-1.7.3-gcc-11.3.0-mlohx7b +module load perl-bioperl-1.7.6-gcc-11.3.0-rk2icyz +module load perl-xml-simple-2.25-gcc-11.3.0-hkgfq3u +module load prodigal-2.6.3-gcc-11.3.0-ffbskzz +module load tbl2asn-2022-04-26-gcc-11.3.0-txl753w + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/prokka-1.14.6-y7i7c5r6b4djshec7h7fl362lxakx2ow/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/prokka-1.14.6-y7i7c5r6b4djshec7h7fl362lxakx2ow/." +prepend-path --delim ":" PERL5LIB "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-bio-searchio-hmmer-1.7.3-mlohx7bdhopz3er4bjwxftumg6low3sj/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-bioperl-1.7.6-rk2icyzmazctwmbb52cs6ig5iqazy5qn/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-data-stag-0.14-qxa6ljpcfhied37o27ivbi7hjpgpqfac/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-io-string-1.08-lnknpiwgwbkk7nr7flyp5gllj6dkra5p/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-error-0.17029-b3fqppdcqfk473uk47lh5ieplbi2megs/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-graph-0.20105-uxpeq5uz3a3rpl6obadpcmxgf3jxn47d/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-http-message-6.44-ixxtnswgikoyk3kydcnvsu6qbcqoliu5/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-encode-locale-1.05-dusheff2zsdlsfacrxlh6qjggdp2gbmn/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-http-date-6.02-kaodnrbugleadkj2d6dmmpunqdeg74ho/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-io-html-1.004-ajvzukijazeq33mnar45d66uebcowesk/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-lwp-mediatypes-6.02-qw37ifctnvoerqv5266eyqnbon5oqu6z/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-try-tiny-0.31-kxe4fyatmf7rikvngyyqnlzjv2rgo5dq/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-uri-5.08-c7vatj7qwhicdqwematinnifeqmtiade/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-io-stringy-2.111-6xvxisedltkftzxhoi6f56wcugzwxj2l/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-ipc-run-20220807.0-ixfwzdqt2dbsqxk42n7edqc2fnac5p2m/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-io-tty-1.17-d6znwuah4nletarmwu42udfxjjwq7m7q/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-libwww-perl-6.68-54fbge7bahfikslhtcqvfzgl3ytkxup3/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-file-listing-6.04-mmfxbcbh6r4qdwxsw7rccrte3oevfdjq/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-html-parser-3.72-ogevb2dna3xrshhw2zm4k5beow6bqkpc/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-html-tagset-3.20-h6qhgjgl2rvmjziyberfurdnkc7hmtsp/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-http-cookies-6.10-6vdz54hj5l4is75s36gqicpdc5fjr6ni/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-http-daemon-6.01-ahan4a7pulhhahldioy4ojhuuzb5z32i/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-http-negotiate-6.01-k4hzwnp3igjws43ktbmhq2nnrjsktce7/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-net-http-6.22-vcbgjb3d5i6xctdli5med2mnsr63t7aa/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-www-robotrules-6.02-jxb5st6holvuezsz6b3sra26f4evpcst/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-libxml-perl-0.08-ha7uurcr5f4xg3vhe7q4in34iafutqlx/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-list-moreutils-0.430-3xzhqky7wh5yyr3egqkf6vikdjlyyqyk/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-exporter-tiny-1.006002-g3ofamwbighmr4ma4kaslrt7hfciklms/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-list-moreutils-xs-0.430-guiuzgtnftgmevegno7dkyqcvlizrsut/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-module-build-0.4232-wdn6u353uuool4hu46ohv7ujnha76r6w/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-set-scalar-1.29-l7msjzrcbhrlzbs4usmdze6nkqkozbn6/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-test-most-0.38-nxahf4b6mpnpgwhcdrsikiu6hfmn5xx5/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-exception-class-1.45-t5yy5qlayz2vbztdih23dlbajclnwhpn/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-class-data-inheritable-0.08-amjadsuhj75r25hjlra7l3snp6ggac73/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-devel-stacktrace-2.04-ailnskgbtgaedrnkjuxnbomlfvsemlla/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-test-deep-1.204-eg5s6qmrihxfamb5oswv34dppdfkc3bd/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-test-differences-0.69-xsgxqueoq6syq6n3nexh7qj7kpsuvmah/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-capture-tiny-0.48-il3jaqf2upunnzkzlotqopvqx2s3iz3i/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-text-diff-1.45-6yjxv4zdcupi5ek5rtbonudqwoota2ag/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-algorithm-diff-1.1903-66djhhbopf42ojrt54s2tpbulicbmxoo/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-test-exception-0.43-4nwuxhcxzhhn2yk3aj3ynjswvpyvhjy7/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-sub-uplevel-0.2800-jss357ct2ifo6fobdh4ec3su33mixbh7/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-test-warn-0.30-oop3kmff3gq72spktyek6xyx7vbm2omi/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-test-requiresinternet-0.05-j6viqrpa5bxgc4mnokx6duw6jwoo3jcb/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-dom-1.46-zr3vz62vh3kykubqs4v7zxr4emkea4hc/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-parser-2.46-cecp7xpe4wv3iqp3wtv25ytinzrgkay5/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-regexp-0.04-zb6nmbelftis6gx7crhejhqve45ka4wu/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-dom-xpath-0.14-gglkthdq2jnt5clpupbdbbnd7sklfo7m/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-xpathengine-0.14-njmd7kmm4i5j5cutagt2sv5ljvx5b75k/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-libxml-2.0201-7lr7732o3r7oya5u52ky3cx3dibp4r7g/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-namespacesupport-1.12_9-vz42efugx2pyx4wytuqm5xhnzre376kt/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-sax-1.02-kd3mvqlczikkc3bc5eib2ed24jsdfqph/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-sax-base-1.09-z4abcifhwmhh3fbnudv3nhcvawe2kv7m/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-sax-writer-0.57-rjw754swirs3to7ucbq45mtjg57xpdfr/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-filter-buffertext-1.01-l6gexlgy62irprrlmcrhpir6tsfe3doe/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-twig-3.52-y76nvxztr6rrd7dqb3quao2shvvpicic/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-writer-0.900-kgjhcfpmxqlhrolc6advoag7zmzcqe2p/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-yaml-1.30-qdvonqngv35aakaerkfxhaeitg7wwfjt/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-simple-2.25-hkgfq3u63vgyhk5wsmattxsyi3l2owuu/lib/perl5" + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/py-biopython-1.81-gcc-11.3.0-cj6auol b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/py-biopython-1.81-gcc-11.3.0-cj6auol new file mode 100644 index 00000000..f0700a70 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/py-biopython-1.81-gcc-11.3.0-cj6auol @@ -0,0 +1,27 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:06.886158 +## +## py-biopython@1.81%gcc@11.3.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v2/cj6auol +## + + +module-whatis "A distributed collaborative effort to develop Python libraries and applications which address the needs of current and future work in bioinformatics. " + +proc ModulesHelp { } { + puts stderr "Name : py-biopython" + puts stderr "Version: 1.81" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "A distributed collaborative effort to develop Python libraries and" + puts stderr "applications which address the needs of current and future work in" + puts stderr "bioinformatics." +} + +module load py-numpy-1.24.3-gcc-11.3.0-ncgncvg +module load python-3.10.10-gcc-11.3.0-flhvzx3 + +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-biopython-1.81-cj6auolz5yfeuzghg3t3u6fwusd2h2tv/." +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-biopython-1.81-cj6auolz5yfeuzghg3t3u6fwusd2h2tv/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-numpy-1.24.3-ncgncvgk3wg73eqiitkkumoniwwv5fnv/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-setuptools-63.4.3-lbj7d45k7odyhqivr4lk5oqyfeymtkux/lib/python3.10/site-packages" + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/py-cutadapt-4.1-gcc-11.3.0-6dky5mb b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/py-cutadapt-4.1-gcc-11.3.0-6dky5mb new file mode 100644 index 00000000..70a6780f --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/py-cutadapt-4.1-gcc-11.3.0-6dky5mb @@ -0,0 +1,34 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:06.924095 +## +## py-cutadapt@4.1%gcc@11.3.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v2/6dky5mb +## + + +module-whatis "Cutadapt finds and removes adapter sequences, primers, poly-A tails and other types of unwanted sequence from your high-throughput sequencing reads." + +proc ModulesHelp { } { + puts stderr "Name : py-cutadapt" + puts stderr "Version: 4.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Cutadapt finds and removes adapter sequences, primers, poly-A tails and" + puts stderr "other types of unwanted sequence from your high-throughput sequencing" + puts stderr "reads." +} + +module load py-cython-0.29.33-gcc-11.3.0-j7dz4z7 +module load py-dnaio-0.9.1-gcc-11.3.0-jznzkvz +module load py-setuptools-67.6.0-gcc-11.3.0-73pqhmi +module load py-xopen-1.6.0-gcc-11.3.0-52h5otw +module load python-3.10.10-gcc-11.3.0-v5jpfln + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-cutadapt-4.1-6dky5mbuhynqawfulalwagccwklceowo/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-cutadapt-4.1-6dky5mbuhynqawfulalwagccwklceowo/." +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-cutadapt-4.1-6dky5mbuhynqawfulalwagccwklceowo/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-cython-0.29.33-j7dz4z74r3ikjtz6pxss2xvrd4pvrmgb/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-setuptools-67.6.0-73pqhmiv63aez67x7bfchimen7vyv77c/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-dnaio-0.9.1-jznzkvzij3i64qtp2zcj2q6wupozegob/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-xopen-1.6.0-52h5otwse2pd77sufqjkdrf4cpjrykww/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-isal-1.1.0-g6p7ecdnswhcfssdslqylkuaxtjnrpsn/lib/python3.10/site-packages" + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/py-ipython-8.11.0-gcc-11.3.0-4pcirtq b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/py-ipython-8.11.0-gcc-11.3.0-4pcirtq new file mode 100644 index 00000000..e77efcdb --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/py-ipython-8.11.0-gcc-11.3.0-4pcirtq @@ -0,0 +1,53 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:07.006529 +## +## py-ipython@8.11.0%gcc@11.3.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v2/4pcirtq +## + + +module-whatis "IPython provides a rich toolkit to help you make the most out of using Python interactively." + +proc ModulesHelp { } { + puts stderr "Name : py-ipython" + puts stderr "Version: 8.11.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "IPython provides a rich toolkit to help you make the most out of using" + puts stderr "Python interactively." +} + +module load py-backcall-0.2.0-gcc-11.3.0-f4zjsvo +module load py-decorator-5.1.1-gcc-11.3.0-zapuwg5 +module load py-jedi-0.18.1-gcc-11.3.0-htl3isv +module load py-matplotlib-inline-0.1.6-gcc-11.3.0-5na5vuy +module load py-pexpect-4.8.0-gcc-11.3.0-scosptr +module load py-pickleshare-0.7.5-gcc-11.3.0-tdflqyb +module load py-prompt-toolkit-3.0.31-gcc-11.3.0-fjrair7 +module load py-pygments-2.13.0-gcc-11.3.0-gg3ti7m +module load py-stack-data-0.5.0-gcc-11.3.0-ure6wlg +module load py-traitlets-5.9.0-gcc-11.3.0-3zzoiqy +module load python-3.10.10-gcc-11.3.0-flhvzx3 + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-ipython-8.11.0-4pcirtqh4fxmboia3wnenqgn27zuutgi/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-ipython-8.11.0-4pcirtqh4fxmboia3wnenqgn27zuutgi/share/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-ipython-8.11.0-4pcirtqh4fxmboia3wnenqgn27zuutgi/." +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-ipython-8.11.0-4pcirtqh4fxmboia3wnenqgn27zuutgi/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-backcall-0.2.0-f4zjsvoxihy5gn4qm5qvhs7fgizzmuhf/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-decorator-5.1.1-zapuwg5hk52mc2f6hlkbw3rlwxvo73rh/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-jedi-0.18.1-htl3isvoyjvweqamx4xqwkwizs3jx2ol/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-parso-0.8.3-73nfmfmkrajwanojhfpk2yvfidjjjurj/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-setuptools-67.6.0-6zptasw65hqd5nybxil3qyqli5tcvvrm/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-matplotlib-inline-0.1.6-5na5vuybkq7c5yakkjsos6k4qe2x43pd/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-traitlets-5.9.0-3zzoiqyf3dppb23qocjwqbm7jyycl5nn/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-pexpect-4.8.0-scosptrdmvr2czdp3fy3zdc6frc7dddt/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-ptyprocess-0.7.0-b5bh5xkiyibixjs7s5o3qnlif5z7uyy3/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-pickleshare-0.7.5-tdflqybxogtgf5d4eimcnevk4tcybcdf/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-prompt-toolkit-3.0.31-fjrair7itbwei5kyc565egk4q5y5tnpx/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-wcwidth-0.2.5-damsrqpsjjbhaydviquwclgwi37nftln/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-pygments-2.13.0-gg3ti7m3zl27yi2cx2bjkhmck6lukaxx/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-stack-data-0.5.0-ure6wlgofolacxz7dtntfz3nbujhyexf/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-asttokens-2.0.8-4vgl3abkqkkavpmrnkvtbim3kfxf5p72/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-six-1.16.0-3gezqelwrpxlnssexhglquiiucclgbhz/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-executing-1.1.0-uclum6nftvoq4mn5tc6n47etktsfq36t/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-pure-eval-0.2.2-rj6e65cqwxsc6jqo26oxggo7fquaosf5/lib/python3.10/site-packages" + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/py-multiqc-1.13-gcc-11.3.0-zamjepc b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/py-multiqc-1.13-gcc-11.3.0-zamjepc new file mode 100644 index 00000000..81e432a1 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/py-multiqc-1.13-gcc-11.3.0-zamjepc @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:07.144721 +## +## py-multiqc@1.13%gcc@11.3.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v2/zamjepc +## + + +module-whatis "MultiQC is a tool to aggregate bioinformatics results across many samples into a single report. It is written in Python and contains modules for a large number of common bioinformatics tools." + +proc ModulesHelp { } { + puts stderr "Name : py-multiqc" + puts stderr "Version: 1.13" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "MultiQC is a tool to aggregate bioinformatics results across many" + puts stderr "samples into a single report. It is written in Python and contains" + puts stderr "modules for a large number of common bioinformatics tools." +} + +module load py-click-8.1.3-gcc-11.3.0-3ma5jud +module load py-coloredlogs-14.0-gcc-11.3.0-dr6kan5 +module load py-future-0.18.2-gcc-11.3.0-tsfsa6v +module load py-jinja2-3.1.2-gcc-11.3.0-kqgythe +module load py-lzstring-1.0.3-gcc-11.3.0-mz44fsi +module load py-markdown-3.4.1-gcc-11.3.0-oapg5ea +module load py-matplotlib-3.7.1-gcc-11.3.0-o26yn5b +module load py-networkx-2.7.1-gcc-11.3.0-6s3jxrp +module load py-numpy-1.24.3-gcc-11.3.0-ncgncvg +module load py-pyyaml-6.0-gcc-11.3.0-g5lynsl +module load py-requests-2.28.2-gcc-11.3.0-p6xo6ux +module load py-rich-12.5.1-gcc-11.3.0-hioqpea +module load py-rich-click-1.5.2-gcc-11.3.0-7o73zqy +module load py-simplejson-3.18.0-gcc-11.3.0-tc7ynh6 +module load py-spectra-0.0.11-gcc-11.3.0-wbeau3q +module load python-3.10.10-gcc-11.3.0-flhvzx3 + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-multiqc-1.13-zamjepcds5njcscnqi4xoh5jsflgqn6v/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-multiqc-1.13-zamjepcds5njcscnqi4xoh5jsflgqn6v/." +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-multiqc-1.13-zamjepcds5njcscnqi4xoh5jsflgqn6v/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-click-8.1.3-3ma5judmhmf6snhzz7qlrvjitea3yvae/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-coloredlogs-14.0-dr6kan5jtoi4zwowbnujr24wlqxiuinm/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-humanfriendly-8.2-y7trim4hx4fna4lve22tpan44zfpofjy/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-future-0.18.2-tsfsa6vcjwzrv6opyy26cchmp4msf47v/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-jinja2-3.1.2-kqgytheuz7mudmc2ls4sjdlbjor7ig47/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-markupsafe-2.1.1-qb4sm6knupnbdth4a74nzuquronrxdsk/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-lzstring-1.0.3-mz44fsir3h4thkdgozlv33fzeuwlqxwy/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-markdown-3.4.1-oapg5eavwl7qkm3bgmafwadzreqvp47t/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-matplotlib-3.7.1-o26yn5bpu2eupgk6jarnbariwexq5aye/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-contourpy-1.0.5-pbksj6frfrastamgk2jttz2rbx6xzayt/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-numpy-1.24.3-ncgncvgk3wg73eqiitkkumoniwwv5fnv/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-setuptools-63.4.3-lbj7d45k7odyhqivr4lk5oqyfeymtkux/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-cycler-0.11.0-jb4275pnm7hbn7hthddnlwpzatbecpaw/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-fonttools-4.37.3-hk43we6pasaw4lmenav75vnz2gcusid4/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-kiwisolver-1.4.4-2hrb757fm255ofquczrzy6hq4xg5o6gz/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-packaging-23.0-guzysrx46md3mjvnsetxoui22uce5vwm/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-pillow-9.5.0-fvsebbblokzqdhycxej32hz5mdnfrv7o/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-pyparsing-3.0.9-udtuyywx67y6fhejp35vjiezfaff6pu3/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-python-dateutil-2.8.2-3npk57crmmsp3ms6sc346qcs5a7pgu5v/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-six-1.16.0-n5ow3krhvn3dl7zwzvmfwpa7wpmbfepd/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-networkx-2.7.1-6s3jxrpzemspv2gceoheq5il3iyvdxha/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-pyyaml-6.0-g5lynslqx7snn37vynvkoz7zy3igxxzg/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-requests-2.28.2-p6xo6uxkibv7m6db2m7c3e35yzhirwtq/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-certifi-2022.12.7-sau7o3xww6hsi7mqssvfi4c6w5ivwczm/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-charset-normalizer-2.0.12-g7wsf5zrorhmcjk7idaccand2rj6ft7x/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-idna-3.4-swwai53tdrzuhua3763iutvnqpvmuu6d/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-urllib3-1.26.12-mtbxcs6qyhnnzca5efe4vneeq3vn6no5/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-rich-12.5.1-hioqpeag4o6i5kdbvxoqse75beokygjn/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-commonmark-0.9.1-xljr434yjia6dflfw7c57jfd5cyqgdgo/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-pygments-2.13.0-rdir7axjhdt3nta3ibdppvcffav7z45g/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-rich-click-1.5.2-7o73zqyactywutcjmps5swx6yyq7xlxe/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-simplejson-3.18.0-tc7ynh6c67ida3ile5m42hmu64q3p354/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-spectra-0.0.11-wbeau3qm6pz5mlrmx55gu647wbgndjby/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-colormath-3.0.0-xwxmkjiw2ugsusbcsv2dgotang5gwhrk/lib/python3.10/site-packages" + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/qualimap-2.2.1-gcc-11.3.0-lhnibrw b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/qualimap-2.2.1-gcc-11.3.0-lhnibrw new file mode 100644 index 00000000..9dc5dffd --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/qualimap-2.2.1-gcc-11.3.0-lhnibrw @@ -0,0 +1,25 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:07.390410 +## +## qualimap@2.2.1%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/lhnibrw +## + + +module-whatis "Qualimap 2 is a platform-independent application written in Java and R that provides both a Graphical User Inteface (GUI) and a command-line interface to facilitate the quality control of alignment sequencing data and its derivatives like feature counts." + +proc ModulesHelp { } { + puts stderr "Name : qualimap" + puts stderr "Version: 2.2.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Qualimap 2 is a platform-independent application written in Java and R" + puts stderr "that provides both a Graphical User Inteface (GUI) and a command-line" + puts stderr "interface to facilitate the quality control of alignment sequencing data" + puts stderr "and its derivatives like feature counts." +} + +module load openjdk-11.0.17_8-gcc-11.3.0-oucx2ae + +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/qualimap-2.2.1-lhnibrwdpqmoq76ebi4k46hqtcmflihn/." +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/qualimap-2.2.1-lhnibrwdpqmoq76ebi4k46hqtcmflihn" + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/quantum-espresso-7.1-gcc-11.3.0-5b2l55k b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/quantum-espresso-7.1-gcc-11.3.0-5b2l55k new file mode 100644 index 00000000..2066f73b --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/quantum-espresso-7.1-gcc-11.3.0-5b2l55k @@ -0,0 +1,30 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:03.691593 +## +## quantum-espresso@7.1%gcc@11.3.0~elpa+epw~ipo~libxc+mpi~nvtx+openmp+patch~qmcpack+scalapack build_system=cmake build_type=Release generator=make hdf5=none patches=5075f2d,e54d33e arch=linux-ubuntu22.04-x86_64_v2/5b2l55k +## + + +module-whatis "Quantum ESPRESSO is an integrated suite of Open-Source computer codes for electronic-structure calculations and materials modeling at the nanoscale. It is based on density-functional theory, plane waves, and pseudopotentials. " + +proc ModulesHelp { } { + puts stderr "Name : quantum-espresso" + puts stderr "Version: 7.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Quantum ESPRESSO is an integrated suite of Open-Source computer codes" + puts stderr "for electronic-structure calculations and materials modeling at the" + puts stderr "nanoscale. It is based on density-functional theory, plane waves, and" + puts stderr "pseudopotentials." +} + +module load amdblis-4.0-gcc-11.3.0-tno2qoo +module load amdlibflame-4.0-gcc-11.3.0-dfpoekq +module load fftw-3.3.10-gcc-11.3.0-pr4hd22 +module load netlib-scalapack-2.2.0-gcc-11.3.0-jbayzp2 +module load openmpi-4.1.5-gcc-11.3.0-63v4xd2 + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/quantum-espresso-7.1-5b2l55kljqbujsil3jy2j2naqzlzcje5/bin" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/quantum-espresso-7.1-5b2l55kljqbujsil3jy2j2naqzlzcje5/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/quantum-espresso-7.1-5b2l55kljqbujsil3jy2j2naqzlzcje5/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/raxml-ng-1.1.0-gcc-11.3.0-aou7ovq b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/raxml-ng-1.1.0-gcc-11.3.0-aou7ovq new file mode 100644 index 00000000..c9241afd --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/raxml-ng-1.1.0-gcc-11.3.0-aou7ovq @@ -0,0 +1,33 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:07.411151 +## +## raxml-ng@1.1.0%gcc@11.3.0~ipo+mpi build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v2/aou7ovq +## +## Configure options: -DUSE_MPI:BOOL=ON +## + + +module-whatis "RAxML-NG is a phylogenetic tree inference tool which uses maximum-likelihood (ML) optimality criterion." + +proc ModulesHelp { } { + puts stderr "Name : raxml-ng" + puts stderr "Version: 1.1.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "RAxML-NG is a phylogenetic tree inference tool which uses maximum-" + puts stderr "likelihood (ML) optimality criterion. Its search heuristic is based on" + puts stderr "iteratively performing a series of Subtree Pruning and Regrafting (SPR)" + puts stderr "moves, which allows to quickly navigate to the best-known ML tree." + puts stderr "RAxML-NG is a successor of RAxML (Stamatakis 2014) and leverages the" + puts stderr "highly optimized likelihood computation implemented in libpll (Flouri et" + puts stderr "al. 2014)." +} + +module load bison-3.8.2-gcc-11.3.0-otnfrl5 +module load flex-2.6.3-gcc-11.3.0-nuovbl2 +module load gmp-6.2.1-gcc-11.3.0-qyjndnv +module load openmpi-4.1.5-gcc-11.3.0-63v4xd2 + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/raxml-ng-1.1.0-aou7ovq3io7gtgknc7tocux37uhsqjah/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/raxml-ng-1.1.0-aou7ovq3io7gtgknc7tocux37uhsqjah/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/raxml-ng-1.1.0-gcc-11.3.0-ilqdl34 b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/raxml-ng-1.1.0-gcc-11.3.0-ilqdl34 new file mode 100644 index 00000000..5c6750e6 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/raxml-ng-1.1.0-gcc-11.3.0-ilqdl34 @@ -0,0 +1,33 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:38.615222 +## +## raxml-ng@1.1.0%gcc@11.3.0~ipo+mpi build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v2/ilqdl34 +## +## Configure options: -DUSE_MPI:BOOL=ON +## + + +module-whatis "RAxML-NG is a phylogenetic tree inference tool which uses maximum-likelihood (ML) optimality criterion." + +proc ModulesHelp { } { + puts stderr "Name : raxml-ng" + puts stderr "Version: 1.1.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "RAxML-NG is a phylogenetic tree inference tool which uses maximum-" + puts stderr "likelihood (ML) optimality criterion. Its search heuristic is based on" + puts stderr "iteratively performing a series of Subtree Pruning and Regrafting (SPR)" + puts stderr "moves, which allows to quickly navigate to the best-known ML tree." + puts stderr "RAxML-NG is a successor of RAxML (Stamatakis 2014) and leverages the" + puts stderr "highly optimized likelihood computation implemented in libpll (Flouri et" + puts stderr "al. 2014)." +} + +module load bison-3.8.2-gcc-11.3.0-otnfrl5 +module load flex-2.6.4-gcc-11.3.0-lxvkqdz +module load gmp-6.2.1-gcc-11.3.0-s6757r7 +module load openmpi-4.1.5-gcc-11.3.0-63v4xd2 + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/raxml-ng-1.1.0-ilqdl34mzup3dswijs2rqbux4tke4n3c/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/raxml-ng-1.1.0-ilqdl34mzup3dswijs2rqbux4tke4n3c/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/ray-2.3.1-gcc-11.3.0-tq2zguw b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/ray-2.3.1-gcc-11.3.0-tq2zguw new file mode 100644 index 00000000..5e892883 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/ray-2.3.1-gcc-11.3.0-tq2zguw @@ -0,0 +1,22 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:07.456531 +## +## ray@2.3.1%gcc@11.3.0~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v2/tq2zguw +## + + +module-whatis "Parallel genome assemblies for parallel DNA sequencing" + +proc ModulesHelp { } { + puts stderr "Name : ray" + puts stderr "Version: 2.3.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Parallel genome assemblies for parallel DNA sequencing" +} + +module load openmpi-4.1.5-gcc-11.3.0-63v4xd2 + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ray-2.3.1-tq2zguwhxjyvehnzywkm77vbgscj4pk3/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ray-2.3.1-tq2zguwhxjyvehnzywkm77vbgscj4pk3/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/rclone-1.62.2-gcc-11.3.0-2bvb6ng b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/rclone-1.62.2-gcc-11.3.0-2bvb6ng new file mode 100644 index 00000000..561b80ac --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/rclone-1.62.2-gcc-11.3.0-2bvb6ng @@ -0,0 +1,22 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:03.745515 +## +## rclone@1.62.2%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/2bvb6ng +## + + +module-whatis "Rclone is a command line program to sync files and directories to and from various cloud storage providers" + +proc ModulesHelp { } { + puts stderr "Name : rclone" + puts stderr "Version: 1.62.2" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Rclone is a command line program to sync files and directories to and" + puts stderr "from various cloud storage providers" +} + + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/rclone-1.62.2-2bvb6ngsrxag6e47jvedivqgoecjx6to/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/rclone-1.62.2-2bvb6ngsrxag6e47jvedivqgoecjx6to/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/recon-1.05-gcc-11.3.0-25sri4b b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/recon-1.05-gcc-11.3.0-25sri4b new file mode 100644 index 00000000..9706055c --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/recon-1.05-gcc-11.3.0-25sri4b @@ -0,0 +1,23 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:38.660244 +## +## recon@1.05%gcc@11.3.0+repeatmasker build_system=makefile patches=18a7a0b arch=linux-ubuntu22.04-x86_64_v2/25sri4b +## + + +module-whatis "RECON: a package for automated de novo identification of repeat families from genomic sequences." + +proc ModulesHelp { } { + puts stderr "Name : recon" + puts stderr "Version: 1.05" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "RECON: a package for automated de novo identification of repeat families" + puts stderr "from genomic sequences." +} + +module load perl-5.36.0-gcc-11.3.0-a36qqup + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/recon-1.05-25sri4bpvey53smefh4wbn45z5un5rbb/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/recon-1.05-25sri4bpvey53smefh4wbn45z5un5rbb/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/recon-1.05-gcc-11.3.0-ul6oxpz b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/recon-1.05-gcc-11.3.0-ul6oxpz new file mode 100644 index 00000000..849e262c --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/recon-1.05-gcc-11.3.0-ul6oxpz @@ -0,0 +1,23 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:07.481347 +## +## recon@1.05%gcc@11.3.0~repeatmasker build_system=makefile arch=linux-ubuntu22.04-x86_64_v2/ul6oxpz +## + + +module-whatis "RECON: a package for automated de novo identification of repeat families from genomic sequences." + +proc ModulesHelp { } { + puts stderr "Name : recon" + puts stderr "Version: 1.05" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "RECON: a package for automated de novo identification of repeat families" + puts stderr "from genomic sequences." +} + +module load perl-5.36.0-gcc-11.3.0-65ysuw5 + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/recon-1.05-ul6oxpzej6nynrmyi7fp6pvdx46koyhs/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/recon-1.05-ul6oxpzej6nynrmyi7fp6pvdx46koyhs/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/repeatmasker-4.0.9-gcc-11.3.0-uh2z2ca b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/repeatmasker-4.0.9-gcc-11.3.0-uh2z2ca new file mode 100644 index 00000000..517c0fce --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/repeatmasker-4.0.9-gcc-11.3.0-uh2z2ca @@ -0,0 +1,28 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:38.682147 +## +## repeatmasker@4.0.9%gcc@11.3.0~crossmatch build_system=generic patches=b9e0ce5 arch=linux-ubuntu22.04-x86_64_v2/uh2z2ca +## + + +module-whatis "RepeatMasker is a program that screens DNA sequences for interspersed repeats and low complexity DNA sequences." + +proc ModulesHelp { } { + puts stderr "Name : repeatmasker" + puts stderr "Version: 4.0.9" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "RepeatMasker is a program that screens DNA sequences for interspersed" + puts stderr "repeats and low complexity DNA sequences." +} + +module load hmmer-3.3.2-gcc-11.3.0-csjsnjv +module load ncbi-rmblastn-2.11.0-gcc-11.3.0-akwejhv +module load perl-5.36.0-gcc-11.3.0-a36qqup +module load perl-text-soundex-3.05-gcc-11.3.0-k3fj4iy +module load trf-4.09.1-gcc-11.3.0-jdjeosy + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/repeatmasker-4.0.9-uh2z2cahttrwcxhgyjm7n6ajh47kg4kg/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/repeatmasker-4.0.9-uh2z2cahttrwcxhgyjm7n6ajh47kg4kg/." +prepend-path --delim ":" PERL5LIB "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-text-soundex-3.05-k3fj4iyeqad3lvfewlfstr6idxumvrg6/lib/perl5" + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/repeatmasker-4.1.2-p1-gcc-11.3.0-vrq4xu7 b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/repeatmasker-4.1.2-p1-gcc-11.3.0-vrq4xu7 new file mode 100644 index 00000000..fe0a6377 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/repeatmasker-4.1.2-p1-gcc-11.3.0-vrq4xu7 @@ -0,0 +1,34 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:07.502916 +## +## repeatmasker@4.1.2-p1%gcc@11.3.0~crossmatch build_system=generic arch=linux-ubuntu22.04-x86_64_v2/vrq4xu7 +## + + +module-whatis "RepeatMasker is a program that screens DNA sequences for interspersed repeats and low complexity DNA sequences." + +proc ModulesHelp { } { + puts stderr "Name : repeatmasker" + puts stderr "Version: 4.1.2-p1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "RepeatMasker is a program that screens DNA sequences for interspersed" + puts stderr "repeats and low complexity DNA sequences." +} + +module load hmmer-3.3.2-gcc-11.3.0-csjsnjv +module load ncbi-rmblastn-2.11.0-gcc-11.3.0-5l7qypb +module load perl-5.36.0-gcc-11.3.0-rp6rwls +module load perl-text-soundex-3.05-gcc-11.3.0-5s4ul4r +module load py-h5py-3.8.0-gcc-11.3.0-hwizrbg +module load python-3.10.10-gcc-11.3.0-v5jpfln +module load trf-4.09.1-gcc-11.3.0-jdjeosy + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/repeatmasker-4.1.2-p1-vrq4xu7fvpof25ai5jgup5fk2fuulxqc/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/repeatmasker-4.1.2-p1-vrq4xu7fvpof25ai5jgup5fk2fuulxqc/." +prepend-path --delim ":" PERL5LIB "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-text-soundex-3.05-5s4ul4r7zw2pidsz7ufypymp224v6djq/lib/perl5" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-h5py-3.8.0-hwizrbgvssmcsmtdbdeu2wabixg2fsne/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-mpi4py-3.1.4-5zr4s275vsanokoxxmn36xww5i6roex6/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-numpy-1.24.3-weuaipxfhdzjufh7dwrjpe7mbm3xvdp7/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-setuptools-63.4.3-eipobqg37cmma4kuuguhojfyvoorlzaq/lib/python3.10/site-packages" + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/repeatscout-1.0.5-gcc-11.3.0-gnhsqch b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/repeatscout-1.0.5-gcc-11.3.0-gnhsqch new file mode 100644 index 00000000..2ffa01e7 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/repeatscout-1.0.5-gcc-11.3.0-gnhsqch @@ -0,0 +1,25 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:38.731328 +## +## repeatscout@1.0.5%gcc@11.3.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v2/gnhsqch +## + + +module-whatis "RepeatScout - De Novo Repeat Finder, Price A.L., Jones N.C. and Pevzner P.A." + +proc ModulesHelp { } { + puts stderr "Name : repeatscout" + puts stderr "Version: 1.0.5" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "RepeatScout - De Novo Repeat Finder, Price A.L., Jones N.C. and Pevzner" + puts stderr "P.A." +} + +module load nseg-1.0-gcc-11.3.0-o4ojtx4 +module load perl-5.36.0-gcc-11.3.0-a36qqup +module load trf-4.09.1-gcc-11.3.0-jdjeosy + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/repeatscout-1.0.5-gnhsqchvqvfz2zu7aaurshpjdcyr5a4u/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/repeatscout-1.0.5-gnhsqchvqvfz2zu7aaurshpjdcyr5a4u/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/rsem-1.3.3-gcc-11.3.0-hzdpdim b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/rsem-1.3.3-gcc-11.3.0-hzdpdim new file mode 100644 index 00000000..1672f9c9 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/rsem-1.3.3-gcc-11.3.0-hzdpdim @@ -0,0 +1,29 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:07.623913 +## +## rsem@1.3.3%gcc@11.3.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v2/hzdpdim +## + + +module-whatis "RSEM is a software package for estimating gene and isoform expression levels from RNA-Seq data." + +proc ModulesHelp { } { + puts stderr "Name : rsem" + puts stderr "Version: 1.3.3" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "RSEM is a software package for estimating gene and isoform expression" + puts stderr "levels from RNA-Seq data." +} + +module load bowtie-1.3.1-gcc-11.3.0-givlfh7 +module load bowtie2-2.4.2-gcc-11.3.0-zrjum37 +module load perl-5.36.0-gcc-11.3.0-rp6rwls +module load python-3.10.10-gcc-11.3.0-v5jpfln +module load r-4.2.2-gcc-11.3.0-u4eerkm +module load star-2.7.6a-gcc-11.3.0-r2cavaz + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/rsem-1.3.3-hzdpdimjtx4coh4ay7ajp3r3pjiddqhg/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/rsem-1.3.3-hzdpdimjtx4coh4ay7ajp3r3pjiddqhg/." +setenv R_HOME "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/r-4.2.2-u4eerkm4ii7fyrdixtwbcwhzerobevmw/rlib/R" + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/salmon-1.10.1-gcc-11.3.0-4zt4etf b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/salmon-1.10.1-gcc-11.3.0-4zt4etf new file mode 100644 index 00000000..aa6d77d0 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/salmon-1.10.1-gcc-11.3.0-4zt4etf @@ -0,0 +1,37 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:07.676789 +## +## salmon@1.10.1%gcc@11.3.0~ipo build_system=cmake build_type=RELEASE generator=make arch=linux-ubuntu22.04-x86_64_v2/4zt4etf +## +## Configure options: -DBOOST_ROOT=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/boost-1.82.0-vokdyuhtoxwyzutrcarbiq5ucg2rb3iw +## + + +module-whatis "Salmon is a tool for quantifying the expression of transcripts using RNA-seq data." + +proc ModulesHelp { } { + puts stderr "Name : salmon" + puts stderr "Version: 1.10.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Salmon is a tool for quantifying the expression of transcripts using" + puts stderr "RNA-seq data." +} + +module load boost-1.82.0-gcc-11.3.0-vokdyuh +module load bzip2-1.0.8-gcc-11.3.0-dtsdvar +module load cereal-1.3.2-gcc-11.3.0-4lnmz7s +module load curl-8.0.1-gcc-11.3.0-lgk3gn3 +module load htscodecs-1.5.0-gcc-11.3.0-fcltgbt +module load intel-oneapi-tbb-2021.9.0-gcc-11.3.0-pdkleen +module load jemalloc-5.3.0-gcc-11.3.0-3hr65i5 +module load libdivsufsort-2.0.1-gcc-11.3.0-7pppt43 +module load libgff-2.0.0-gcc-11.3.0-sitgs5g +module load pkg-config-0.29.2-gcc-11.3.0-fme5w5p +module load staden-io-lib-1.14.8-gcc-11.3.0-fueqlyh +module load xz-5.4.1-gcc-11.3.0-gx6iuud +module load zlib-1.2.13-gcc-11.3.0-77qi6rv + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/salmon-1.10.1-4zt4etfmancb7yvs5r56xxxvsrvwup5o/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/salmon-1.10.1-4zt4etfmancb7yvs5r56xxxvsrvwup5o/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/satsuma2-2021-03-04-gcc-11.3.0-ifqsd4l b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/satsuma2-2021-03-04-gcc-11.3.0-ifqsd4l new file mode 100644 index 00000000..47e03c6f --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/satsuma2-2021-03-04-gcc-11.3.0-ifqsd4l @@ -0,0 +1,24 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:07.762754 +## +## satsuma2@2021-03-04%gcc@11.3.0~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v2/ifqsd4l +## + + +module-whatis "Satsuma2 is an optimsed version of Satsuma, a tool to reliably align large and complex DNA sequences providing maximum sensitivity (to find all there is to find), specificity (to only find real homology) and speed (to accomodate the billions of base pairs in vertebrate genomes). " + +proc ModulesHelp { } { + puts stderr "Name : satsuma2" + puts stderr "Version: 2021-03-04" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Satsuma2 is an optimsed version of Satsuma, a tool to reliably align" + puts stderr "large and complex DNA sequences providing maximum sensitivity (to find" + puts stderr "all there is to find), specificity (to only find real homology) and" + puts stderr "speed (to accomodate the billions of base pairs in vertebrate genomes)." +} + + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/satsuma2-2021-03-04-ifqsd4l52smgysicagrwxuinwhwx4hd3/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/satsuma2-2021-03-04-ifqsd4l52smgysicagrwxuinwhwx4hd3/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/seqtk-1.3-gcc-11.3.0-y7mwe34 b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/seqtk-1.3-gcc-11.3.0-y7mwe34 new file mode 100644 index 00000000..39a35658 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/seqtk-1.3-gcc-11.3.0-y7mwe34 @@ -0,0 +1,22 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:38.884436 +## +## seqtk@1.3%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/y7mwe34 +## + + +module-whatis "Toolkit for processing sequences in FASTA/Q formats." + +proc ModulesHelp { } { + puts stderr "Name : seqtk" + puts stderr "Version: 1.3" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Toolkit for processing sequences in FASTA/Q formats." +} + +module load zlib-1.2.13-gcc-11.3.0-lu7f4vc + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/seqtk-1.3-y7mwe34qvotyzuiow67aeamxrtngbsk6/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/seqtk-1.3-y7mwe34qvotyzuiow67aeamxrtngbsk6/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/slim-4.0.1-gcc-11.3.0-nhrgqyc b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/slim-4.0.1-gcc-11.3.0-nhrgqyc new file mode 100644 index 00000000..4673cd8b --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/slim-4.0.1-gcc-11.3.0-nhrgqyc @@ -0,0 +1,23 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:07.783538 +## +## slim@4.0.1%gcc@11.3.0~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v2/nhrgqyc +## + + +module-whatis "SLiM is an evolutionary simulation framework that combines a powerful engine for population genetic simulations with the capability of modeling arbitrarily complex evolutionary scenarios." + +proc ModulesHelp { } { + puts stderr "Name : slim" + puts stderr "Version: 4.0.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "SLiM is an evolutionary simulation framework that combines a powerful" + puts stderr "engine for population genetic simulations with the capability of" + puts stderr "modeling arbitrarily complex evolutionary scenarios." +} + + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/slim-4.0.1-nhrgqychd4xypgikyjdjale5ybrx7pua/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/slim-4.0.1-nhrgqychd4xypgikyjdjale5ybrx7pua/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/snap-korf-2021-11-04-gcc-11.3.0-7ssbrib b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/snap-korf-2021-11-04-gcc-11.3.0-7ssbrib new file mode 100644 index 00000000..de967a04 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/snap-korf-2021-11-04-gcc-11.3.0-7ssbrib @@ -0,0 +1,25 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:38.927261 +## +## snap-korf@2021-11-04%gcc@11.3.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v2/7ssbrib +## + + +module-whatis "SNAP is a general purpose gene finding program suitable for both eukaryotic and prokaryotic genomes." + +proc ModulesHelp { } { + puts stderr "Name : snap-korf" + puts stderr "Version: 2021-11-04" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "SNAP is a general purpose gene finding program suitable for both" + puts stderr "eukaryotic and prokaryotic genomes." +} + +module load perl-5.36.0-gcc-11.3.0-a36qqup + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/snap-korf-2021-11-04-7ssbribul2xcmwt3khjkoo2ckcq4dh76/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/snap-korf-2021-11-04-7ssbribul2xcmwt3khjkoo2ckcq4dh76/." +setenv ZOE "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/snap-korf-2021-11-04-7ssbribul2xcmwt3khjkoo2ckcq4dh76" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/snap-korf-2021-11-04-7ssbribul2xcmwt3khjkoo2ckcq4dh76" + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/sortmerna-2017-07-13-gcc-11.3.0-tdhweas b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/sortmerna-2017-07-13-gcc-11.3.0-tdhweas new file mode 100644 index 00000000..6a270229 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/sortmerna-2017-07-13-gcc-11.3.0-tdhweas @@ -0,0 +1,23 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:07.805194 +## +## sortmerna@2017-07-13%gcc@11.3.0~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v2/tdhweas +## + + +module-whatis "SortMeRNA is a program tool for filtering, mapping and OTU-picking NGS reads in metatranscriptomic and metagenomic data" + +proc ModulesHelp { } { + puts stderr "Name : sortmerna" + puts stderr "Version: 2017-07-13" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "SortMeRNA is a program tool for filtering, mapping and OTU-picking NGS" + puts stderr "reads in metatranscriptomic and metagenomic data" +} + +module load zlib-1.2.13-gcc-11.3.0-77qi6rv + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/sortmerna-2017-07-13-tdhweaspfbwttv6c7f3e2vfgzbdnl367/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/sortmerna-2017-07-13-tdhweaspfbwttv6c7f3e2vfgzbdnl367/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/sortmerna-2017-07-13-gcc-11.3.0-v56f5fb b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/sortmerna-2017-07-13-gcc-11.3.0-v56f5fb new file mode 100644 index 00000000..90ddf321 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/sortmerna-2017-07-13-gcc-11.3.0-v56f5fb @@ -0,0 +1,23 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:38.951085 +## +## sortmerna@2017-07-13%gcc@11.3.0~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v2/v56f5fb +## + + +module-whatis "SortMeRNA is a program tool for filtering, mapping and OTU-picking NGS reads in metatranscriptomic and metagenomic data" + +proc ModulesHelp { } { + puts stderr "Name : sortmerna" + puts stderr "Version: 2017-07-13" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "SortMeRNA is a program tool for filtering, mapping and OTU-picking NGS" + puts stderr "reads in metatranscriptomic and metagenomic data" +} + +module load zlib-1.2.13-gcc-11.3.0-lu7f4vc + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/sortmerna-2017-07-13-v56f5fbhczjnegkishmpwlas6yn57tn5/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/sortmerna-2017-07-13-v56f5fbhczjnegkishmpwlas6yn57tn5/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/spades-3.15.5-gcc-11.3.0-fstskwk b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/spades-3.15.5-gcc-11.3.0-fstskwk new file mode 100644 index 00000000..a5bbfd9d --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/spades-3.15.5-gcc-11.3.0-fstskwk @@ -0,0 +1,25 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:07.830376 +## +## spades@3.15.5%gcc@11.3.0~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v2/fstskwk +## + + +module-whatis "SPAdes - St. Petersburg genome assembler - is intended for both standard isolates and single-cell MDA bacteria assemblies." + +proc ModulesHelp { } { + puts stderr "Name : spades" + puts stderr "Version: 3.15.5" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "SPAdes - St. Petersburg genome assembler - is intended for both standard" + puts stderr "isolates and single-cell MDA bacteria assemblies." +} + +module load bzip2-1.0.8-gcc-11.3.0-dtsdvar +module load python-3.10.10-gcc-11.3.0-flhvzx3 +module load zlib-1.2.13-gcc-11.3.0-77qi6rv + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/spades-3.15.5-fstskwkc3ghbgp4oyqyqzamy3naxxev3/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/spades-3.15.5-fstskwkc3ghbgp4oyqyqzamy3naxxev3/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/spades-3.15.5-gcc-11.3.0-xgipdsx b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/spades-3.15.5-gcc-11.3.0-xgipdsx new file mode 100644 index 00000000..fe9f1da1 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/spades-3.15.5-gcc-11.3.0-xgipdsx @@ -0,0 +1,25 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:38.976105 +## +## spades@3.15.5%gcc@11.3.0~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v2/xgipdsx +## + + +module-whatis "SPAdes - St. Petersburg genome assembler - is intended for both standard isolates and single-cell MDA bacteria assemblies." + +proc ModulesHelp { } { + puts stderr "Name : spades" + puts stderr "Version: 3.15.5" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "SPAdes - St. Petersburg genome assembler - is intended for both standard" + puts stderr "isolates and single-cell MDA bacteria assemblies." +} + +module load bzip2-1.0.8-gcc-11.3.0-dtsdvar +module load python-3.10.10-gcc-11.3.0-dstxvfi +module load zlib-1.2.13-gcc-11.3.0-lu7f4vc + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/spades-3.15.5-xgipdsx4pvwdf64nj5xrg3ykxnj72nzc/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/spades-3.15.5-xgipdsx4pvwdf64nj5xrg3ykxnj72nzc/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/star-2.7.6a-gcc-11.3.0-sxwrzj6 b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/star-2.7.6a-gcc-11.3.0-sxwrzj6 new file mode 100644 index 00000000..283b00d0 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/star-2.7.6a-gcc-11.3.0-sxwrzj6 @@ -0,0 +1,22 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:39.012277 +## +## star@2.7.6a%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/sxwrzj6 +## + + +module-whatis "STAR is an ultrafast universal RNA-seq aligner." + +proc ModulesHelp { } { + puts stderr "Name : star" + puts stderr "Version: 2.7.6a" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "STAR is an ultrafast universal RNA-seq aligner." +} + +module load zlib-1.2.13-gcc-11.3.0-lu7f4vc + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/star-2.7.6a-sxwrzj6b3g52bgymem2bpqvfpj2bfvjh/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/star-2.7.6a-sxwrzj6b3g52bgymem2bpqvfpj2bfvjh/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/tabix-2013-12-16-gcc-11.3.0-kr2vxes b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/tabix-2013-12-16-gcc-11.3.0-kr2vxes new file mode 100644 index 00000000..55d78b40 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/tabix-2013-12-16-gcc-11.3.0-kr2vxes @@ -0,0 +1,25 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:39.033490 +## +## tabix@2013-12-16%gcc@11.3.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v2/kr2vxes +## + + +module-whatis "Generic indexer for TAB-delimited genome position files" + +proc ModulesHelp { } { + puts stderr "Name : tabix" + puts stderr "Version: 2013-12-16" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Generic indexer for TAB-delimited genome position files" +} + +module load perl-5.36.0-gcc-11.3.0-a36qqup +module load python-3.10.10-gcc-11.3.0-dstxvfi +module load zlib-1.2.13-gcc-11.3.0-lu7f4vc + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/tabix-2013-12-16-kr2vxesdxvnqlhgfropqbenpjffsijvs/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/tabix-2013-12-16-kr2vxesdxvnqlhgfropqbenpjffsijvs/share/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/tabix-2013-12-16-kr2vxesdxvnqlhgfropqbenpjffsijvs/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/tassel-5.2.86-gcc-11.3.0-df7y4rl b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/tassel-5.2.86-gcc-11.3.0-df7y4rl new file mode 100644 index 00000000..27c7d65b --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/tassel-5.2.86-gcc-11.3.0-df7y4rl @@ -0,0 +1,25 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:39.067491 +## +## tassel@5.2.86%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/df7y4rl +## + + +module-whatis "TASSEL is a software package to evaluate traits associations, evolutionary patterns, and linkage disequilibrium." + +proc ModulesHelp { } { + puts stderr "Name : tassel" + puts stderr "Version: 5.2.86" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "TASSEL is a software package to evaluate traits associations," + puts stderr "evolutionary patterns, and linkage disequilibrium." +} + +module load openjdk-16.0.2-gcc-11.3.0-4yopvxz +module load perl-5.36.0-gcc-11.3.0-a36qqup + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/tassel-5.2.86-df7y4rlyiqnaqdufgipxtso7bq6qrcq5/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/tassel-5.2.86-df7y4rlyiqnaqdufgipxtso7bq6qrcq5/." +prepend-path --delim ":" CLASSPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/tassel-5.2.86-df7y4rlyiqnaqdufgipxtso7bq6qrcq5/bin/lib" + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/tassel-5.2.86-gcc-11.3.0-kg624di b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/tassel-5.2.86-gcc-11.3.0-kg624di new file mode 100644 index 00000000..0421816e --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/tassel-5.2.86-gcc-11.3.0-kg624di @@ -0,0 +1,25 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:07.867385 +## +## tassel@5.2.86%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/kg624di +## + + +module-whatis "TASSEL is a software package to evaluate traits associations, evolutionary patterns, and linkage disequilibrium." + +proc ModulesHelp { } { + puts stderr "Name : tassel" + puts stderr "Version: 5.2.86" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "TASSEL is a software package to evaluate traits associations," + puts stderr "evolutionary patterns, and linkage disequilibrium." +} + +module load openjdk-11.0.17_8-gcc-11.3.0-oucx2ae +module load perl-5.36.0-gcc-11.3.0-rp6rwls + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/tassel-5.2.86-kg624dihtwzmegho4ue7wewwhibyi26f/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/tassel-5.2.86-kg624dihtwzmegho4ue7wewwhibyi26f/." +prepend-path --delim ":" CLASSPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/tassel-5.2.86-kg624dihtwzmegho4ue7wewwhibyi26f/bin/lib" + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/trimgalore-0.6.6-gcc-11.3.0-bqcukcx b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/trimgalore-0.6.6-gcc-11.3.0-bqcukcx new file mode 100644 index 00000000..2e082695 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/trimgalore-0.6.6-gcc-11.3.0-bqcukcx @@ -0,0 +1,32 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:07.894970 +## +## trimgalore@0.6.6%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/bqcukcx +## + + +module-whatis "Trim Galore! is a wrapper around Cutadapt and FastQC to consistently apply adapter and quality trimming to FastQ files, with extra functionality for RRBS data." + +proc ModulesHelp { } { + puts stderr "Name : trimgalore" + puts stderr "Version: 0.6.6" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Trim Galore! is a wrapper around Cutadapt and FastQC to consistently" + puts stderr "apply adapter and quality trimming to FastQ files, with extra" + puts stderr "functionality for RRBS data." +} + +module load fastqc-0.11.9-gcc-11.3.0-yjnufpo +module load perl-5.36.0-gcc-11.3.0-rp6rwls +module load py-cutadapt-4.1-gcc-11.3.0-6dky5mb + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/trimgalore-0.6.6-bqcukcxv566kwgohwsv7ijutpucpcnqu/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/trimgalore-0.6.6-bqcukcxv566kwgohwsv7ijutpucpcnqu/." +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-cutadapt-4.1-6dky5mbuhynqawfulalwagccwklceowo/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-cython-0.29.33-j7dz4z74r3ikjtz6pxss2xvrd4pvrmgb/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-setuptools-67.6.0-73pqhmiv63aez67x7bfchimen7vyv77c/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-dnaio-0.9.1-jznzkvzij3i64qtp2zcj2q6wupozegob/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-xopen-1.6.0-52h5otwse2pd77sufqjkdrf4cpjrykww/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-isal-1.1.0-g6p7ecdnswhcfssdslqylkuaxtjnrpsn/lib/python3.10/site-packages" + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/trimmomatic-0.39-gcc-11.3.0-jepchvk b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/trimmomatic-0.39-gcc-11.3.0-jepchvk new file mode 100644 index 00000000..b4fc76da --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/trimmomatic-0.39-gcc-11.3.0-jepchvk @@ -0,0 +1,22 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:07.949550 +## +## trimmomatic@0.39%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/jepchvk +## + + +module-whatis "A flexible read trimming tool for Illumina NGS data." + +proc ModulesHelp { } { + puts stderr "Name : trimmomatic" + puts stderr "Version: 0.39" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "A flexible read trimming tool for Illumina NGS data." +} + +module load openjdk-11.0.17_8-gcc-11.3.0-oucx2ae + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/trimmomatic-0.39-jepchvk5eyl5epetnovxjvckm6v2bkr4/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/trimmomatic-0.39-jepchvk5eyl5epetnovxjvckm6v2bkr4/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/turbovnc-3.0.3-gcc-11.3.0-nsfg5xw b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/turbovnc-3.0.3-gcc-11.3.0-nsfg5xw new file mode 100644 index 00000000..ba885e57 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/turbovnc-3.0.3-gcc-11.3.0-nsfg5xw @@ -0,0 +1,28 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:03.769310 +## +## turbovnc@3.0.3%gcc@11.3.0~ipo+libjpeg-turbo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v2/nsfg5xw +## +## Configure options: -DG:STRING=NMake Makefiles -DCMAKE_BUILD_TYPE:STRING=Release -DTJPEG_INCLUDE_DIR:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libjpeg-turbo-2.1.5-2ov4shd6myycxsfbzzebxepvxig4ei2p/include -DTJPEG_LIBRARY:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libjpeg-turbo-2.1.5-2ov4shd6myycxsfbzzebxepvxig4ei2p/lib/libturbojpeg.so +## + + +module-whatis "TurboVNC is a derivative of VNC (Virtual Network Computing) that is tuned to provide peak performance for 3D and video workloads." + +proc ModulesHelp { } { + puts stderr "Name : turbovnc" + puts stderr "Version: 3.0.3" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "TurboVNC is a derivative of VNC (Virtual Network Computing) that is" + puts stderr "tuned to provide peak performance for 3D and video workloads." +} + +module load libjpeg-turbo-2.1.5-gcc-11.3.0-2ov4shd +module load openjdk-11.0.17_8-gcc-11.3.0-oucx2ae +module load virtualgl-2.5.2-gcc-11.3.0-hxeqhda + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/turbovnc-3.0.3-nsfg5xw2nl63adjym5jo2gm664imd3jz/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/turbovnc-3.0.3-nsfg5xw2nl63adjym5jo2gm664imd3jz/share/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/turbovnc-3.0.3-nsfg5xw2nl63adjym5jo2gm664imd3jz/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/usearch-11.0.667-gcc-11.3.0-4bepd6f b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/usearch-11.0.667-gcc-11.3.0-4bepd6f new file mode 100644 index 00000000..51079aed --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/usearch-11.0.667-gcc-11.3.0-4bepd6f @@ -0,0 +1,26 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:07.969787 +## +## usearch@11.0.667%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/4bepd6f +## + + +module-whatis "USEARCH is a unique sequence analysis tool with thousands of users world-wide." + +proc ModulesHelp { } { + puts stderr "Name : usearch" + puts stderr "Version: 11.0.667" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "USEARCH is a unique sequence analysis tool with thousands of users" + puts stderr "world-wide. Note: A manual download is required for USEARCH. Spack will" + puts stderr "search your current directory for the download file. Alternatively, add" + puts stderr "this file to a mirror so that Spack can find it. For instructions on how" + puts stderr "to set up a mirror, see" + puts stderr "https://spack.readthedocs.io/en/latest/mirrors.html" +} + + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/usearch-11.0.667-4bepd6fa7djga4mp5j5oz3wk45zr3m6l/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/usearch-11.0.667-4bepd6fa7djga4mp5j5oz3wk45zr3m6l/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/vcftools-0.1.14-gcc-11.3.0-3uy4wcr b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/vcftools-0.1.14-gcc-11.3.0-3uy4wcr new file mode 100644 index 00000000..4cb2cf01 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/vcftools-0.1.14-gcc-11.3.0-3uy4wcr @@ -0,0 +1,30 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:07.986476 +## +## vcftools@0.1.14%gcc@11.3.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/3uy4wcr +## +## Configure options: --with-pmdir=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/vcftools-0.1.14-3uy4wcrn3cwze7nkppovbvq6372itsdi/lib +## + + +module-whatis "VCFtools is a program package designed for working with VCF files, such as those generated by the 1000 Genomes Project. The aim of VCFtools is to provide easily accessible methods for working with complex genetic variation data in the form of VCF files. " + +proc ModulesHelp { } { + puts stderr "Name : vcftools" + puts stderr "Version: 0.1.14" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "VCFtools is a program package designed for working with VCF files, such" + puts stderr "as those generated by the 1000 Genomes Project. The aim of VCFtools is" + puts stderr "to provide easily accessible methods for working with complex genetic" + puts stderr "variation data in the form of VCF files." +} + +module load perl-5.36.0-gcc-11.3.0-65ysuw5 +module load zlib-1.2.13-gcc-11.3.0-77qi6rv + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/vcftools-0.1.14-3uy4wcrn3cwze7nkppovbvq6372itsdi/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/vcftools-0.1.14-3uy4wcrn3cwze7nkppovbvq6372itsdi/share/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/vcftools-0.1.14-3uy4wcrn3cwze7nkppovbvq6372itsdi/." +prepend-path --delim ":" PERL5LIB "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/vcftools-0.1.14-3uy4wcrn3cwze7nkppovbvq6372itsdi/lib" + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/vcftools-0.1.14-gcc-11.3.0-oczvspm b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/vcftools-0.1.14-gcc-11.3.0-oczvspm new file mode 100644 index 00000000..d798b5f4 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/vcftools-0.1.14-gcc-11.3.0-oczvspm @@ -0,0 +1,30 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:39.092047 +## +## vcftools@0.1.14%gcc@11.3.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/oczvspm +## +## Configure options: --with-pmdir=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/vcftools-0.1.14-oczvspmsrezbs54gn6krkdqj3tyqluqt/lib +## + + +module-whatis "VCFtools is a program package designed for working with VCF files, such as those generated by the 1000 Genomes Project. The aim of VCFtools is to provide easily accessible methods for working with complex genetic variation data in the form of VCF files. " + +proc ModulesHelp { } { + puts stderr "Name : vcftools" + puts stderr "Version: 0.1.14" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "VCFtools is a program package designed for working with VCF files, such" + puts stderr "as those generated by the 1000 Genomes Project. The aim of VCFtools is" + puts stderr "to provide easily accessible methods for working with complex genetic" + puts stderr "variation data in the form of VCF files." +} + +module load perl-5.36.0-gcc-11.3.0-a36qqup +module load zlib-1.2.13-gcc-11.3.0-lu7f4vc + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/vcftools-0.1.14-oczvspmsrezbs54gn6krkdqj3tyqluqt/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/vcftools-0.1.14-oczvspmsrezbs54gn6krkdqj3tyqluqt/share/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/vcftools-0.1.14-oczvspmsrezbs54gn6krkdqj3tyqluqt/." +prepend-path --delim ":" PERL5LIB "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/vcftools-0.1.14-oczvspmsrezbs54gn6krkdqj3tyqluqt/lib" + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/velvet-1.2.10-gcc-11.3.0-c6er3w6 b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/velvet-1.2.10-gcc-11.3.0-c6er3w6 new file mode 100644 index 00000000..474bdf50 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/velvet-1.2.10-gcc-11.3.0-c6er3w6 @@ -0,0 +1,23 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:39.117925 +## +## velvet@1.2.10%gcc@11.3.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v2/c6er3w6 +## + + +module-whatis "Velvet is a de novo genomic assembler specially designed for short read sequencing technologies." + +proc ModulesHelp { } { + puts stderr "Name : velvet" + puts stderr "Version: 1.2.10" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Velvet is a de novo genomic assembler specially designed for short read" + puts stderr "sequencing technologies." +} + +module load zlib-1.2.13-gcc-11.3.0-lu7f4vc + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/velvet-1.2.10-c6er3w6jq347uqr5l2yblt4chms4yfd7/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/velvet-1.2.10-c6er3w6jq347uqr5l2yblt4chms4yfd7/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/velvetoptimiser-2.2.6-gcc-11.3.0-v3klp7r b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/velvetoptimiser-2.2.6-gcc-11.3.0-v3klp7r new file mode 100644 index 00000000..ab4b7750 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/velvetoptimiser-2.2.6-gcc-11.3.0-v3klp7r @@ -0,0 +1,25 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:08.023762 +## +## velvetoptimiser@2.2.6%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/v3klp7r +## + + +module-whatis "Automatically optimise three of Velvet's assembly parameters." + +proc ModulesHelp { } { + puts stderr "Name : velvetoptimiser" + puts stderr "Version: 2.2.6" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Automatically optimise three of Velvet's assembly parameters." +} + +module load perl-5.36.0-gcc-11.3.0-rp6rwls +module load perl-bioperl-1.7.6-gcc-11.3.0-nvvibci +module load velvet-1.2.10-gcc-11.3.0-an7b3iz + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/velvetoptimiser-2.2.6-v3klp7rlhbhtxadejiurq5qa2clg4557/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/velvetoptimiser-2.2.6-v3klp7rlhbhtxadejiurq5qa2clg4557/." +prepend-path --delim ":" PERL5LIB "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-bioperl-1.7.6-nvvibcimd2zxl3n2uultevorm3avbxqc/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-data-stag-0.14-itfpofvjnhda5w5trruyfjb4abuksrs4/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-io-string-1.08-xinf5rluu7q7j6vcuqgec2zloqrtxhrw/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-error-0.17029-kaizbkgkkkkbj2kznfafd56j46vqhlwt/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-graph-0.20105-5m35m6jesnwo5jvhnyojhuqllghwcvtf/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-http-message-6.44-qvxsc3v24pjxs6vvwcy3u2jb6fscttke/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-encode-locale-1.05-mxiobwxfd5xvcdri3e7rfbmx7z7k4k5z/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-http-date-6.02-wltb47srrbo6r5uxfel5mkgc7sdauypv/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-io-html-1.004-cqqsjjhzzds5igmu5tqha4fgkch45jnj/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-lwp-mediatypes-6.02-m5jzn3jnbips3cwcdkxfnym3xfxwnlle/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-try-tiny-0.31-432e3zpsxdhmrfcx4avstmyhdofr4wgo/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-uri-5.08-zlzdyl42tjgezd6shdnwzjzyhaosh3dy/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-io-stringy-2.111-wbqku5x4klant34rlfkruew2swwlamis/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-ipc-run-20220807.0-ngpivfgfphfqz2lsnrtzndqneumomstn/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-io-tty-1.17-hpbk7mxshepzmaxp3v47cjvkk62h2sdo/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-libwww-perl-6.68-cxsga2h74zm4a5idjp7zdvkzoh6lycud/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-file-listing-6.04-3nvsbodmuptrelw6pl43laj6ehbgv63w/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-html-parser-3.72-5iwkgb7f4iqq5sw3kbbcxj4jz4pizrvw/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-html-tagset-3.20-3dflz3kwiysncjmaf5stokozbku4hb4y/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-http-cookies-6.10-5jl6lpkjnytfflks274vvjhhacvb55vd/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-http-daemon-6.01-lvbvmoalpkd5uyo4vwwqfk3ikztkaun3/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-http-negotiate-6.01-o2fa7ty2oqjfoilnb24cf4fhnsnulunk/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-net-http-6.22-cepw4mdkypylj5hxvapyd33b4fq6mhii/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-www-robotrules-6.02-k4csvpikgonelbs5grhekqlqb77wq3fb/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-libxml-perl-0.08-fbxz7qguwymrwdbx3hjshwogbviiihqy/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-list-moreutils-0.430-mdc472j2vx7p7uvt3umcxfvzpfhqqmik/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-exporter-tiny-1.006002-4zqn5jwmxwhvgehp3cq42nsol635h7um/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-list-moreutils-xs-0.430-hjt25ottegq5pwrncrqqsv3lfswsmajw/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-module-build-0.4232-lv7hb6vdylfgs2gqxai3ymkuzdqbpmbj/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-set-scalar-1.29-zj3odpdrspb4vbxjkhnymypon24am7fv/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-test-most-0.38-tealnmjhaxqxm6ycpl4aijrlzgjaodbs/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-exception-class-1.45-nubcsxyodvtzhy5ri23u4zmazlch77ny/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-class-data-inheritable-0.08-ddsz5tj6ieqck3kvmenjnjwihnutxc6x/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-devel-stacktrace-2.04-aojfkj4haitnhphbpykietoopvy4rihy/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-test-deep-1.204-6zasscvzcsim4vascshadms3vdtpxguh/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-test-differences-0.69-x5yf23s3iby3hfwlkc5jv4tx7qejqf2v/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-capture-tiny-0.48-7rif5bdz277yimxomgyh56m5mi2yy43i/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-text-diff-1.45-hzbujfepge6544w36in3glk3zqzncjee/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-algorithm-diff-1.1903-y5ppdnxwtcruytclo5k737k4xoxew6jj/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-test-exception-0.43-fhitw573dflayytby2hpe4zaywb63cea/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-sub-uplevel-0.2800-urby72o2tnpyfzotytnrydihgt3zajjp/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-test-warn-0.30-qvc6iruf7burzbvmetoftl7dickkbbrg/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-test-requiresinternet-0.05-2fpkzuywph5zrvbpdoqrclxi4k2h576q/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-dom-1.46-27tukuwgj3inm3e7qgxnazgohe3comxs/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-parser-2.46-4awbqjkjk2gk3hhvmivhfdxq3uvjqtte/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-regexp-0.04-s4gzikww5nnzhacs5hj4wuekpl2ncqyw/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-dom-xpath-0.14-5meaxm4dwbawe6bwyajipje54hjre62o/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-xpathengine-0.14-ontoidt2fq3lfkgrodyb2aipdzxhomx6/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-libxml-2.0201-r7dtgthpoitpyl64s6xbs7mqd3ozkzld/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-namespacesupport-1.12_9-kwxyncoa6t6lgwyvobq3fs4tofwhwicw/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-sax-1.02-eta5s4lheqym6dpkbr3f7s2ug2tdle4b/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-sax-base-1.09-dntf6w6dfyi2k64vnxkshkydygldnb5q/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-sax-writer-0.57-fnvamofqlwekhhjfqwv7pwbes7ci5zzt/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-filter-buffertext-1.01-igvlfqa4xasofgslxcd6d7w5jmgdx3cr/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-twig-3.52-ijz72lswdrbkoywcfrps7pdzcalrvoal/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-writer-0.900-r4vw4irlb7bldfhgqptjv7popz62flvc/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-yaml-1.30-gsmre7nabbj2xozgsusznl64eige5de5/lib/perl5" + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/virtualgl-2.5.2-gcc-11.3.0-la4kdr2 b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/virtualgl-2.5.2-gcc-11.3.0-la4kdr2 new file mode 100644 index 00000000..5ea27d6b --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/virtualgl-2.5.2-gcc-11.3.0-la4kdr2 @@ -0,0 +1,26 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:03.809131 +## +## virtualgl@2.5.2%gcc@11.3.0~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v2/la4kdr2 +## + + +module-whatis "VirtualGL redirects 3D commands from a Unix/Linux OpenGL application onto a server-side GPU and converts the rendered 3D images into a video stream with which remote clients can interact to view and control the 3D application in real time." + +proc ModulesHelp { } { + puts stderr "Name : virtualgl" + puts stderr "Version: 2.5.2" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "VirtualGL redirects 3D commands from a Unix/Linux OpenGL application" + puts stderr "onto a server-side GPU and converts the rendered 3D images into a video" + puts stderr "stream with which remote clients can interact to view and control the 3D" + puts stderr "application in real time." +} + +module load libjpeg-turbo-2.1.5-gcc-11.3.0-gb3femn +module load mesa-glu-9.0.2-gcc-11.3.0-6ecwdvm + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/virtualgl-2.5.2-la4kdr2ukgzzfohds2mq2wftoqxiwht7/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/virtualgl-2.5.2-la4kdr2ukgzzfohds2mq2wftoqxiwht7/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/vsearch-2.22.1-gcc-11.3.0-mw67rnm b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/vsearch-2.22.1-gcc-11.3.0-mw67rnm new file mode 100644 index 00000000..4709301b --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/vsearch-2.22.1-gcc-11.3.0-mw67rnm @@ -0,0 +1,24 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:08.155395 +## +## vsearch@2.22.1%gcc@11.3.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/mw67rnm +## + + +module-whatis "VSEARCH is a versatile open-source tool for metagenomics." + +proc ModulesHelp { } { + puts stderr "Name : vsearch" + puts stderr "Version: 2.22.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "VSEARCH is a versatile open-source tool for metagenomics." +} + +module load bzip2-1.0.8-gcc-11.3.0-dtsdvar +module load zlib-1.2.13-gcc-11.3.0-77qi6rv + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/vsearch-2.22.1-mw67rnmdblrostrhnczjgv3iee76rmcq/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/vsearch-2.22.1-mw67rnmdblrostrhnczjgv3iee76rmcq/share/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/vsearch-2.22.1-mw67rnmdblrostrhnczjgv3iee76rmcq/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/vsearch-2.22.1-gcc-11.3.0-rgxwdwv b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/vsearch-2.22.1-gcc-11.3.0-rgxwdwv new file mode 100644 index 00000000..5908c4b9 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-x86_64_v2/vsearch-2.22.1-gcc-11.3.0-rgxwdwv @@ -0,0 +1,24 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:39.138167 +## +## vsearch@2.22.1%gcc@11.3.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/rgxwdwv +## + + +module-whatis "VSEARCH is a versatile open-source tool for metagenomics." + +proc ModulesHelp { } { + puts stderr "Name : vsearch" + puts stderr "Version: 2.22.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "VSEARCH is a versatile open-source tool for metagenomics." +} + +module load bzip2-1.0.8-gcc-11.3.0-dtsdvar +module load zlib-1.2.13-gcc-11.3.0-lu7f4vc + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/vsearch-2.22.1-rgxwdwvgt5n4vkybn4ybbsnlnmaxwwi5/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/vsearch-2.22.1-rgxwdwvgt5n4vkybn4ybbsnlnmaxwwi5/share/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/vsearch-2.22.1-rgxwdwvgt5n4vkybn4ybbsnlnmaxwwi5/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-zen/amdfftw-3.2-gcc-11.3.0-lo3trwp b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-zen/amdfftw-3.2-gcc-11.3.0-lo3trwp new file mode 100644 index 00000000..e20992ed --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-zen/amdfftw-3.2-gcc-11.3.0-lo3trwp @@ -0,0 +1,32 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 12:22:43.461687 +## +## amdfftw@3.2%gcc@11.3.0~amd-app-opt~amd-dynamic-dispatcher~amd-fast-planner~amd-mpi-vader-limit~amd-top-n-planner~amd-trans~debug+mpi+openmp+shared~static~threads build_system=autotools precision=double,float arch=linux-ubuntu22.04-zen/lo3trwp +## + + +module-whatis "FFTW (AMD Optimized version) is a comprehensive collection of fast C routines for computing the Discrete Fourier Transform (DFT) and various special cases thereof." + +proc ModulesHelp { } { + puts stderr "Name : amdfftw" + puts stderr "Version: 3.2" + puts stderr "Target : zen" + puts stderr "" + puts stderr "FFTW (AMD Optimized version) is a comprehensive collection of fast C" + puts stderr "routines for computing the Discrete Fourier Transform (DFT) and various" + puts stderr "special cases thereof. It is an open-source implementation of the Fast" + puts stderr "Fourier transform algorithm. It can compute transforms of real and" + puts stderr "complex-values arrays of arbitrary size and dimension. AMD Optimized" + puts stderr "FFTW is the optimized FFTW implementation targeted for AMD CPUs. For" + puts stderr "single precision build, please use precision value as float. Example :" + puts stderr "spack install amdfftw precision=float" +} + +module load openmpi-4.1.5-gcc-11.3.0-63v4xd2 +module load texinfo-7.0.3-gcc-11.3.0-hj6anfy + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen/gcc-11.3.0/amdfftw-3.2-lo3trwpcz6qiiosnjnjkierxwclxuuk7/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen/gcc-11.3.0/amdfftw-3.2-lo3trwpcz6qiiosnjnjkierxwclxuuk7/share/man" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen/gcc-11.3.0/amdfftw-3.2-lo3trwpcz6qiiosnjnjkierxwclxuuk7/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen/gcc-11.3.0/amdfftw-3.2-lo3trwpcz6qiiosnjnjkierxwclxuuk7/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-zen/amdfftw-3.2-gcc-11.3.0-p3blfst b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-zen/amdfftw-3.2-gcc-11.3.0-p3blfst new file mode 100644 index 00000000..fa06db55 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-zen/amdfftw-3.2-gcc-11.3.0-p3blfst @@ -0,0 +1,32 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:35.945073 +## +## amdfftw@3.2%gcc@11.3.0~amd-app-opt~amd-dynamic-dispatcher~amd-fast-planner~amd-mpi-vader-limit~amd-top-n-planner~amd-trans~debug+mpi+openmp+shared~static~threads build_system=autotools precision=double,float arch=linux-ubuntu22.04-zen/p3blfst +## + + +module-whatis "FFTW (AMD Optimized version) is a comprehensive collection of fast C routines for computing the Discrete Fourier Transform (DFT) and various special cases thereof." + +proc ModulesHelp { } { + puts stderr "Name : amdfftw" + puts stderr "Version: 3.2" + puts stderr "Target : zen" + puts stderr "" + puts stderr "FFTW (AMD Optimized version) is a comprehensive collection of fast C" + puts stderr "routines for computing the Discrete Fourier Transform (DFT) and various" + puts stderr "special cases thereof. It is an open-source implementation of the Fast" + puts stderr "Fourier transform algorithm. It can compute transforms of real and" + puts stderr "complex-values arrays of arbitrary size and dimension. AMD Optimized" + puts stderr "FFTW is the optimized FFTW implementation targeted for AMD CPUs. For" + puts stderr "single precision build, please use precision value as float. Example :" + puts stderr "spack install amdfftw precision=float" +} + +module load openmpi-4.1.5-gcc-11.3.0-umyyqb6 +module load texinfo-7.0.3-gcc-11.3.0-bd4ga5u + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen/gcc-11.3.0/amdfftw-3.2-p3blfstqhxo2lrpg76gf4vydaby324fv/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen/gcc-11.3.0/amdfftw-3.2-p3blfstqhxo2lrpg76gf4vydaby324fv/share/man" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen/gcc-11.3.0/amdfftw-3.2-p3blfstqhxo2lrpg76gf4vydaby324fv/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen/gcc-11.3.0/amdfftw-3.2-p3blfstqhxo2lrpg76gf4vydaby324fv/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-zen/blat-35-gcc-11.3.0-bpsezdf b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-zen/blat-35-gcc-11.3.0-bpsezdf new file mode 100644 index 00000000..14de6bca --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-zen/blat-35-gcc-11.3.0-bpsezdf @@ -0,0 +1,24 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:36.346003 +## +## blat@35%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-zen/bpsezdf +## + + +module-whatis "BLAT (BLAST-like alignment tool) is a pairwise sequence alignment algorithm." + +proc ModulesHelp { } { + puts stderr "Name : blat" + puts stderr "Version: 35" + puts stderr "Target : zen" + puts stderr "" + puts stderr "BLAT (BLAST-like alignment tool) is a pairwise sequence alignment" + puts stderr "algorithm." +} + +module load libpng-1.6.39-gcc-11.3.0-qg3les2 +module load openssl-1.1.0l-gcc-11.3.0-2nigccq + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen/gcc-11.3.0/blat-35-bpsezdfp3bbpifpzhdvjz3vxh7jtr5jc/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen/gcc-11.3.0/blat-35-bpsezdfp3bbpifpzhdvjz3vxh7jtr5jc/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-zen/boost-1.82.0-gcc-11.3.0-xmk5d3y b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-zen/boost-1.82.0-gcc-11.3.0-xmk5d3y new file mode 100644 index 00000000..12102ec5 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-zen/boost-1.82.0-gcc-11.3.0-xmk5d3y @@ -0,0 +1,29 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:36.394755 +## +## boost@1.82.0%gcc@11.3.0~atomic+chrono~clanglibcpp+container~context~contract~coroutine~date_time~debug+exception~fiber+filesystem+graph~graph_parallel~icu+iostreams~json~locale~log+math~mpi+multithreaded~nowide~numpy~pic+program_options~python+random~regex+serialization+shared~signals~singlethreaded~stacktrace+system~taggedlayout~test+thread+timer~type_erasure~versionedlayout~wave build_system=generic cxxstd=98 patches=a440f96,a7c807f visibility=hidden arch=linux-ubuntu22.04-zen/xmk5d3y +## + + +module-whatis "Boost provides free peer-reviewed portable C++ source libraries, emphasizing libraries that work well with the C++ Standard Library." + +proc ModulesHelp { } { + puts stderr "Name : boost" + puts stderr "Version: 1.82.0" + puts stderr "Target : zen" + puts stderr "" + puts stderr "Boost provides free peer-reviewed portable C++ source libraries," + puts stderr "emphasizing libraries that work well with the C++ Standard Library." + puts stderr "Boost libraries are intended to be widely useful, and usable across a" + puts stderr "broad spectrum of applications. The Boost license encourages both" + puts stderr "commercial and non-commercial use." +} + +module load bzip2-1.0.8-gcc-11.3.0-74zana7 +module load xz-5.4.1-gcc-11.3.0-um7kzxd +module load zlib-1.2.13-gcc-11.3.0-syirmbd +module load zstd-1.5.5-gcc-11.3.0-i6ry3kd + +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen/gcc-11.3.0/boost-1.82.0-xmk5d3ylpjgdxpy44swbmcjm7s6zkprb/." +setenv BOOST_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen/gcc-11.3.0/boost-1.82.0-xmk5d3ylpjgdxpy44swbmcjm7s6zkprb" + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-zen/gatk-4.2.6.1-gcc-11.3.0-4wdh2ww b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-zen/gatk-4.2.6.1-gcc-11.3.0-4wdh2ww new file mode 100644 index 00000000..c683adb4 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-zen/gatk-4.2.6.1-gcc-11.3.0-4wdh2ww @@ -0,0 +1,25 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:37.097195 +## +## gatk@4.2.6.1%gcc@11.3.0~r build_system=generic arch=linux-ubuntu22.04-zen/4wdh2ww +## + + +module-whatis " Genome Analysis Toolkit Variant Discovery in High-Throughput Sequencing Data " + +proc ModulesHelp { } { + puts stderr "Name : gatk" + puts stderr "Version: 4.2.6.1" + puts stderr "Target : zen" + puts stderr "" + puts stderr " Genome Analysis Toolkit Variant Discovery in High-Throughput Sequencing" + puts stderr "Data" +} + +module load openjdk-11.0.17_8-gcc-11.3.0-fkmubh5 +module load python-3.9.16-gcc-11.3.0-3i2sx7h + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen/gcc-11.3.0/gatk-4.2.6.1-4wdh2wwxw5u3aw67ubzqif3lu7iwbwud/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen/gcc-11.3.0/gatk-4.2.6.1-4wdh2wwxw5u3aw67ubzqif3lu7iwbwud/." +prepend-path --delim ":" GATK "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen/gcc-11.3.0/gatk-4.2.6.1-4wdh2wwxw5u3aw67ubzqif3lu7iwbwud/bin/GenomeAnalysisTK.jar" + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-zen/gromacs-2019.6-gcc-11.3.0-wtqouf5 b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-zen/gromacs-2019.6-gcc-11.3.0-wtqouf5 new file mode 100644 index 00000000..f39658f6 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-zen/gromacs-2019.6-gcc-11.3.0-wtqouf5 @@ -0,0 +1,34 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:37.309699 +## +## gromacs@2019.6%gcc@11.3.0~blas~cp2k~cuda~cycle_subcounters~double+hwloc~ipo~lapack~mdrun_only+mpi~nosuffix~opencl+openmp~plumed~relaxed_double_precision+shared~sycl build_system=cmake build_type=Release generator=make openmp_max_threads=none arch=linux-ubuntu22.04-zen/wtqouf5 +## + + +module-whatis "GROMACS is a molecular dynamics package primarily designed for simulations of proteins, lipids and nucleic acids. It was originally developed in the Biophysical Chemistry department of University of Groningen, and is now maintained by contributors in universities and research centers across the world." + +proc ModulesHelp { } { + puts stderr "Name : gromacs" + puts stderr "Version: 2019.6" + puts stderr "Target : zen" + puts stderr "" + puts stderr "GROMACS is a molecular dynamics package primarily designed for" + puts stderr "simulations of proteins, lipids and nucleic acids. It was originally" + puts stderr "developed in the Biophysical Chemistry department of University of" + puts stderr "Groningen, and is now maintained by contributors in universities and" + puts stderr "research centers across the world. GROMACS is one of the fastest and" + puts stderr "most popular software packages available and can run on CPUs as well as" + puts stderr "GPUs. It is free, open source released under the GNU Lesser General" + puts stderr "Public License. Before the version 4.6, GROMACS was released under the" + puts stderr "GNU General Public License." +} + +module load hwloc-2.9.0-gcc-11.3.0-wuio5yo +module load intel-oneapi-mkl-2022.2.1-gcc-11.3.0-evfm42f +module load openmpi-4.1.5-gcc-11.3.0-umyyqb6 + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen/gcc-11.3.0/gromacs-2019.6-wtqouf5m5h6rvyin4fb4kjirfq2vvf6c/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen/gcc-11.3.0/gromacs-2019.6-wtqouf5m5h6rvyin4fb4kjirfq2vvf6c/share/man" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen/gcc-11.3.0/gromacs-2019.6-wtqouf5m5h6rvyin4fb4kjirfq2vvf6c/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen/gcc-11.3.0/gromacs-2019.6-wtqouf5m5h6rvyin4fb4kjirfq2vvf6c/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-zen/intel-oneapi-mkl-2022.2.1-gcc-11.3.0-evfm42f b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-zen/intel-oneapi-mkl-2022.2.1-gcc-11.3.0-evfm42f new file mode 100644 index 00000000..5e7733db --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-zen/intel-oneapi-mkl-2022.2.1-gcc-11.3.0-evfm42f @@ -0,0 +1,37 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:37.524739 +## +## intel-oneapi-mkl@2022.2.1%gcc@11.3.0~cluster+envmods~ilp64+shared build_system=generic threads=none arch=linux-ubuntu22.04-zen/evfm42f +## + + +module-whatis "Intel oneAPI Math Kernel Library (Intel oneMKL; formerly Intel Math Kernel Library or Intel MKL), is a library of optimized math routines for science, engineering, and financial applications. Core math functions include BLAS, LAPACK, ScaLAPACK, sparse solvers, fast Fourier transforms, and vector math." + +proc ModulesHelp { } { + puts stderr "Name : intel-oneapi-mkl" + puts stderr "Version: 2022.2.1" + puts stderr "Target : zen" + puts stderr "" + puts stderr "Intel oneAPI Math Kernel Library (Intel oneMKL; formerly Intel Math" + puts stderr "Kernel Library or Intel MKL), is a library of optimized math routines" + puts stderr "for science, engineering, and financial applications. Core math" + puts stderr "functions include BLAS, LAPACK, ScaLAPACK, sparse solvers, fast Fourier" + puts stderr "transforms, and vector math. LICENSE INFORMATION: By downloading and" + puts stderr "using this software, you agree to the terms and conditions of the" + puts stderr "software license agreements at https://intel.ly/393CijO." +} + +module load intel-oneapi-tbb-2021.9.0-gcc-11.3.0-zv65ki2 + +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen/gcc-11.3.0/intel-oneapi-mkl-2022.2.1-evfm42fp6fxyt7uap47v7vux6m3cudo3/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen/gcc-11.3.0/intel-oneapi-mkl-2022.2.1-evfm42fp6fxyt7uap47v7vux6m3cudo3/." +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen/gcc-11.3.0/intel-oneapi-mkl-2022.2.1-evfm42fp6fxyt7uap47v7vux6m3cudo3/mkl/2022.2.1/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen/gcc-11.3.0/intel-oneapi-mkl-2022.2.1-evfm42fp6fxyt7uap47v7vux6m3cudo3/mkl/2022.2.1/lib/intel64" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen/gcc-11.3.0/intel-oneapi-mkl-2022.2.1-evfm42fp6fxyt7uap47v7vux6m3cudo3/mkl/2022.2.1/lib/intel64" +setenv MKLROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen/gcc-11.3.0/intel-oneapi-mkl-2022.2.1-evfm42fp6fxyt7uap47v7vux6m3cudo3/mkl/2022.2.1" +prepend-path --delim ":" NLSPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen/gcc-11.3.0/intel-oneapi-mkl-2022.2.1-evfm42fp6fxyt7uap47v7vux6m3cudo3/mkl/2022.2.1/lib/intel64/locale/%l_%t/%N" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen/gcc-11.3.0/intel-oneapi-mkl-2022.2.1-evfm42fp6fxyt7uap47v7vux6m3cudo3/mkl/2022.2.1/lib/pkgconfig" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen/gcc-11.3.0/intel-oneapi-mkl-2022.2.1-evfm42fp6fxyt7uap47v7vux6m3cudo3/mkl/2022.2.1/bin/intel64" +append-path --delim " " __INTEL_POST_CFLAGS "-Wl,-rpath,/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen/gcc-11.3.0/intel-oneapi-mkl-2022.2.1-evfm42fp6fxyt7uap47v7vux6m3cudo3/mkl/2022.2.1/lib/intel64" +append-path --delim " " __INTEL_POST_FFLAGS "-Wl,-rpath,/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen/gcc-11.3.0/intel-oneapi-mkl-2022.2.1-evfm42fp6fxyt7uap47v7vux6m3cudo3/mkl/2022.2.1/lib/intel64" + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-zen/jellyfish-2.3.0-gcc-11.3.0-6yfp5rc b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-zen/jellyfish-2.3.0-gcc-11.3.0-6yfp5rc new file mode 100644 index 00000000..0d82e904 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-zen/jellyfish-2.3.0-gcc-11.3.0-6yfp5rc @@ -0,0 +1,25 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:37.871508 +## +## jellyfish@2.3.0%gcc@11.3.0~ruby build_system=autotools arch=linux-ubuntu22.04-zen/6yfp5rc +## + + +module-whatis "JELLYFISH is a tool for fast, memory-efficient counting of k-mers in DNA." + +proc ModulesHelp { } { + puts stderr "Name : jellyfish" + puts stderr "Version: 2.3.0" + puts stderr "Target : zen" + puts stderr "" + puts stderr "JELLYFISH is a tool for fast, memory-efficient counting of k-mers in" + puts stderr "DNA." +} + +module load perl-5.36.0-gcc-11.3.0-p2ug7cn + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen/gcc-11.3.0/jellyfish-2.3.0-6yfp5rczdt5vm66tblyiktb3ayurncor/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen/gcc-11.3.0/jellyfish-2.3.0-6yfp5rczdt5vm66tblyiktb3ayurncor/share/man" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen/gcc-11.3.0/jellyfish-2.3.0-6yfp5rczdt5vm66tblyiktb3ayurncor/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen/gcc-11.3.0/jellyfish-2.3.0-6yfp5rczdt5vm66tblyiktb3ayurncor/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-zen/openjdk-11.0.17_8-gcc-11.3.0-fkmubh5 b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-zen/openjdk-11.0.17_8-gcc-11.3.0-fkmubh5 new file mode 100644 index 00000000..cbc079fd --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-zen/openjdk-11.0.17_8-gcc-11.3.0-fkmubh5 @@ -0,0 +1,23 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:38.529143 +## +## openjdk@11.0.17_8%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-zen/fkmubh5 +## + + +module-whatis "The free and opensource java implementation" + +proc ModulesHelp { } { + puts stderr "Name : openjdk" + puts stderr "Version: 11.0.17_8" + puts stderr "Target : zen" + puts stderr "" + puts stderr "The free and opensource java implementation" +} + + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen/gcc-11.3.0/openjdk-11.0.17_8-fkmubh5d6pnqvkplbdsezbrkorgqb22y/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen/gcc-11.3.0/openjdk-11.0.17_8-fkmubh5d6pnqvkplbdsezbrkorgqb22y/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen/gcc-11.3.0/openjdk-11.0.17_8-fkmubh5d6pnqvkplbdsezbrkorgqb22y/." +setenv JAVA_HOME "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen/gcc-11.3.0/openjdk-11.0.17_8-fkmubh5d6pnqvkplbdsezbrkorgqb22y" + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-zen/openmpi-4.1.5-gcc-11.3.0-umyyqb6 b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-zen/openmpi-4.1.5-gcc-11.3.0-umyyqb6 new file mode 100644 index 00000000..6c6cc77d --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-zen/openmpi-4.1.5-gcc-11.3.0-umyyqb6 @@ -0,0 +1,36 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:38.557234 +## +## openmpi@4.1.5%gcc@11.3.0~atomics+cuda~cxx~cxx_exceptions~gpfs~internal-hwloc~java~legacylaunchers~lustre~memchecker~orterunprefix~pmi+romio+rsh~singularity+static+vt+wrapper-rpath build_system=autotools cuda_arch=none fabrics=ucx schedulers=slurm arch=linux-ubuntu22.04-zen/umyyqb6 +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis "An open source Message Passing Interface implementation." + +proc ModulesHelp { } { + puts stderr "Name : openmpi" + puts stderr "Version: 4.1.5" + puts stderr "Target : zen" + puts stderr "" + puts stderr "An open source Message Passing Interface implementation. The Open MPI" + puts stderr "Project is an open source Message Passing Interface implementation that" + puts stderr "is developed and maintained by a consortium of academic, research, and" + puts stderr "industry partners. Open MPI is therefore able to combine the expertise," + puts stderr "technologies, and resources from all across the High Performance" + puts stderr "Computing community in order to build the best MPI library available." + puts stderr "Open MPI offers advantages for system and software vendors, application" + puts stderr "developers and computer science researchers." +} + + +prepend-path --delim ":" PATH "/share/apps/22.04/manual/openmpi/4.1.5-mpi-io/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/manual/openmpi/4.1.5-mpi-io/share/man" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/manual/openmpi/4.1.5-mpi-io/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/manual/openmpi/4.1.5-mpi-io/." +setenv MPICC "/share/apps/22.04/manual/openmpi/4.1.5-mpi-io/bin/mpicc" +setenv MPICXX "/share/apps/22.04/manual/openmpi/4.1.5-mpi-io/bin/mpic++" +setenv MPIF77 "/share/apps/22.04/manual/openmpi/4.1.5-mpi-io/bin/mpif77" +setenv MPIF90 "/share/apps/22.04/manual/openmpi/4.1.5-mpi-io/bin/mpif90" + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-zen/salmon-1.9.0-gcc-11.3.0-qhdogk4 b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-zen/salmon-1.9.0-gcc-11.3.0-qhdogk4 new file mode 100644 index 00000000..23e1b001 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-zen/salmon-1.9.0-gcc-11.3.0-qhdogk4 @@ -0,0 +1,36 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-28 17:20:38.779973 +## +## salmon@1.9.0%gcc@11.3.0~ipo build_system=cmake build_type=RELEASE generator=make arch=linux-ubuntu22.04-zen/qhdogk4 +## +## Configure options: -DBOOST_ROOT=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen/gcc-11.3.0/boost-1.82.0-xmk5d3ylpjgdxpy44swbmcjm7s6zkprb +## + + +module-whatis "Salmon is a tool for quantifying the expression of transcripts using RNA-seq data." + +proc ModulesHelp { } { + puts stderr "Name : salmon" + puts stderr "Version: 1.9.0" + puts stderr "Target : zen" + puts stderr "" + puts stderr "Salmon is a tool for quantifying the expression of transcripts using" + puts stderr "RNA-seq data." +} + +module load boost-1.82.0-gcc-11.3.0-xmk5d3y +module load bzip2-1.0.8-gcc-11.3.0-74zana7 +module load cereal-1.3.2-gcc-11.3.0-zssxqws +module load curl-8.0.1-gcc-11.3.0-fhyjchr +module load intel-oneapi-tbb-2021.9.0-gcc-11.3.0-zv65ki2 +module load jemalloc-5.3.0-gcc-11.3.0-d25a5a7 +module load libdivsufsort-2.0.1-gcc-11.3.0-a5bficq +module load libgff-2.0.0-gcc-11.3.0-eeqjhj2 +module load pkg-config-0.29.2-gcc-11.3.0-2qljagr +module load staden-io-lib-1.14.8-gcc-11.3.0-75st2xn +module load xz-5.4.1-gcc-11.3.0-um7kzxd +module load zlib-1.2.13-gcc-11.3.0-syirmbd + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen/gcc-11.3.0/salmon-1.9.0-qhdogk43o5lepuzhykq664t6lfkzdwvc/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen/gcc-11.3.0/salmon-1.9.0-qhdogk43o5lepuzhykq664t6lfkzdwvc/." + diff --git a/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-zen2/amdfftw-3.2-gcc-11.3.0-tdfl776 b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-zen2/amdfftw-3.2-gcc-11.3.0-tdfl776 new file mode 100644 index 00000000..54e72073 --- /dev/null +++ b/modulefiles/hpccf/peloton/other/linux-ubuntu22.04-zen2/amdfftw-3.2-gcc-11.3.0-tdfl776 @@ -0,0 +1,32 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-06-29 02:48:01.417376 +## +## amdfftw@3.2%gcc@11.3.0~amd-app-opt~amd-dynamic-dispatcher~amd-fast-planner~amd-mpi-vader-limit~amd-top-n-planner~amd-trans~debug+mpi+openmp+shared~static~threads build_system=autotools precision=double,float arch=linux-ubuntu22.04-zen2/tdfl776 +## + + +module-whatis "FFTW (AMD Optimized version) is a comprehensive collection of fast C routines for computing the Discrete Fourier Transform (DFT) and various special cases thereof." + +proc ModulesHelp { } { + puts stderr "Name : amdfftw" + puts stderr "Version: 3.2" + puts stderr "Target : zen2" + puts stderr "" + puts stderr "FFTW (AMD Optimized version) is a comprehensive collection of fast C" + puts stderr "routines for computing the Discrete Fourier Transform (DFT) and various" + puts stderr "special cases thereof. It is an open-source implementation of the Fast" + puts stderr "Fourier transform algorithm. It can compute transforms of real and" + puts stderr "complex-values arrays of arbitrary size and dimension. AMD Optimized" + puts stderr "FFTW is the optimized FFTW implementation targeted for AMD CPUs. For" + puts stderr "single precision build, please use precision value as float. Example :" + puts stderr "spack install amdfftw precision=float" +} + +module load openmpi-4.1.5-gcc-11.3.0-aysfvm7 +module load texinfo-7.0.3-gcc-11.3.0-w2c2rx5 + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen2/gcc-11.3.0/amdfftw-3.2-tdfl776tjelozp4ejdtcblpyieravo5q/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen2/gcc-11.3.0/amdfftw-3.2-tdfl776tjelozp4ejdtcblpyieravo5q/share/man" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen2/gcc-11.3.0/amdfftw-3.2-tdfl776tjelozp4ejdtcblpyieravo5q/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen2/gcc-11.3.0/amdfftw-3.2-tdfl776tjelozp4ejdtcblpyieravo5q/." + diff --git a/modulefiles/hpccf/peloton/tcl/abyss/2.3.5 b/modulefiles/hpccf/peloton/tcl/abyss/2.3.5 new file mode 100644 index 00000000..234d4b9f --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/abyss/2.3.5 @@ -0,0 +1,29 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:09.691605 +## +## abyss@2.3.5%gcc@11.3.0 build_system=autotools maxk=128 arch=linux-ubuntu22.04-x86_64_v2/obavyvn +## +## Configure options: --with-boost=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/boost-1.82.0-qwtzu7tpga4mlh2i3v2u3mm722bkgyeb --with-sqlite=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/sqlite-3.40.1-4lhpdh33huvpelfja6mi5tzjy26mijze --with-mpi=/share/apps/22.04/manual/openmpi/4.1.5 --enable-maxk=128 +## + + +module-whatis "ABySS is a de novo, parallel, paired-end sequence assembler that is designed for short reads. The single-processor version is useful for assembling genomes up to 100 Mbases in size." + +proc ModulesHelp { } { + puts stderr "Name : abyss" + puts stderr "Version: 2.3.5" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "ABySS is a de novo, parallel, paired-end sequence assembler that is" + puts stderr "designed for short reads. The single-processor version is useful for" + puts stderr "assembling genomes up to 100 Mbases in size." +} + +conflict abyss + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/abyss-2.3.5-obavyvnrq6gsfe6qlnvoltzyyc77wd6u/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/abyss-2.3.5-obavyvnrq6gsfe6qlnvoltzyyc77wd6u/." +setenv ABYSS_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/abyss-2.3.5-obavyvnrq6gsfe6qlnvoltzyyc77wd6u" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/amdfftw/3.2+amd b/modulefiles/hpccf/peloton/tcl/amdfftw/3.2+amd new file mode 100644 index 00000000..ec678954 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/amdfftw/3.2+amd @@ -0,0 +1,44 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:09.895425 +## +## amdfftw@3.2%gcc@11.3.0~amd-app-opt~amd-dynamic-dispatcher~amd-fast-planner~amd-mpi-vader-limit~amd-top-n-planner~amd-trans~debug+mpi+openmp+shared~static~threads build_system=autotools precision=double,float arch=linux-ubuntu22.04-zen2/fl7nvdk +## + + +module-whatis "FFTW (AMD Optimized version) is a comprehensive collection of fast C routines for computing the Discrete Fourier Transform (DFT) and various special cases thereof." + +proc ModulesHelp { } { + puts stderr "Name : amdfftw" + puts stderr "Version: 3.2" + puts stderr "Target : zen2" + puts stderr "" + puts stderr "FFTW (AMD Optimized version) is a comprehensive collection of fast C" + puts stderr "routines for computing the Discrete Fourier Transform (DFT) and various" + puts stderr "special cases thereof. It is an open-source implementation of the Fast" + puts stderr "Fourier transform algorithm. It can compute transforms of real and" + puts stderr "complex-values arrays of arbitrary size and dimension. AMD Optimized" + puts stderr "FFTW is the optimized FFTW implementation targeted for AMD CPUs. For" + puts stderr "single precision build, please use precision value as float. Example :" + puts stderr "spack install amdfftw precision=float LICENSING INFORMATION: By" + puts stderr "downloading, installing and using this software, you agree to the terms" + puts stderr "and conditions of the AMD AOCL-FFTW license agreement. You may obtain a" + puts stderr "copy of this license agreement from" + puts stderr "https://www.amd.com/en/developer/aocl/fftw/fftw-libraries-4-0-eula.html" + puts stderr "https://www.amd.com/en/developer/aocl/fftw/fftw-libraries-eula.html" +} + +conflict amdfftw + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen2/gcc-11.3.0/amdfftw-3.2-fl7nvdkjyzxy6aminks7qcb4gzledpai/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen2/gcc-11.3.0/amdfftw-3.2-fl7nvdkjyzxy6aminks7qcb4gzledpai/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen2/gcc-11.3.0/amdfftw-3.2-fl7nvdkjyzxy6aminks7qcb4gzledpai/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen2/gcc-11.3.0/amdfftw-3.2-fl7nvdkjyzxy6aminks7qcb4gzledpai/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen2/gcc-11.3.0/amdfftw-3.2-fl7nvdkjyzxy6aminks7qcb4gzledpai/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen2/gcc-11.3.0/amdfftw-3.2-fl7nvdkjyzxy6aminks7qcb4gzledpai/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen2/gcc-11.3.0/amdfftw-3.2-fl7nvdkjyzxy6aminks7qcb4gzledpai/share/man" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen2/gcc-11.3.0/amdfftw-3.2-fl7nvdkjyzxy6aminks7qcb4gzledpai/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen2/gcc-11.3.0/amdfftw-3.2-fl7nvdkjyzxy6aminks7qcb4gzledpai/." +setenv AMDFFTW_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen2/gcc-11.3.0/amdfftw-3.2-fl7nvdkjyzxy6aminks7qcb4gzledpai" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/angsd/0.935 b/modulefiles/hpccf/peloton/tcl/angsd/0.935 new file mode 100644 index 00000000..f6ba74b8 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/angsd/0.935 @@ -0,0 +1,33 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:10.182332 +## +## angsd@0.935%gcc@11.3.0+r build_system=makefile arch=linux-ubuntu22.04-x86_64_v2/bv4fbst +## + + +module-whatis "Angsd is a program for analysing NGS data." + +proc ModulesHelp { } { + puts stderr "Name : angsd" + puts stderr "Version: 0.935" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Angsd is a program for analysing NGS data. The software can handle a" + puts stderr "number of different input types from mapped reads to imputed genotype" + puts stderr "probabilities. Most methods take genotype uncertainty into account" + puts stderr "instead of basing the analysis on called genotypes. This is especially" + puts stderr "useful for low and medium depth data." +} + +module load zlib/1.2.13 +prereq zlib/1.2.13 +conflict angsd + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/angsd-0.935-bv4fbstwdvnl5sxmoz5mde6d3zbucymf/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/angsd-0.935-bv4fbstwdvnl5sxmoz5mde6d3zbucymf/." +setenv R_HOME "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/r-4.2.2-io5abfyg43yx6wc7b6liuxm6bh4kyon7/rlib/R" +setenv R_LIBS "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/angsd-0.935-bv4fbstwdvnl5sxmoz5mde6d3zbucymf/R" +setenv ANGSD_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/angsd-0.935-bv4fbstwdvnl5sxmoz5mde6d3zbucymf" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/aocc/3.2.0 b/modulefiles/hpccf/peloton/tcl/aocc/3.2.0 new file mode 100644 index 00000000..39f885d5 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/aocc/3.2.0 @@ -0,0 +1,46 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:10.368307 +## +## aocc@3.2.0%gcc@11.3.0+license-agreed build_system=generic arch=linux-ubuntu22.04-x86_64_v2/rijlo2e +## + + +module-whatis " The AOCC compiler system is a high performance, production quality code generation tool. The AOCC environment provides various options to developers when building and optimizing C, C++, and Fortran applications targeting 32-bit and 64-bit Linux platforms. The AOCC compiler system offers a high level of advanced optimizations, multi-threading and processor support that includes global optimization, vectorization, inter-procedural analyses, loop transformations, and code generation. AMD also provides highly optimized libraries, which extract the optimal performance from each x86 processor core when utilized. The AOCC Compiler Suite simplifies and accelerates development and tuning for x86 applications." + +proc ModulesHelp { } { + puts stderr "Name : aocc" + puts stderr "Version: 3.2.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr " The AOCC compiler system is a high performance, production quality code" + puts stderr "generation tool. The AOCC environment provides various options to" + puts stderr "developers when building and optimizing C, C++, and Fortran applications" + puts stderr "targeting 32-bit and 64-bit Linux platforms. The AOCC compiler system" + puts stderr "offers a high level of advanced optimizations, multi-threading and" + puts stderr "processor support that includes global optimization, vectorization," + puts stderr "inter-procedural analyses, loop transformations, and code generation." + puts stderr "AMD also provides highly optimized libraries, which extract the optimal" + puts stderr "performance from each x86 processor core when utilized. The AOCC" + puts stderr "Compiler Suite simplifies and accelerates development and tuning for x86" + puts stderr "applications. Installation requires acceptance of the EULA by setting" + puts stderr "the +license-agreed variant. https://www.amd.com/en/developer/aocc/aocc-" + puts stderr "compiler/eula.html Example for installation: 'spack install aocc" + puts stderr "+license-agreed'" +} + +module load zlib/1.2.13 +prereq zlib/1.2.13 +conflict aocc + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/aocc-3.2.0-rijlo2ezv4zkhjmm4gvqigdvye2cc72y/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/aocc-3.2.0-rijlo2ezv4zkhjmm4gvqigdvye2cc72y/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/aocc-3.2.0-rijlo2ezv4zkhjmm4gvqigdvye2cc72y/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/aocc-3.2.0-rijlo2ezv4zkhjmm4gvqigdvye2cc72y/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/aocc-3.2.0-rijlo2ezv4zkhjmm4gvqigdvye2cc72y/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/aocc-3.2.0-rijlo2ezv4zkhjmm4gvqigdvye2cc72y/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/aocc-3.2.0-rijlo2ezv4zkhjmm4gvqigdvye2cc72y/share/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/aocc-3.2.0-rijlo2ezv4zkhjmm4gvqigdvye2cc72y/." +setenv AOCC_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/aocc-3.2.0-rijlo2ezv4zkhjmm4gvqigdvye2cc72y" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/aragorn/1.2.41 b/modulefiles/hpccf/peloton/tcl/aragorn/1.2.41 new file mode 100644 index 00000000..44746e19 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/aragorn/1.2.41 @@ -0,0 +1,26 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:11.155214 +## +## aragorn@1.2.41%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/xe5hgpk +## + + +module-whatis "ARAGORN, a program to detect tRNA genes and tmRNA genes in nucleotide sequences." + +proc ModulesHelp { } { + puts stderr "Name : aragorn" + puts stderr "Version: 1.2.41" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "ARAGORN, a program to detect tRNA genes and tmRNA genes in nucleotide" + puts stderr "sequences." +} + +conflict aragorn + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/aragorn-1.2.41-xe5hgpk3h2kyyqybvyvx5653dspjk55y/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/aragorn-1.2.41-xe5hgpk3h2kyyqybvyvx5653dspjk55y/." +setenv ARAGORN_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/aragorn-1.2.41-xe5hgpk3h2kyyqybvyvx5653dspjk55y" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/aria2/1.36.0 b/modulefiles/hpccf/peloton/tcl/aria2/1.36.0 new file mode 100644 index 00000000..0d87515a --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/aria2/1.36.0 @@ -0,0 +1,28 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:11.249069 +## +## aria2@1.36.0%gcc@11.3.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/icpmam6 +## + + +module-whatis "An ultra fast download utility" + +proc ModulesHelp { } { + puts stderr "Name : aria2" + puts stderr "Version: 1.36.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "An ultra fast download utility" +} + +module load zlib/1.2.13 +prereq zlib/1.2.13 +conflict aria2 + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/aria2-1.36.0-icpmam6hss5ibuwxhpnl5nshy7n5amkb/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/aria2-1.36.0-icpmam6hss5ibuwxhpnl5nshy7n5amkb/share/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/aria2-1.36.0-icpmam6hss5ibuwxhpnl5nshy7n5amkb/." +setenv ARIA2_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/aria2-1.36.0-icpmam6hss5ibuwxhpnl5nshy7n5amkb" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/aspera-cli/3.7.7 b/modulefiles/hpccf/peloton/tcl/aspera-cli/3.7.7 new file mode 100644 index 00000000..1a1309f3 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/aspera-cli/3.7.7 @@ -0,0 +1,25 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:11.780225 +## +## aspera-cli@3.7.7%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/pbcdmfm +## + + +module-whatis "The Aspera CLI client for the Fast and Secure Protocol (FASP)." + +proc ModulesHelp { } { + puts stderr "Name : aspera-cli" + puts stderr "Version: 3.7.7" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "The Aspera CLI client for the Fast and Secure Protocol (FASP)." +} + +conflict aspera-cli + +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/aspera-cli-3.7.7-pbcdmfmnjhx3bmlwtglhgrayazs2k2zo/." +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/aspera-cli-3.7.7-pbcdmfmnjhx3bmlwtglhgrayazs2k2zo/cli/bin" +setenv ASPERA_CLI_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/aspera-cli-3.7.7-pbcdmfmnjhx3bmlwtglhgrayazs2k2zo" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/augustus/3.5.0 b/modulefiles/hpccf/peloton/tcl/augustus/3.5.0 new file mode 100644 index 00000000..5f62b278 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/augustus/3.5.0 @@ -0,0 +1,34 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-09-14 16:05:41.126413 +## +## augustus@3.5.0%gcc@11.3.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v2/dx7adjz +## + + +module-whatis "AUGUSTUS is a program that predicts genes in eukaryotic genomic sequences" + +proc ModulesHelp { } { + puts stderr "Name : augustus" + puts stderr "Version: 3.5.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "AUGUSTUS is a program that predicts genes in eukaryotic genomic" + puts stderr "sequences" +} + +module load gsl/2.7.1 +module load samtools/1.16.1 +module load zlib/1.2.13 +prereq gsl/2.7.1 +prereq samtools/1.16.1 +prereq zlib/1.2.13 +conflict augustus + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/augustus-3.5.0-dx7adjzjrk3mmf2sv2l6am64iioxgm6y/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/augustus-3.5.0-dx7adjzjrk3mmf2sv2l6am64iioxgm6y/." +setenv AUGUSTUS_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/augustus-3.5.0-dx7adjzjrk3mmf2sv2l6am64iioxgm6y/config" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/augustus-3.5.0-dx7adjzjrk3mmf2sv2l6am64iioxgm6y/scripts" +setenv AUGUSTUS_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/augustus-3.5.0-dx7adjzjrk3mmf2sv2l6am64iioxgm6y" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/awscli/1.27.84 b/modulefiles/hpccf/peloton/tcl/awscli/1.27.84 new file mode 100644 index 00000000..96a8137f --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/awscli/1.27.84 @@ -0,0 +1,41 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:11.872467 +## +## awscli@1.27.84%gcc@11.3.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v2/calcx5a +## + + +module-whatis "This package provides a unified command line interface to Amazon Web Services" + +proc ModulesHelp { } { + puts stderr "Name : awscli" + puts stderr "Version: 1.27.84" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "This package provides a unified command line interface to Amazon Web" + puts stderr "Services" +} + +conflict awscli + +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/awscli-1.27.84-calcx5abximm2pnwmy2mg7x6eb5ayvtq/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/awscli-1.27.84-calcx5abximm2pnwmy2mg7x6eb5ayvtq/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/awscli-1.27.84-calcx5abximm2pnwmy2mg7x6eb5ayvtq/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/awscli-1.27.84-calcx5abximm2pnwmy2mg7x6eb5ayvtq/." +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/awscli-1.27.84-calcx5abximm2pnwmy2mg7x6eb5ayvtq/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-botocore-1.29.84-6ws622lyny3co3ehofaj6u7t7odk3vy5/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-jmespath-1.0.1-badwpmsoiybff3c6dwqnjhyhinqno53n/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-python-dateutil-2.8.2-uvlc3tvvg3xid4ya3yzwibdrpdhh5l3j/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-six-1.16.0-3gezqelwrpxlnssexhglquiiucclgbhz/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-urllib3-1.26.12-5aofjh6ktrsynqa4qh7qnemggvew3x6c/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-colorama-0.4.4-kljhoqhyykkn525xeart7tjatk64gttn/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-docutils-0.16-5wp7rrzk4akdf6sqt7sztez3r6ruao6m/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-pyyaml-5.4.1-coxkusflzdc5ysxuskt254bodvjjkpxv/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-rsa-4.7.2-qamv63wz3wuwamw3icdxe73yrzr77dly/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-pyasn1-0.4.8-kcmxzilbxqdjexgwoyprbiqlz2jn6n2g/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-setuptools-67.6.0-6zptasw65hqd5nybxil3qyqli5tcvvrm/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-s3transfer-0.6.0-3eytc64aktdbbdpzqbqro55eak4rrv6u/lib/python3.10/site-packages" +setenv AWSCLI_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/awscli-1.27.84-calcx5abximm2pnwmy2mg7x6eb5ayvtq" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/bayenv2/2.0 b/modulefiles/hpccf/peloton/tcl/bayenv2/2.0 new file mode 100644 index 00000000..c7b9e659 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/bayenv2/2.0 @@ -0,0 +1,36 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:12.203975 +## +## bayenv2@2.0%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/p3bn2rd +## + + +module-whatis "Loci involved in local adaptation can potentially be identified by an unusual correlation between allele frequencies and important ecological variables, or by extreme allele frequency differences between geographic regions. However, such comparisons are complicated by differences in sample sizes and the neutral correlation of allele frequencies across populations due to shared history and gene flow. To overcome these difficulties, we have developed a Bayesian method that estimates the empirical pattern of covariance in allele frequencies between populations from a set of markers, and then uses this as a null model for a test at individual SNPs. Graham developed this method in collaboration with David Witonsky, Anna Di Rienzo and Jonathan Pritchard." + +proc ModulesHelp { } { + puts stderr "Name : bayenv2" + puts stderr "Version: 2.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Loci involved in local adaptation can potentially be identified by an" + puts stderr "unusual correlation between allele frequencies and important ecological" + puts stderr "variables, or by extreme allele frequency differences between geographic" + puts stderr "regions. However, such comparisons are complicated by differences in" + puts stderr "sample sizes and the neutral correlation of allele frequencies across" + puts stderr "populations due to shared history and gene flow. To overcome these" + puts stderr "difficulties, we have developed a Bayesian method that estimates the" + puts stderr "empirical pattern of covariance in allele frequencies between" + puts stderr "populations from a set of markers, and then uses this as a null model" + puts stderr "for a test at individual SNPs. Graham developed this method in" + puts stderr "collaboration with David Witonsky, Anna Di Rienzo and Jonathan" + puts stderr "Pritchard." +} + +conflict bayenv2 + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/bayenv2-2.0-p3bn2rd3mlzp7hzpfjj34r2rqh7pvpic/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/bayenv2-2.0-p3bn2rd3mlzp7hzpfjj34r2rqh7pvpic/." +setenv BAYENV2_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/bayenv2-2.0-p3bn2rd3mlzp7hzpfjj34r2rqh7pvpic" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/bbmap/39.01 b/modulefiles/hpccf/peloton/tcl/bbmap/39.01 new file mode 100644 index 00000000..6920efd9 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/bbmap/39.01 @@ -0,0 +1,27 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:12.228301 +## +## bbmap@39.01%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/lwohpti +## + + +module-whatis "Short read aligner for DNA and RNA-seq data." + +proc ModulesHelp { } { + puts stderr "Name : bbmap" + puts stderr "Version: 39.01" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Short read aligner for DNA and RNA-seq data." +} + +conflict bbmap + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/bbmap-39.01-lwohptiqiaalba45yfk2syyhsusny3on/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/bbmap-39.01-lwohptiqiaalba45yfk2syyhsusny3on/." +setenv BBMAP_CONFIG "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/bbmap-39.01-lwohptiqiaalba45yfk2syyhsusny3on/bin/config" +setenv BBMAP_RESOURCES "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/bbmap-39.01-lwohptiqiaalba45yfk2syyhsusny3on/bin/resources" +setenv BBMAP_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/bbmap-39.01-lwohptiqiaalba45yfk2syyhsusny3on" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/bcftools/1.16 b/modulefiles/hpccf/peloton/tcl/bcftools/1.16 new file mode 100644 index 00000000..87ea8cae --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/bcftools/1.16 @@ -0,0 +1,45 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:12.283073 +## +## bcftools@1.16%gcc@11.3.0+libgsl+perl-filters build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/obn6u25 +## +## Configure options: --with-htslib=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/htslib-1.16-c6gyawboz5kop255ysag27chyhh5dc73 --enable-libgsl --enable-perl-filters +## + + +module-whatis "BCFtools is a set of utilities that manipulate variant calls in the Variant Call Format (VCF) and its binary counterpart BCF. All commands work transparently with both VCFs and BCFs, both uncompressed and BGZF-compressed." + +proc ModulesHelp { } { + puts stderr "Name : bcftools" + puts stderr "Version: 1.16" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "BCFtools is a set of utilities that manipulate variant calls in the" + puts stderr "Variant Call Format (VCF) and its binary counterpart BCF. All commands" + puts stderr "work transparently with both VCFs and BCFs, both uncompressed and BGZF-" + puts stderr "compressed." +} + +module load gsl/2.7.1 +prereq gsl/2.7.1 +conflict bcftools + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/bcftools-1.16-obn6u255nmmgnwn222lpr55w6qo2z6vq/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/bcftools-1.16-obn6u255nmmgnwn222lpr55w6qo2z6vq/share/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/bcftools-1.16-obn6u255nmmgnwn222lpr55w6qo2z6vq/." +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-matplotlib-3.7.1-o26yn5bpu2eupgk6jarnbariwexq5aye/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-contourpy-1.0.5-pbksj6frfrastamgk2jttz2rbx6xzayt/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-numpy-1.24.3-ncgncvgk3wg73eqiitkkumoniwwv5fnv/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-setuptools-63.4.3-lbj7d45k7odyhqivr4lk5oqyfeymtkux/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-cycler-0.11.0-jb4275pnm7hbn7hthddnlwpzatbecpaw/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-fonttools-4.37.3-hk43we6pasaw4lmenav75vnz2gcusid4/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-kiwisolver-1.4.4-2hrb757fm255ofquczrzy6hq4xg5o6gz/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-packaging-23.0-guzysrx46md3mjvnsetxoui22uce5vwm/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-pillow-9.5.0-fvsebbblokzqdhycxej32hz5mdnfrv7o/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-pyparsing-3.0.9-udtuyywx67y6fhejp35vjiezfaff6pu3/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-python-dateutil-2.8.2-3npk57crmmsp3ms6sc346qcs5a7pgu5v/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-six-1.16.0-n5ow3krhvn3dl7zwzvmfwpa7wpmbfepd/lib/python3.10/site-packages" +setenv BCFTOOLS_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/bcftools-1.16-obn6u255nmmgnwn222lpr55w6qo2z6vq" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/beagle/5.4 b/modulefiles/hpccf/peloton/tcl/beagle/5.4 new file mode 100644 index 00000000..c3682d5e --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/beagle/5.4 @@ -0,0 +1,26 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:12.692750 +## +## beagle@5.4%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/adx2zao +## + + +module-whatis "Beagle is a software package for phasing genotypes and for imputing ungenotyped markers." + +proc ModulesHelp { } { + puts stderr "Name : beagle" + puts stderr "Version: 5.4" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Beagle is a software package for phasing genotypes and for imputing" + puts stderr "ungenotyped markers." +} + +conflict beagle + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/beagle-5.4-adx2zaojrqweco3ohpi5qi626nyjbne7/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/beagle-5.4-adx2zaojrqweco3ohpi5qi626nyjbne7/." +setenv BEAGLE_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/beagle-5.4-adx2zaojrqweco3ohpi5qi626nyjbne7" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/bedops/2.4.40 b/modulefiles/hpccf/peloton/tcl/bedops/2.4.40 new file mode 100644 index 00000000..6c43c4a7 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/bedops/2.4.40 @@ -0,0 +1,28 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:12.731008 +## +## bedops@2.4.40%gcc@11.3.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v2/4y2nyiv +## + + +module-whatis "BEDOPS is an open-source command-line toolkit that performs highly efficient and scalable Boolean and other set operations, statistical calculations, archiving, conversion and other management of genomic data of arbitrary scale." + +proc ModulesHelp { } { + puts stderr "Name : bedops" + puts stderr "Version: 2.4.40" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "BEDOPS is an open-source command-line toolkit that performs highly" + puts stderr "efficient and scalable Boolean and other set operations, statistical" + puts stderr "calculations, archiving, conversion and other management of genomic data" + puts stderr "of arbitrary scale." +} + +conflict bedops + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/bedops-2.4.40-4y2nyivrtnilyolhessrnejymu7niswb/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/bedops-2.4.40-4y2nyivrtnilyolhessrnejymu7niswb/." +setenv BEDOPS_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/bedops-2.4.40-4y2nyivrtnilyolhessrnejymu7niswb" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/blast-plus/2.13.0 b/modulefiles/hpccf/peloton/tcl/blast-plus/2.13.0 new file mode 100644 index 00000000..a511c021 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/blast-plus/2.13.0 @@ -0,0 +1,36 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:12.852049 +## +## blast-plus@2.13.0%gcc@11.3.0+bzip2+freetype+gnutls+jpeg+lzo+openssl+pcre+perl+png+python~static+zlib build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/vttkjtr +## +## Configure options: --with-bin-release --without-debug --with-mt --without-boost --with-64 --with-dll --without-static --without-static-exe --with-jpeg=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libjpeg-turbo-2.1.5-gb3femnfzpbq6vyi5p3zj3a66dy6k2sc --with-png=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libpng-1.6.39-evb6o4wkmierehtdjlngxqjpfkcin3bu --with-freetype=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/freetype-2.11.1-is3fadjxbzxsv5z2rg3cg3nhhck4beeb --without-hdf5 --with-z=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/zlib-1.2.13-77qi6rvrwc4iwqziogd6vdxucahcm5qe --with-bz2=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/bzip2-1.0.8-dtsdvarms4sm5nhcsdmhljkzfplepf4p --with-lzo=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/lzo-2.10-mfboq4tvy55xhselzqwajhlxvwgyv2xq --with-gnutls=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gnutls-3.7.8-bxz5vxuzyglavapdu3g7ugq7nmu2zldz --with-openssl=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openssl-1.1.1t-cqmdmwkhnvflzle4etbhd4kz6bf5jxsk --with-pcre=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/pcre-8.45-4ukbbhvt6vwboawbi6aiq3grsgablcbk --with-python=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/python-3.10.10-flhvzx3yiwu2lzb5as2qrpkdiijbgouq --with-perl=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-5.36.0-65ysuw5shizjrytbbjmx2srgqz7y6uim +## + + +module-whatis "Basic Local Alignment Search Tool." + +proc ModulesHelp { } { + puts stderr "Name : blast-plus" + puts stderr "Version: 2.13.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Basic Local Alignment Search Tool." +} + +module load bzip2/1.0.8 +module load zlib/1.2.13 +prereq bzip2/1.0.8 +prereq zlib/1.2.13 +conflict blast-plus + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/blast-plus-2.13.0-vttkjtrajdx35frqsp2wvun6qhiit6ci/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/blast-plus-2.13.0-vttkjtrajdx35frqsp2wvun6qhiit6ci/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/blast-plus-2.13.0-vttkjtrajdx35frqsp2wvun6qhiit6ci/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/blast-plus-2.13.0-vttkjtrajdx35frqsp2wvun6qhiit6ci/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/blast-plus-2.13.0-vttkjtrajdx35frqsp2wvun6qhiit6ci/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/blast-plus-2.13.0-vttkjtrajdx35frqsp2wvun6qhiit6ci/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/blast-plus-2.13.0-vttkjtrajdx35frqsp2wvun6qhiit6ci/." +setenv BLAST_PLUS_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/blast-plus-2.13.0-vttkjtrajdx35frqsp2wvun6qhiit6ci" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/blast2go/5.2.5 b/modulefiles/hpccf/peloton/tcl/blast2go/5.2.5 new file mode 100644 index 00000000..f9005447 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/blast2go/5.2.5 @@ -0,0 +1,28 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:13.128300 +## +## blast2go@5.2.5%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/jiqy2sv +## + + +module-whatis "Blast2GO is a bioinformatics platform for high-quality functional annotation and analysis of genomic datasets." + +proc ModulesHelp { } { + puts stderr "Name : blast2go" + puts stderr "Version: 5.2.5" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Blast2GO is a bioinformatics platform for high-quality functional" + puts stderr "annotation and analysis of genomic datasets." +} + +module load blast-plus/2.13.0 +prereq blast-plus/2.13.0 +conflict blast2go + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/blast2go-5.2.5-jiqy2svganiq5fnvioqoknesywg2rztf/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/blast2go-5.2.5-jiqy2svganiq5fnvioqoknesywg2rztf/." +setenv BLAST2GO_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/blast2go-5.2.5-jiqy2svganiq5fnvioqoknesywg2rztf" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/blat/35 b/modulefiles/hpccf/peloton/tcl/blat/35 new file mode 100644 index 00000000..949c02a2 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/blat/35 @@ -0,0 +1,26 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:13.204567 +## +## blat@35%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-zen/bpsezdf +## + + +module-whatis "BLAT (BLAST-like alignment tool) is a pairwise sequence alignment algorithm." + +proc ModulesHelp { } { + puts stderr "Name : blat" + puts stderr "Version: 35" + puts stderr "Target : zen" + puts stderr "" + puts stderr "BLAT (BLAST-like alignment tool) is a pairwise sequence alignment" + puts stderr "algorithm." +} + +conflict blat + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen/gcc-11.3.0/blat-35-bpsezdfp3bbpifpzhdvjz3vxh7jtr5jc/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen/gcc-11.3.0/blat-35-bpsezdfp3bbpifpzhdvjz3vxh7jtr5jc/." +setenv BLAT_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-zen/gcc-11.3.0/blat-35-bpsezdfp3bbpifpzhdvjz3vxh7jtr5jc" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/boost/1.82.0 b/modulefiles/hpccf/peloton/tcl/boost/1.82.0 new file mode 100644 index 00000000..1469d294 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/boost/1.82.0 @@ -0,0 +1,32 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:13.235504 +## +## boost@1.82.0%gcc@11.3.0~atomic~chrono~clanglibcpp~container~context~contract~coroutine~date_time~debug~exception~fiber~filesystem~graph~graph_parallel~icu~iostreams~json~locale~log~math~mpi+multithreaded~nowide~numpy~pic~program_options~python~random~regex~serialization+shared~signals~singlethreaded~stacktrace~system~taggedlayout~test~thread~timer~type_erasure~versionedlayout~wave build_system=generic cxxstd=98 patches=a440f96,a7c807f visibility=hidden arch=linux-ubuntu22.04-x86_64_v2/wgxpvwq +## + + +module-whatis "Boost provides free peer-reviewed portable C++ source libraries, emphasizing libraries that work well with the C++ Standard Library." + +proc ModulesHelp { } { + puts stderr "Name : boost" + puts stderr "Version: 1.82.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Boost provides free peer-reviewed portable C++ source libraries," + puts stderr "emphasizing libraries that work well with the C++ Standard Library." + puts stderr "Boost libraries are intended to be widely useful, and usable across a" + puts stderr "broad spectrum of applications. The Boost license encourages both" + puts stderr "commercial and non-commercial use." +} + +conflict boost + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/boost-1.82.0-wgxpvwq4sg4k3qxzyq2xinnvxqm2rkli/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/boost-1.82.0-wgxpvwq4sg4k3qxzyq2xinnvxqm2rkli/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/boost-1.82.0-wgxpvwq4sg4k3qxzyq2xinnvxqm2rkli/include" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/boost-1.82.0-wgxpvwq4sg4k3qxzyq2xinnvxqm2rkli/." +setenv BOOST_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/boost-1.82.0-wgxpvwq4sg4k3qxzyq2xinnvxqm2rkli" +setenv BOOST_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/boost-1.82.0-wgxpvwq4sg4k3qxzyq2xinnvxqm2rkli" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/bowtie/1.3.1 b/modulefiles/hpccf/peloton/tcl/bowtie/1.3.1 new file mode 100644 index 00000000..63ace9c2 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/bowtie/1.3.1 @@ -0,0 +1,26 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:13.258242 +## +## bowtie@1.3.1%gcc@11.3.0~tbb build_system=makefile patches=55bcf00 arch=linux-ubuntu22.04-x86_64_v2/givlfh7 +## + + +module-whatis "Bowtie is an ultrafast, memory-efficient short read aligner for short DNA sequences (reads) from next-gen sequencers." + +proc ModulesHelp { } { + puts stderr "Name : bowtie" + puts stderr "Version: 1.3.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Bowtie is an ultrafast, memory-efficient short read aligner for short" + puts stderr "DNA sequences (reads) from next-gen sequencers." +} + +conflict bowtie + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/bowtie-1.3.1-givlfh76d7xwvmebey3zetmy7qcgigb3/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/bowtie-1.3.1-givlfh76d7xwvmebey3zetmy7qcgigb3/." +setenv BOWTIE_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/bowtie-1.3.1-givlfh76d7xwvmebey3zetmy7qcgigb3" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/bowtie2/2.4.2 b/modulefiles/hpccf/peloton/tcl/bowtie2/2.4.2 new file mode 100644 index 00000000..5607eac2 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/bowtie2/2.4.2 @@ -0,0 +1,30 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:13.323254 +## +## bowtie2@2.4.2%gcc@11.3.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v2/rfd3iu2 +## + + +module-whatis "Bowtie 2 is an ultrafast and memory-efficient tool for aligning sequencing reads to long reference sequences" + +proc ModulesHelp { } { + puts stderr "Name : bowtie2" + puts stderr "Version: 2.4.2" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Bowtie 2 is an ultrafast and memory-efficient tool for aligning" + puts stderr "sequencing reads to long reference sequences" +} + +module load intel-oneapi-tbb/2021.9.0 +module load zlib/1.2.13 +prereq intel-oneapi-tbb/2021.9.0 +prereq zlib/1.2.13 +conflict bowtie2 + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/bowtie2-2.4.2-rfd3iu2wljwxilf4vpiu223nlbh35rrt/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/bowtie2-2.4.2-rfd3iu2wljwxilf4vpiu223nlbh35rrt/." +setenv BOWTIE2_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/bowtie2-2.4.2-rfd3iu2wljwxilf4vpiu223nlbh35rrt" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/braker/2.1.6 b/modulefiles/hpccf/peloton/tcl/braker/2.1.6 new file mode 100644 index 00000000..c2f9efe3 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/braker/2.1.6 @@ -0,0 +1,36 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-09-14 16:05:43.596453 +## +## braker@2.1.6%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/4dnpnab +## + + +module-whatis "BRAKER is a pipeline for unsupervised RNA-Seq-based genome annotation that combines the advantages of GeneMark-ET and AUGUSTUS" + +proc ModulesHelp { } { + puts stderr "Name : braker" + puts stderr "Version: 2.1.6" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "BRAKER is a pipeline for unsupervised RNA-Seq-based genome annotation" + puts stderr "that combines the advantages of GeneMark-ET and AUGUSTUS" +} + +module load augustus/3.5.0 +module load diamond/2.0.15 +module load samtools/1.16.1 +prereq augustus/3.5.0 +prereq diamond/2.0.15 +prereq samtools/1.16.1 +conflict braker + +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/braker-2.1.6-4dnpnabwiiikzc2koe2eqrsvfyowrnr5/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/braker-2.1.6-4dnpnabwiiikzc2koe2eqrsvfyowrnr5/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/braker-2.1.6-4dnpnabwiiikzc2koe2eqrsvfyowrnr5/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/braker-2.1.6-4dnpnabwiiikzc2koe2eqrsvfyowrnr5/." +prepend-path --delim ":" PERL5LIB "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-file-homedir-1.006-qtrsjvqyc4szaf5wz3qmvqzzo57rn2mx/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-file-which-1.27-efmpgsyek4jwmas6n5rqwna7i6t3jt3x/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-hash-merge-0.300-xm24fwf3tkfbpbec4fl7wyho2crbsi3n/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-clone-choose-0.010-jmffru4gsqyfk2lih7w4chghr6fni43q/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-scalar-list-utils-1.63-2fmrhxvuwnhf6qpu3kzytbah4csue5xj/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-list-moreutils-0.430-mdc472j2vx7p7uvt3umcxfvzpfhqqmik/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-exporter-tiny-1.006002-4zqn5jwmxwhvgehp3cq42nsol635h7um/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-list-moreutils-xs-0.430-hjt25ottegq5pwrncrqqsv3lfswsmajw/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-logger-simple-2.0-oulxf6cjhyhntzlq23iggrnkqqa2v7nm/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-object-insideout-4.05-6s5lc2xb6oomakyajweoamtpyboxjbup/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-exception-class-1.45-nubcsxyodvtzhy5ri23u4zmazlch77ny/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-class-data-inheritable-0.08-ddsz5tj6ieqck3kvmenjnjwihnutxc6x/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-devel-stacktrace-2.04-aojfkj4haitnhphbpykietoopvy4rihy/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-parallel-forkmanager-2.02-vuwbqsljeiun4zr5qe2pxlcvtirpf24g/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-scalar-util-numeric-0.40-r4fbyeiktjou2aebf3mmz6ufu6pbz3g7/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-yaml-1.30-gsmre7nabbj2xozgsusznl64eige5de5/lib/perl5" +prepend-path --delim ":" PERL5LIB "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/braker-2.1.6-4dnpnabwiiikzc2koe2eqrsvfyowrnr5/lib" +setenv BRAKER_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/braker-2.1.6-4dnpnabwiiikzc2koe2eqrsvfyowrnr5" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/busco/5.4.3 b/modulefiles/hpccf/peloton/tcl/busco/5.4.3 new file mode 100644 index 00000000..7bd483e4 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/busco/5.4.3 @@ -0,0 +1,48 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-09-14 16:05:44.085156 +## +## busco@5.4.3%gcc@11.3.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v2/zphaufq +## + + +module-whatis "Assesses genome assembly and annotation completeness with Benchmarking Universal Single-Copy Orthologs" + +proc ModulesHelp { } { + puts stderr "Name : busco" + puts stderr "Version: 5.4.3" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Assesses genome assembly and annotation completeness with Benchmarking" + puts stderr "Universal Single-Copy Orthologs" +} + +module load hmmer/3.3.2 +module load metaeuk/6-a5d39d9 +module load prodigal/2.6.3 +prereq hmmer/3.3.2 +prereq metaeuk/6-a5d39d9 +prereq prodigal/2.6.3 +conflict busco + +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/busco-5.4.3-zphaufqenbaafgqflkxuahi4dno3f4o5/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/busco-5.4.3-zphaufqenbaafgqflkxuahi4dno3f4o5/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/busco-5.4.3-zphaufqenbaafgqflkxuahi4dno3f4o5/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/busco-5.4.3-zphaufqenbaafgqflkxuahi4dno3f4o5/." +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/busco-5.4.3-zphaufqenbaafgqflkxuahi4dno3f4o5/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-biopython-1.81-msrvaf7bmdly4nudbxyiyird2yzyxviv/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-numpy-1.24.3-weuaipxfhdzjufh7dwrjpe7mbm3xvdp7/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-setuptools-63.4.3-eipobqg37cmma4kuuguhojfyvoorlzaq/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-pandas-1.5.3-vucnai4ppe4db6zo6jjufyi2vqg3mdgm/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-bottleneck-1.3.5-hg37iyf4rbdwxmuvijb6feyxzrkayfok/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-numexpr-2.8.3-aj47duuexkgjjvtdyxpgjugvkslla2u5/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-packaging-23.0-kbmyij43godwvbh6ejqjscvetxsb3knu/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-python-dateutil-2.8.2-ogz73eijxvwx4gidwjxknsdkvebktphd/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-six-1.16.0-ytzy3xh5ac3gndxg6nofrb4ocx7hv3ry/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-pytz-2022.2.1-sampgcpgrdg7owhdgtjyjnkivub36sgy/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/sepp-4.5.1-uzo4k3cuoqvzlm4u4patw2w7r5t55ypf/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/pasta-1.9.0-fl7uwiou5c6p43f2himyldutkm54mtlb/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-dendropy-4.5.2-rra43v5c6efgai2r2q2aenfqwuz47kl2/lib/python3.10/site-packages" +setenv BUSCO_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/busco-5.4.3-zphaufqenbaafgqflkxuahi4dno3f4o5" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/bwa-mem2/2.2.1 b/modulefiles/hpccf/peloton/tcl/bwa-mem2/2.2.1 new file mode 100644 index 00000000..b4f1b293 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/bwa-mem2/2.2.1 @@ -0,0 +1,27 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-20 13:56:37.782795 +## +## bwa-mem2@2.2.1%oneapi@2022.2.1 build_system=makefile patches=0dab6fb,541bd2d arch=linux-ubuntu22.04-x86_64/svhpjk3 +## + + +module-whatis "The tool bwa-mem2 is the next version of the bwa-mem algorithm in bwa. It produces alignment identical to bwa and is ~1.3-3.1x faster depending on the use-case, dataset and the running machine." + +proc ModulesHelp { } { + puts stderr "Name : bwa-mem2" + puts stderr "Version: 2.2.1" + puts stderr "Target : x86_64" + puts stderr "" + puts stderr "The tool bwa-mem2 is the next version of the bwa-mem algorithm in bwa." + puts stderr "It produces alignment identical to bwa and is ~1.3-3.1x faster depending" + puts stderr "on the use-case, dataset and the running machine." +} + +conflict bwa-mem2 + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64/oneapi-2022.2.1/bwa-mem2-2.2.1-svhpjk3uq2abx45o5tjp6buoad74lm5f/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64/oneapi-2022.2.1/bwa-mem2-2.2.1-svhpjk3uq2abx45o5tjp6buoad74lm5f/." +setenv BWA_MEM2_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64/oneapi-2022.2.1/bwa-mem2-2.2.1-svhpjk3uq2abx45o5tjp6buoad74lm5f" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/bwa/0.7.17 b/modulefiles/hpccf/peloton/tcl/bwa/0.7.17 new file mode 100644 index 00000000..931d0a0d --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/bwa/0.7.17 @@ -0,0 +1,26 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:13.379504 +## +## bwa@0.7.17%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/xz4ny7r +## + + +module-whatis "Burrow-Wheeler Aligner for pairwise alignment between DNA sequences." + +proc ModulesHelp { } { + puts stderr "Name : bwa" + puts stderr "Version: 0.7.17" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Burrow-Wheeler Aligner for pairwise alignment between DNA sequences." +} + +conflict bwa + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/bwa-0.7.17-xz4ny7repxhbg3zijiymaejp52w3j5ee/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/bwa-0.7.17-xz4ny7repxhbg3zijiymaejp52w3j5ee/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/bwa-0.7.17-xz4ny7repxhbg3zijiymaejp52w3j5ee/." +setenv BWA_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/bwa-0.7.17-xz4ny7repxhbg3zijiymaejp52w3j5ee" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/bwtool/1.0 b/modulefiles/hpccf/peloton/tcl/bwtool/1.0 new file mode 100644 index 00000000..74a9756f --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/bwtool/1.0 @@ -0,0 +1,25 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:13.400204 +## +## bwtool@1.0%gcc@11.3.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/6gtf2bn +## + + +module-whatis "bwtool is a command-line utility for bigWig files." + +proc ModulesHelp { } { + puts stderr "Name : bwtool" + puts stderr "Version: 1.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "bwtool is a command-line utility for bigWig files." +} + +conflict bwtool + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/bwtool-1.0-6gtf2bn7asv365brn4torsaxjfntyobf/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/bwtool-1.0-6gtf2bn7asv365brn4torsaxjfntyobf/." +setenv BWTOOL_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/bwtool-1.0-6gtf2bn7asv365brn4torsaxjfntyobf" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/bzip2/1.0.8 b/modulefiles/hpccf/peloton/tcl/bzip2/1.0.8 new file mode 100644 index 00000000..0d418a62 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/bzip2/1.0.8 @@ -0,0 +1,35 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:13.430792 +## +## bzip2@1.0.8%gcc@11.3.0~debug~pic+shared build_system=generic arch=linux-ubuntu22.04-x86_64_v2/dtsdvar +## + + +module-whatis "bzip2 is a freely available, patent free high-quality data compressor. It typically compresses files to within 10% to 15% of the best available techniques (the PPM family of statistical compressors), whilst being around twice as fast at compression and six times faster at decompression." + +proc ModulesHelp { } { + puts stderr "Name : bzip2" + puts stderr "Version: 1.0.8" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "bzip2 is a freely available, patent free high-quality data compressor." + puts stderr "It typically compresses files to within 10% to 15% of the best available" + puts stderr "techniques (the PPM family of statistical compressors), whilst being" + puts stderr "around twice as fast at compression and six times faster at" + puts stderr "decompression." +} + +conflict bzip2 + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/bzip2-1.0.8-dtsdvarms4sm5nhcsdmhljkzfplepf4p/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/bzip2-1.0.8-dtsdvarms4sm5nhcsdmhljkzfplepf4p/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/bzip2-1.0.8-dtsdvarms4sm5nhcsdmhljkzfplepf4p/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/bzip2-1.0.8-dtsdvarms4sm5nhcsdmhljkzfplepf4p/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/bzip2-1.0.8-dtsdvarms4sm5nhcsdmhljkzfplepf4p/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/bzip2-1.0.8-dtsdvarms4sm5nhcsdmhljkzfplepf4p/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/bzip2-1.0.8-dtsdvarms4sm5nhcsdmhljkzfplepf4p/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/bzip2-1.0.8-dtsdvarms4sm5nhcsdmhljkzfplepf4p/." +setenv BZIP2_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/bzip2-1.0.8-dtsdvarms4sm5nhcsdmhljkzfplepf4p" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/canu/2.2 b/modulefiles/hpccf/peloton/tcl/canu/2.2 new file mode 100644 index 00000000..e9e1718d --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/canu/2.2 @@ -0,0 +1,38 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:13.483469 +## +## canu@2.2%gcc@11.3.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v2/xx6qvnu +## + + +module-whatis "A single molecule sequence assembler for genomes large and small." + +proc ModulesHelp { } { + puts stderr "Name : canu" + puts stderr "Version: 2.2" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "A single molecule sequence assembler for genomes large and small." +} + +module load gnuplot/5.4.3 +module load openjdk/16.0.2 +prereq gnuplot/5.4.3 +prereq openjdk/16.0.2 +conflict canu + +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/canu-2.2-xx6qvnus7og23iyvvercize2skxupxab/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/canu-2.2-xx6qvnus7og23iyvvercize2skxupxab/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/canu-2.2-xx6qvnus7og23iyvvercize2skxupxab/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/canu-2.2-xx6qvnus7og23iyvvercize2skxupxab/." +prepend-path --delim ":" XLOCALEDIR "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libx11-1.8.4-elhqje4pmr6c4jp256hrfear2cp45szn/share/X11/locale" +prepend-path --delim ":" XDG_DATA_DIRS "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gobject-introspection-1.72.1-nu356my5vhotbyf4w2nfliyqilhq7edi/share" +prepend-path --delim ":" GI_TYPELIB_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gobject-introspection-1.72.1-nu356my5vhotbyf4w2nfliyqilhq7edi/lib/girepository-1.0" +prepend-path --delim ":" XDG_DATA_DIRS "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/harfbuzz-5.3.1-qyvpfb7knng7m4hxr5id3jvtluoqxeoj/share" +prepend-path --delim ":" GI_TYPELIB_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/harfbuzz-5.3.1-qyvpfb7knng7m4hxr5id3jvtluoqxeoj/lib/girepository-1.0" +prepend-path --delim ":" XDG_DATA_DIRS "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/pango-1.50.13-xyculs47or3ygkdcemaibdyrmvkab3gf/share" +prepend-path --delim ":" GI_TYPELIB_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/pango-1.50.13-xyculs47or3ygkdcemaibdyrmvkab3gf/lib/girepository-1.0" +setenv CANU_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/canu-2.2-xx6qvnus7og23iyvvercize2skxupxab" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/cap3/2015-02-11 b/modulefiles/hpccf/peloton/tcl/cap3/2015-02-11 new file mode 100644 index 00000000..8d20cd98 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/cap3/2015-02-11 @@ -0,0 +1,25 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:14.542266 +## +## cap3@2015-02-11%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/jivt3g4 +## + + +module-whatis "CAP3 is DNA Sequence Assembly Program" + +proc ModulesHelp { } { + puts stderr "Name : cap3" + puts stderr "Version: 2015-02-11" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "CAP3 is DNA Sequence Assembly Program" +} + +conflict cap3 + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cap3-2015-02-11-jivt3g4pn246cuxx32t4mhwzftwzh2kn/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cap3-2015-02-11-jivt3g4pn246cuxx32t4mhwzftwzh2kn/." +setenv CAP3_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cap3-2015-02-11-jivt3g4pn246cuxx32t4mhwzftwzh2kn" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/ccfits/2.6 b/modulefiles/hpccf/peloton/tcl/ccfits/2.6 new file mode 100644 index 00000000..0d6f9e79 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/ccfits/2.6 @@ -0,0 +1,35 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:14.567495 +## +## ccfits@2.6%gcc@11.3.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/2ifo6gc +## + + +module-whatis "CCfits is an object oriented interface to the cfitsio library. It is designed to make the capabilities of cfitsio available to programmers working in C++. It is written in ANSI C++ and implemented using the C++ Standard Library with namespaces, exception handling, and member template functions." + +proc ModulesHelp { } { + puts stderr "Name : ccfits" + puts stderr "Version: 2.6" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "CCfits is an object oriented interface to the cfitsio library. It is" + puts stderr "designed to make the capabilities of cfitsio available to programmers" + puts stderr "working in C++. It is written in ANSI C++ and implemented using the C++" + puts stderr "Standard Library with namespaces, exception handling, and member" + puts stderr "template functions." +} + +conflict ccfits + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ccfits-2.6-2ifo6gciy63xcwe64xbhrbmtlztf2omo/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ccfits-2.6-2ifo6gciy63xcwe64xbhrbmtlztf2omo/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ccfits-2.6-2ifo6gciy63xcwe64xbhrbmtlztf2omo/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ccfits-2.6-2ifo6gciy63xcwe64xbhrbmtlztf2omo/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ccfits-2.6-2ifo6gciy63xcwe64xbhrbmtlztf2omo/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ccfits-2.6-2ifo6gciy63xcwe64xbhrbmtlztf2omo/bin" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ccfits-2.6-2ifo6gciy63xcwe64xbhrbmtlztf2omo/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ccfits-2.6-2ifo6gciy63xcwe64xbhrbmtlztf2omo/." +setenv CCFITS_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ccfits-2.6-2ifo6gciy63xcwe64xbhrbmtlztf2omo" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/cdhit/4.8.1 b/modulefiles/hpccf/peloton/tcl/cdhit/4.8.1 new file mode 100644 index 00000000..b8a874de --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/cdhit/4.8.1 @@ -0,0 +1,26 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:14.642736 +## +## cdhit@4.8.1%gcc@11.3.0+openmp+zlib build_system=makefile arch=linux-ubuntu22.04-x86_64_v2/laufwtz +## + + +module-whatis "CD-HIT is a very widely used program for clustering and comparing protein or nucleotide sequences." + +proc ModulesHelp { } { + puts stderr "Name : cdhit" + puts stderr "Version: 4.8.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "CD-HIT is a very widely used program for clustering and comparing" + puts stderr "protein or nucleotide sequences." +} + +conflict cdhit + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cdhit-4.8.1-laufwtzn7qxnt4hjvl34xe3cnixwwg7r/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cdhit-4.8.1-laufwtzn7qxnt4hjvl34xe3cnixwwg7r/." +setenv CDHIT_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cdhit-4.8.1-laufwtzn7qxnt4hjvl34xe3cnixwwg7r" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/cdo/2.1.1 b/modulefiles/hpccf/peloton/tcl/cdo/2.1.1 new file mode 100644 index 00000000..5712215f --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/cdo/2.1.1 @@ -0,0 +1,31 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:14.715992 +## +## cdo@2.1.1%gcc@11.3.0~curl~external-grib1+fftw3+hdf5+libxml2~magics+netcdf+openmp+proj+szip+udunits2 build_system=autotools grib2=eccodes arch=linux-ubuntu22.04-x86_64_v2/4234oa3 +## +## Configure options: --with-netcdf=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-c-4.9.2-muqr7es3ldayqz5vmfhig42wro7gzx3c --with-eccodes=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/eccodes-2.25.0-j6bsah3rlmxso7gxg2ojeamjfafvbq2p --without-grib_api --enable-cgribex --with-szlib=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libaec-1.0.6-m5vggf3f65wr5wea47t6ty7tz4earg4r --with-hdf5=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/hdf5-1.14.1-2-pkil3y66rhqrm22gtkoesdq2ccwhm3ps --with-udunits2=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/udunits-2.2.28-4td67tqewcxhvggqjkcbwkuspqtxccwd --with-libxml2=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libxml2-2.10.3-yne3x7jjvxdrolkdppdv4kglwcs6tykj --with-proj=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/proj-9.2.0-a7x2ck6hapnmbokazqkpi7a6qzogbscx --without-curl --without-magics --with-fftw3 --enable-openmp LDFLAGS=-L/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/hdf5-1.14.1-2-pkil3y66rhqrm22gtkoesdq2ccwhm3ps/lib CPPFLAGS=-DOMPI_SKIP_MPICXX -DMPICH_SKIP_MPICXX +## + + +module-whatis "CDO is a collection of command line Operators to manipulate and analyse Climate and NWP model Data. " + +proc ModulesHelp { } { + puts stderr "Name : cdo" + puts stderr "Version: 2.1.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "CDO is a collection of command line Operators to manipulate and analyse" + puts stderr "Climate and NWP model Data." +} + +module load fftw/3.3.10 +prereq fftw/3.3.10 +conflict cdo + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cdo-2.1.1-4234oa3qko733lr36d5ltkwptrfhuix7/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cdo-2.1.1-4234oa3qko733lr36d5ltkwptrfhuix7/." +setenv PROJ_LIB "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/proj-9.2.0-a7x2ck6hapnmbokazqkpi7a6qzogbscx/share/proj" +setenv CDO_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cdo-2.1.1-4234oa3qko733lr36d5ltkwptrfhuix7" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/cfitsio/4.2.0 b/modulefiles/hpccf/peloton/tcl/cfitsio/4.2.0 new file mode 100644 index 00000000..49791de6 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/cfitsio/4.2.0 @@ -0,0 +1,34 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:14.997402 +## +## cfitsio@4.2.0%gcc@11.3.0+bzip2+shared build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/jf4nazr +## +## Configure options: --with-bzip2=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/bzip2-1.0.8-dtsdvarms4sm5nhcsdmhljkzfplepf4p +## + + +module-whatis "CFITSIO is a library of C and Fortran subroutines for reading and writing data files in FITS (Flexible Image Transport System) data format. " + +proc ModulesHelp { } { + puts stderr "Name : cfitsio" + puts stderr "Version: 4.2.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "CFITSIO is a library of C and Fortran subroutines for reading and" + puts stderr "writing data files in FITS (Flexible Image Transport System) data" + puts stderr "format." +} + +conflict cfitsio + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cfitsio-4.2.0-jf4nazrwgvldnh7u3t4ipv2svqhta5vw/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cfitsio-4.2.0-jf4nazrwgvldnh7u3t4ipv2svqhta5vw/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cfitsio-4.2.0-jf4nazrwgvldnh7u3t4ipv2svqhta5vw/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cfitsio-4.2.0-jf4nazrwgvldnh7u3t4ipv2svqhta5vw/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cfitsio-4.2.0-jf4nazrwgvldnh7u3t4ipv2svqhta5vw/lib" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cfitsio-4.2.0-jf4nazrwgvldnh7u3t4ipv2svqhta5vw/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cfitsio-4.2.0-jf4nazrwgvldnh7u3t4ipv2svqhta5vw/." +setenv CFITSIO_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cfitsio-4.2.0-jf4nazrwgvldnh7u3t4ipv2svqhta5vw" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/cgal/5.4.1 b/modulefiles/hpccf/peloton/tcl/cgal/5.4.1 new file mode 100644 index 00000000..53ddd743 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/cgal/5.4.1 @@ -0,0 +1,38 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:15.047601 +## +## cgal@5.4.1%gcc@11.3.0~core~demos+eigen~header_only~imageio~ipo+shared build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v2/ff5qza6 +## +## Configure options: -DBUILD_SHARED_LIBS:BOOL=True -DWITH_CGAL_Core:BOOL=False -DWITH_CGAL_ImageIO:BOOL=False -DWITH_CGAL_Qt5:BOOL=False -DCGAL_HEADER_ONLY:BOOL=False +## + + +module-whatis "The Computational Geometry Algorithms Library (CGAL) is a C++ library that aims to provide easy access to efficient and reliable algorithms in computational geometry. CGAL is used in various areas needing geometric computation, such as geographic information systems, computer aided design, molecular biology, medical imaging, computer graphics, and robotics. " + +proc ModulesHelp { } { + puts stderr "Name : cgal" + puts stderr "Version: 5.4.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "The Computational Geometry Algorithms Library (CGAL) is a C++ library" + puts stderr "that aims to provide easy access to efficient and reliable algorithms in" + puts stderr "computational geometry. CGAL is used in various areas needing geometric" + puts stderr "computation, such as geographic information systems, computer aided" + puts stderr "design, molecular biology, medical imaging, computer graphics, and" + puts stderr "robotics." +} + +conflict cgal + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cgal-5.4.1-ff5qza6saibuevdnjf35eqeqbho5jhyq/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cgal-5.4.1-ff5qza6saibuevdnjf35eqeqbho5jhyq/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cgal-5.4.1-ff5qza6saibuevdnjf35eqeqbho5jhyq/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cgal-5.4.1-ff5qza6saibuevdnjf35eqeqbho5jhyq/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cgal-5.4.1-ff5qza6saibuevdnjf35eqeqbho5jhyq/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cgal-5.4.1-ff5qza6saibuevdnjf35eqeqbho5jhyq/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cgal-5.4.1-ff5qza6saibuevdnjf35eqeqbho5jhyq/share/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cgal-5.4.1-ff5qza6saibuevdnjf35eqeqbho5jhyq/." +setenv CGAL_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cgal-5.4.1-ff5qza6saibuevdnjf35eqeqbho5jhyq" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/circos/0.69-9 b/modulefiles/hpccf/peloton/tcl/circos/0.69-9 new file mode 100644 index 00000000..f2c4c9fc --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/circos/0.69-9 @@ -0,0 +1,29 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:15.381821 +## +## circos@0.69-9%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/623pce2 +## + + +module-whatis "Circos is a software package for visualizing data and information." + +proc ModulesHelp { } { + puts stderr "Name : circos" + puts stderr "Version: 0.69-9" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Circos is a software package for visualizing data and information." +} + +conflict circos + +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/circos-0.69-9-623pce2s2woa2igdgwthh3pzlr6hbqi5/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/circos-0.69-9-623pce2s2woa2igdgwthh3pzlr6hbqi5/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/circos-0.69-9-623pce2s2woa2igdgwthh3pzlr6hbqi5/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/circos-0.69-9-623pce2s2woa2igdgwthh3pzlr6hbqi5/." +prepend-path --delim ":" PERL5LIB "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-clone-0.46-ve4gb6auwf4a53r4jeah2rgt3nodtddi/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-config-general-2.65-cui2scobe2wvhezidd3esxzyeww6bdcn/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-exporter-tiny-1.006002-4zqn5jwmxwhvgehp3cq42nsol635h7um/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-font-ttf-1.06-xg5cqqsf35rkvwdnqg2xpyesx2rnrkq3/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-gd-2.53-tdazrgxir2ucd2vobmvwm744ej7o7c5h/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-extutils-makemaker-7.70-xrjw6ydbb3mhmo26jjg7dumac6jgk2j7/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-extutils-pkgconfig-1.16-l4hjun2rxhd2r74kfrq2vzbz25u6eua7/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-io-string-1.08-xinf5rluu7q7j6vcuqgec2zloqrtxhrw/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-list-moreutils-0.430-mdc472j2vx7p7uvt3umcxfvzpfhqqmik/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-list-moreutils-xs-0.430-hjt25ottegq5pwrncrqqsv3lfswsmajw/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-math-bezier-0.01-odlcospgx7eywj5jzvexym75lz6mcjzw/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-math-round-0.07-osbmxn54ob5tkouectup4jmtt5zw2ssf/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-math-vecstat-0.08-7q725biqn6ozcjznaiofmslp4b55npuz/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-params-validate-1.31-5gmlkrdepgwk4k35kglcoq4k2ngg5tjp/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-module-implementation-0.09-wxf6moy2agcawf4kkzmluwgzs6vsmzxr/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-module-runtime-0.016-zczwss4ckorzzf3jaqugrrb7gowj55vk/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-test-fatal-0.017-g2ilc5xwiq75s57m4nnyyneudplab2km/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-try-tiny-0.31-432e3zpsxdhmrfcx4avstmyhdofr4wgo/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-test-requires-0.11-btv4gk2ua2stdvpj7jyijcay6xklmygq/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-readonly-2.05-wl3k4xbkzotfahuq4hyjwnc4kxcyhq7j/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-regexp-common-2017060201-zcs2xqvh6gqywsyaj6igokhqsrfr6h5o/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-set-intspan-1.19-6hbys4mwbo3n75asrr5wn67dumx2anod/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-statistics-basic-1.6611-7t32bo3bnh7cfmpyba53npptqsxflynl/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-number-format-1.75-s4x46q4gzfsoh7joneotkxnikbck2fr4/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-scalar-list-utils-1.63-2fmrhxvuwnhf6qpu3kzytbah4csue5xj/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-svg-2.87-ufs4wjufsucigm2mzaj2qfqqd5gk6k2b/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-text-format-0.62-as2vbgdu4snsaejusvpljbatrcpcgvdx/lib/perl5" +prepend-path --delim ":" XLOCALEDIR "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libx11-1.8.4-elhqje4pmr6c4jp256hrfear2cp45szn/share/X11/locale" +setenv CIRCOS_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/circos-0.69-9-623pce2s2woa2igdgwthh3pzlr6hbqi5" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/clustal-omega/1.2.4 b/modulefiles/hpccf/peloton/tcl/clustal-omega/1.2.4 new file mode 100644 index 00000000..a79a0358 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/clustal-omega/1.2.4 @@ -0,0 +1,31 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:15.773753 +## +## clustal-omega@1.2.4%gcc@11.3.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/2zg7tzx +## + + +module-whatis "Clustal Omega: the last alignment program you'll ever need." + +proc ModulesHelp { } { + puts stderr "Name : clustal-omega" + puts stderr "Version: 1.2.4" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Clustal Omega: the last alignment program you'll ever need." +} + +conflict clustal-omega + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/clustal-omega-1.2.4-2zg7tzxxpai3jkht36gxwskp5igxkjgm/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/clustal-omega-1.2.4-2zg7tzxxpai3jkht36gxwskp5igxkjgm/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/clustal-omega-1.2.4-2zg7tzxxpai3jkht36gxwskp5igxkjgm/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/clustal-omega-1.2.4-2zg7tzxxpai3jkht36gxwskp5igxkjgm/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/clustal-omega-1.2.4-2zg7tzxxpai3jkht36gxwskp5igxkjgm/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/clustal-omega-1.2.4-2zg7tzxxpai3jkht36gxwskp5igxkjgm/bin" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/clustal-omega-1.2.4-2zg7tzxxpai3jkht36gxwskp5igxkjgm/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/clustal-omega-1.2.4-2zg7tzxxpai3jkht36gxwskp5igxkjgm/." +setenv CLUSTAL_OMEGA_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/clustal-omega-1.2.4-2zg7tzxxpai3jkht36gxwskp5igxkjgm" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/clustalw/2.1 b/modulefiles/hpccf/peloton/tcl/clustalw/2.1 new file mode 100644 index 00000000..f653d684 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/clustalw/2.1 @@ -0,0 +1,26 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:15.801463 +## +## clustalw@2.1%gcc@11.3.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/jw2m33w +## + + +module-whatis "Multiple alignment of nucleic acid and protein sequences." + +proc ModulesHelp { } { + puts stderr "Name : clustalw" + puts stderr "Version: 2.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Multiple alignment of nucleic acid and protein sequences." +} + +conflict clustalw + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/clustalw-2.1-jw2m33wj43egnumiuu45joocqmmd6aez/bin" +prepend-path --delim ":" ACLOCAL_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/clustalw-2.1-jw2m33wj43egnumiuu45joocqmmd6aez/share/aclocal" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/clustalw-2.1-jw2m33wj43egnumiuu45joocqmmd6aez/." +setenv CLUSTALW_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/clustalw-2.1-jw2m33wj43egnumiuu45joocqmmd6aez" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/cmake/3.26.3 b/modulefiles/hpccf/peloton/tcl/cmake/3.26.3 new file mode 100644 index 00000000..4d11249e --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/cmake/3.26.3 @@ -0,0 +1,27 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:15.823358 +## +## cmake@3.26.3%gcc@11.3.0~doc+ncurses+ownlibs~qt build_system=generic build_type=Release arch=linux-ubuntu22.04-x86_64_v2/naq3b4v +## + + +module-whatis "A cross-platform, open-source build system. CMake is a family of tools designed to build, test and package software. " + +proc ModulesHelp { } { + puts stderr "Name : cmake" + puts stderr "Version: 3.26.3" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "A cross-platform, open-source build system. CMake is a family of tools" + puts stderr "designed to build, test and package software." +} + +conflict cmake + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cmake-3.26.3-naq3b4v5ivwapa4ukmvwhqxxrzttzvd4/bin" +prepend-path --delim ":" ACLOCAL_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cmake-3.26.3-naq3b4v5ivwapa4ukmvwhqxxrzttzvd4/share/aclocal" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cmake-3.26.3-naq3b4v5ivwapa4ukmvwhqxxrzttzvd4/." +setenv CMAKE_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cmake-3.26.3-naq3b4v5ivwapa4ukmvwhqxxrzttzvd4" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/corset/1.09 b/modulefiles/hpccf/peloton/tcl/corset/1.09 new file mode 100644 index 00000000..ede13f59 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/corset/1.09 @@ -0,0 +1,26 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:15.877108 +## +## corset@1.09%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/x7ldc2l +## + + +module-whatis "Corset is a command-line software program to go from a de novo transcriptome assembly to gene-level counts." + +proc ModulesHelp { } { + puts stderr "Name : corset" + puts stderr "Version: 1.09" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Corset is a command-line software program to go from a de novo" + puts stderr "transcriptome assembly to gene-level counts." +} + +conflict corset + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/corset-1.09-x7ldc2lo3i67ateuhjocfryjzst3mvnn/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/corset-1.09-x7ldc2lo3i67ateuhjocfryjzst3mvnn/." +setenv CORSET_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/corset-1.09-x7ldc2lo3i67ateuhjocfryjzst3mvnn" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/coverm/0.6.1 b/modulefiles/hpccf/peloton/tcl/coverm/0.6.1 new file mode 100644 index 00000000..5ea1a5bd --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/coverm/0.6.1 @@ -0,0 +1,32 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-03 10:35:35.476156 +## +## coverm@0.6.1%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/jvoey4d +## + + +module-whatis "coverm @0.6.1" + +proc ModulesHelp { } { + puts stderr "Name : coverm" + puts stderr "Version: 0.6.1" + puts stderr "Target : x86_64_v2" +} + +module load dashing/0.4.0 +module load fastani/1.33 +module load minimap2/2.26 +module load samtools/1.16.1 +prereq dashing/0.4.0 +prereq fastani/1.33 +prereq minimap2/2.26 +prereq samtools/1.16.1 +conflict coverm + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/coverm-0.6.1-jvoey4dahomnmc2xehue7q3pacyyelga/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/coverm-0.6.1-jvoey4dahomnmc2xehue7q3pacyyelga/." +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/minimap2-2.26-lawoexuya6js6oiydsboikjjx66baaku/lib/python3.10/site-packages" +setenv COVERM_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/coverm-0.6.1-jvoey4dahomnmc2xehue7q3pacyyelga" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/cplex/12.8.0 b/modulefiles/hpccf/peloton/tcl/cplex/12.8.0 new file mode 100644 index 00000000..d85cbb5f --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/cplex/12.8.0 @@ -0,0 +1,36 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:15.900930 +## +## cplex@12.8.0%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/ym2ah5f +## + + +module-whatis "The IBM ILOG CPLEX Optimization Studio consists of the CPLEX Optimizer for mathematical programming, the IBM ILOG CPLEX CP Optimizer for constraint programming, the Optimization Programming Language (OPL), and an integrated IDE." + +proc ModulesHelp { } { + puts stderr "Name : cplex" + puts stderr "Version: 12.8.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "The IBM ILOG CPLEX Optimization Studio consists of the CPLEX Optimizer" + puts stderr "for mathematical programming, the IBM ILOG CPLEX CP Optimizer for" + puts stderr "constraint programming, the Optimization Programming Language (OPL), and" + puts stderr "an integrated IDE." +} + +conflict cplex + +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cplex-12.8.0-ym2ah5ffhia4vdxwcxiybwakldut7l7l/." +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cplex-12.8.0-ym2ah5ffhia4vdxwcxiybwakldut7l7l/cplex/bin/x86-64_linux" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cplex-12.8.0-ym2ah5ffhia4vdxwcxiybwakldut7l7l/cplex/bin/x86-64_linux" +prepend-path --delim ":" MATLABPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cplex-12.8.0-ym2ah5ffhia4vdxwcxiybwakldut7l7l/cplex/matlab/x86-64_linux" +prepend-path --delim ":" MATLABPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cplex-12.8.0-ym2ah5ffhia4vdxwcxiybwakldut7l7l/cplex/examples/src/matlab" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cplex-12.8.0-ym2ah5ffhia4vdxwcxiybwakldut7l7l/cpoptimizer/bin/x86-64_linux" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cplex-12.8.0-ym2ah5ffhia4vdxwcxiybwakldut7l7l/opl/oplide" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cplex-12.8.0-ym2ah5ffhia4vdxwcxiybwakldut7l7l/opl/bin/x86-64_linux" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cplex-12.8.0-ym2ah5ffhia4vdxwcxiybwakldut7l7l/opl/bin/x86-64_linux" +setenv CPLEX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cplex-12.8.0-ym2ah5ffhia4vdxwcxiybwakldut7l7l" +setenv CPLEX_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cplex-12.8.0-ym2ah5ffhia4vdxwcxiybwakldut7l7l" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/cuda/11.7.1 b/modulefiles/hpccf/peloton/tcl/cuda/11.7.1 new file mode 100644 index 00000000..24d8dd71 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/cuda/11.7.1 @@ -0,0 +1,36 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:15.931198 +## +## cuda@11.7.1%gcc@11.3.0~allow-unsupported-compilers~dev build_system=generic arch=linux-ubuntu22.04-x86_64_v2/s46rpcx +## + + +module-whatis "CUDA is a parallel computing platform and programming model invented by NVIDIA. It enables dramatic increases in computing performance by harnessing the power of the graphics processing unit (GPU)." + +proc ModulesHelp { } { + puts stderr "Name : cuda" + puts stderr "Version: 11.7.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "CUDA is a parallel computing platform and programming model invented by" + puts stderr "NVIDIA. It enables dramatic increases in computing performance by" + puts stderr "harnessing the power of the graphics processing unit (GPU). Note: This" + puts stderr "package does not currently install the drivers necessary to run CUDA." + puts stderr "These will need to be installed manually. See:" + puts stderr "https://docs.nvidia.com/cuda/ for details." +} + +conflict cuda + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cuda-11.7.1-s46rpcxp7fzoh5t4gcryha3tvhojkeca/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cuda-11.7.1-s46rpcxp7fzoh5t4gcryha3tvhojkeca/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cuda-11.7.1-s46rpcxp7fzoh5t4gcryha3tvhojkeca/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cuda-11.7.1-s46rpcxp7fzoh5t4gcryha3tvhojkeca/lib64" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cuda-11.7.1-s46rpcxp7fzoh5t4gcryha3tvhojkeca/lib64" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cuda-11.7.1-s46rpcxp7fzoh5t4gcryha3tvhojkeca/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cuda-11.7.1-s46rpcxp7fzoh5t4gcryha3tvhojkeca/." +setenv CUDA_HOME "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cuda-11.7.1-s46rpcxp7fzoh5t4gcryha3tvhojkeca" +setenv CUDA_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cuda-11.7.1-s46rpcxp7fzoh5t4gcryha3tvhojkeca" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/cufflinks/2.2.1 b/modulefiles/hpccf/peloton/tcl/cufflinks/2.2.1 new file mode 100644 index 00000000..625afc13 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/cufflinks/2.2.1 @@ -0,0 +1,26 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:15.999480 +## +## cufflinks@2.2.1%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/zxox7y4 +## + + +module-whatis "Cufflinks assembles transcripts, estimates their abundances, and tests for differential expression and regulation in RNA-Seq samples." + +proc ModulesHelp { } { + puts stderr "Name : cufflinks" + puts stderr "Version: 2.2.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Cufflinks assembles transcripts, estimates their abundances, and tests" + puts stderr "for differential expression and regulation in RNA-Seq samples." +} + +conflict cufflinks + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cufflinks-2.2.1-zxox7y4g2anygml5oqfrawuze352vj7f/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cufflinks-2.2.1-zxox7y4g2anygml5oqfrawuze352vj7f/." +setenv CUFFLINKS_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cufflinks-2.2.1-zxox7y4g2anygml5oqfrawuze352vj7f" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/dashing/0.4.0 b/modulefiles/hpccf/peloton/tcl/dashing/0.4.0 new file mode 100644 index 00000000..37f2acd2 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/dashing/0.4.0 @@ -0,0 +1,25 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-21 09:48:44.638337 +## +## dashing@0.4.0%gcc@7.5.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v2/vn7kdhp +## + + +module-whatis "dashing sketches and computes distances between fasta and fastq data." + +proc ModulesHelp { } { + puts stderr "Name : dashing" + puts stderr "Version: 0.4.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "dashing sketches and computes distances between fasta and fastq data." +} + +conflict dashing + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-7.5.0/dashing-0.4.0-vn7kdhpxyyb3ampsagqgfopht7g7egiw/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-7.5.0/dashing-0.4.0-vn7kdhpxyyb3ampsagqgfopht7g7egiw/." +setenv DASHING_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-7.5.0/dashing-0.4.0-vn7kdhpxyyb3ampsagqgfopht7g7egiw" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/dashing/1.0.3 b/modulefiles/hpccf/peloton/tcl/dashing/1.0.3 new file mode 100644 index 00000000..5c0093cd --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/dashing/1.0.3 @@ -0,0 +1,25 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-20 15:11:22.982415 +## +## dashing@1.0.3%gcc@11.3.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v2/7psuijo +## + + +module-whatis "dashing sketches and computes distances between fasta and fastq data." + +proc ModulesHelp { } { + puts stderr "Name : dashing" + puts stderr "Version: 1.0.3" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "dashing sketches and computes distances between fasta and fastq data." +} + +conflict dashing + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/dashing-1.0.3-7psuijokf5smmta3d6zbyrrjv4d42pq4/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/dashing-1.0.3-7psuijokf5smmta3d6zbyrrjv4d42pq4/." +setenv DASHING_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/dashing-1.0.3-7psuijokf5smmta3d6zbyrrjv4d42pq4" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/dealii/9.4.2 b/modulefiles/hpccf/peloton/tcl/dealii/9.4.2 new file mode 100644 index 00000000..d7fba659 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/dealii/9.4.2 @@ -0,0 +1,45 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:16.166806 +## +## dealii@9.4.2%gcc@11.3.0+adol-c+arborx+arpack+assimp+cgal~cuda~doc+examples+ginkgo+gmsh+gsl+hdf5~int64~ipo+metis+mpi+muparser~nanoflann~netcdf+oce~optflags+p4est+petsc~python+scalapack+simplex+slepc+sundials+symengine+threads+trilinos build_system=cmake build_type=DebugRelease cxxstd=17 generator=ninja patches=7869dfa,8a1f7b9,c9884eb arch=linux-ubuntu22.04-x86_64_v2/amd4qgi +## +## Configure options: -DDEAL_II_EXAMPLES_RELDIR:STRING=share/deal.II/examples -DDEAL_II_DOCREADME_RELDIR:STRING=share/deal.II/ -DDEAL_II_DOCHTML_RELDIR:STRING=share/deal.II/doc -DBOOST_DIR:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/boost-1.79.0-jpmedgdd7f6xvtmecliqlkdyzc5mty7m -DLAPACK_FOUND:BOOL=ON -DLAPACK_INCLUDE_DIRS:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openblas-0.3.23-vfu3m2svnjvpeoxiskmm43gm7dm7sf6b/include -DLAPACK_LIBRARIES:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openblas-0.3.23-vfu3m2svnjvpeoxiskmm43gm7dm7sf6b/lib/libopenblas.so -DUMFPACK_DIR:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/suite-sparse-5.13.0-qxdugb2a4yvgfd2sghpdlzrfawy5uhd6 -DZLIB_DIR:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/zlib-1.2.13-77qi6rvrwc4iwqziogd6vdxucahcm5qe -DDEAL_II_ALLOW_BUNDLED:BOOL=OFF -DDEAL_II_COMPONENT_DOCUMENTATION:BOOL=OFF -DDEAL_II_COMPONENT_EXAMPLES:BOOL=ON -DDEAL_II_WITH_64BIT_INDICES:BOOL=OFF -DDEAL_II_WITH_CUDA:BOOL=OFF -DDEAL_II_WITH_MPI:BOOL=ON -DCMAKE_C_COMPILER:STRING=/share/apps/22.04/manual/openmpi/4.1.5-mpi-io/bin/mpicc -DCMAKE_CXX_COMPILER:STRING=/share/apps/22.04/manual/openmpi/4.1.5-mpi-io/bin/mpic++ -DCMAKE_Fortran_COMPILER:STRING=/share/apps/22.04/manual/openmpi/4.1.5-mpi-io/bin/mpif90 -DMPI_C_COMPILER:STRING=/share/apps/22.04/manual/openmpi/4.1.5-mpi-io/bin/mpicc -DMPI_CXX_COMPILER:STRING=/share/apps/22.04/manual/openmpi/4.1.5-mpi-io/bin/mpic++ -DMPI_Fortran_COMPILER:STRING=/share/apps/22.04/manual/openmpi/4.1.5-mpi-io/bin/mpif90 -DMPI_CXX_LINK_FLAGS:STRING=-lopen-pal -DDEAL_II_COMPONENT_PYTHON_BINDINGS:BOOL=OFF -DDEAL_II_WITH_TBB:BOOL=ON -DTBB_DIR:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-tbb-2021.9.0-pdkleenlgn32v245lvlrvgfczcykun64 -DDEAL_II_WITH_GSL:BOOL=ON -DGSL_DIR:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gsl-2.7.1-7z5dz5cle3byaeyf4uvq6x3biakagq2b -DDEAL_II_WITH_HDF5:BOOL=ON -DHDF5_DIR:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/hdf5-1.10.7-rcmxzu36dojkio7zk2doidcj5hetu6sf -DDEAL_II_WITH_P4EST:BOOL=ON -DP4EST_DIR:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/p4est-2.8-oieqf5hobgmhlujkpctucx7uyxunei2b -DDEAL_II_WITH_PETSC:BOOL=ON -DPETSC_DIR:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/petsc-3.19.1-jpnccs35fgssak5buk3ibcbpygnx7fjg -DDEAL_II_WITH_SLEPC:BOOL=ON -DSLEPC_DIR:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/slepc-3.19.0-oegsqdhxpoppquobdfl62uzfqeyrsakh -DDEAL_II_WITH_TRILINOS:BOOL=ON -DTRILINOS_DIR:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/trilinos-13.0.1-swnurw2n7sycaoxx5oejym2gh6oicdy6 -DDEAL_II_WITH_METIS:BOOL=ON -DMETIS_DIR:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/metis-5.1.0-koewlvcthuotliz2aetim6uorzsbewj5 -DDEAL_II_WITH_SUNDIALS:BOOL=ON -DSUNDIALS_DIR:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/sundials-6.5.0-gfzegpfyp3kfhaxg2e5egmqg32ri3fro -DDEAL_II_WITH_NANOFLANN:BOOL=OFF -DDEAL_II_WITH_ASSIMP:BOOL=ON -DASSIMP_DIR:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/assimp-5.2.5-bnvpoz6uv6shcsg2rtendx43yjunxwaq -DDEAL_II_WITH_GMSH:BOOL=ON -DGMSH_DIR:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gmsh-4.8.4-qa3r5p5kgajxqidanwnistng32p4cgjx -DDEAL_II_WITH_MUPARSER:BOOL=ON -DMUPARSER_DIR:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/muparser-2.3.4-3a5qmm6gnclpwmcn7wczvsdz2mmpk6si -DDEAL_II_WITH_SYMENGINE:BOOL=ON -DSYMENGINE_DIR:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/symengine-0.9.0-pbulj45mxji66d2yro24etdllr5g4ycz -DDEAL_II_WITH_GINKGO:BOOL=ON -DGINKGO_DIR:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ginkgo-1.5.0-uldwbfpde4yuoendw7snpemicjomlqij -DDEAL_II_WITH_ARBORX:BOOL=ON -DARBORX_DIR:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/arborx-1.1-t7lje6prv3ac3dcyiacssoj2bhwrvs27 -DDEAL_II_WITH_CGAL:BOOL=ON -DCGAL_DIR:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/cgal-5.4.1-ka7yybpddbd23phhp2jamssb23vmho55 -DDEAL_II_WITH_ADOLC:BOOL=ON -DADOLC_DIR:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/adol-c-2.7.2-4p2bdsxzuoqwwaxyaxdpout74birj76v -DDEAL_II_WITH_ARPACK:BOOL=ON -DARPACK_DIR:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/arpack-ng-3.9.0-w7qztl5n3wmkrnmfpzviku32v6rhhmkx -DDEAL_II_ARPACK_WITH_PARPACK:BOOL=ON -DDEAL_II_WITH_NETCDF:BOOL=OFF -DDEAL_II_WITH_SCALAPACK:BOOL=ON -DSCALAPACK_FOUND:BOOL=ON -DSCALAPACK_INCLUDE_DIRS:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netlib-scalapack-2.2.0-dta5rzscj2dil424rxvzfonpjxpxofwd/include -DSCALAPACK_LIBRARIES:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netlib-scalapack-2.2.0-dta5rzscj2dil424rxvzfonpjxpxofwd/lib/libscalapack.so -DSCALAPACK_LIBRARY:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netlib-scalapack-2.2.0-dta5rzscj2dil424rxvzfonpjxpxofwd/lib/libscalapack.so -DDEAL_II_WITH_OPENCASCADE:BOOL=ON -DOPENCASCADE_DIR:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/oce-0.18.3-7ynkhsq7ksr7lvtox7sghidrys5mehd2 -DCMAKE_CXX_FLAGS:STRING=-std=c++17 -DDEAL_II_CXX_FLAGS:STRING=-march=x86-64-v2 -mtune=generic +## + + +module-whatis "C++ software library providing well-documented tools to build finite element codes for a broad variety of PDEs." + +proc ModulesHelp { } { + puts stderr "Name : dealii" + puts stderr "Version: 9.4.2" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "C++ software library providing well-documented tools to build finite" + puts stderr "element codes for a broad variety of PDEs." +} + +module load gsl/2.7.1 +module load intel-oneapi-tbb/2021.9.0 +module load openmpi/4.1.5-mpi-io +module load trilinos/13.0.1 +module load zlib/1.2.13 +prereq gsl/2.7.1 +prereq intel-oneapi-tbb/2021.9.0 +prereq openmpi/4.1.5-mpi-io +prereq trilinos/13.0.1 +prereq zlib/1.2.13 +conflict dealii + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/dealii-9.4.2-amd4qgiiy45iq65nw4ue6nucntm5zys6/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/dealii-9.4.2-amd4qgiiy45iq65nw4ue6nucntm5zys6/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/dealii-9.4.2-amd4qgiiy45iq65nw4ue6nucntm5zys6/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/dealii-9.4.2-amd4qgiiy45iq65nw4ue6nucntm5zys6/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/dealii-9.4.2-amd4qgiiy45iq65nw4ue6nucntm5zys6/lib" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/dealii-9.4.2-amd4qgiiy45iq65nw4ue6nucntm5zys6/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/dealii-9.4.2-amd4qgiiy45iq65nw4ue6nucntm5zys6/." +prepend-path --delim ":" XLOCALEDIR "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libx11-1.8.4-elhqje4pmr6c4jp256hrfear2cp45szn/share/X11/locale" +setenv DEAL_II_DIR "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/dealii-9.4.2-amd4qgiiy45iq65nw4ue6nucntm5zys6" +setenv DEALII_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/dealii-9.4.2-amd4qgiiy45iq65nw4ue6nucntm5zys6" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/diamond/2.0.15 b/modulefiles/hpccf/peloton/tcl/diamond/2.0.15 new file mode 100644 index 00000000..b049ec61 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/diamond/2.0.15 @@ -0,0 +1,26 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:17.086840 +## +## diamond@2.0.15%gcc@11.3.0~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v2/224xiau +## + + +module-whatis "DIAMOND is a sequence aligner for protein and translated DNA searches, designed for high performance analysis of big sequence data." + +proc ModulesHelp { } { + puts stderr "Name : diamond" + puts stderr "Version: 2.0.15" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "DIAMOND is a sequence aligner for protein and translated DNA searches," + puts stderr "designed for high performance analysis of big sequence data." +} + +conflict diamond + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/diamond-2.0.15-224xiauptjlhtadfabodcy3dnyyfyiia/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/diamond-2.0.15-224xiauptjlhtadfabodcy3dnyyfyiia/." +setenv DIAMOND_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/diamond-2.0.15-224xiauptjlhtadfabodcy3dnyyfyiia" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/doxygen/1.9.6 b/modulefiles/hpccf/peloton/tcl/doxygen/1.9.6 new file mode 100644 index 00000000..4fe90213 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/doxygen/1.9.6 @@ -0,0 +1,31 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:17.143600 +## +## doxygen@1.9.6%gcc@11.3.0~graphviz~ipo~mscgen build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v2/6pmayng +## +## Configure options: -DPYTHON_EXECUTABLE:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/python-3.10.10-v5jpflnztkbw3n2odw6nx4ty6hzajvem/bin/python3.10 +## + + +module-whatis "Doxygen is the de facto standard tool for generating documentation from annotated C++ sources, but it also supports other popular programming languages such as C, Objective-C, C#, PHP, Java, Python, IDL (Corba, Microsoft, and UNO/OpenOffice flavors), Fortran, VHDL, Tcl, and to some extent D.." + +proc ModulesHelp { } { + puts stderr "Name : doxygen" + puts stderr "Version: 1.9.6" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Doxygen is the de facto standard tool for generating documentation from" + puts stderr "annotated C++ sources, but it also supports other popular programming" + puts stderr "languages such as C, Objective-C, C#, PHP, Java, Python, IDL (Corba," + puts stderr "Microsoft, and UNO/OpenOffice flavors), Fortran, VHDL, Tcl, and to some" + puts stderr "extent D.." +} + +conflict doxygen + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/doxygen-1.9.6-6pmayng6wlois3fojo45rdupqdnycabl/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/doxygen-1.9.6-6pmayng6wlois3fojo45rdupqdnycabl/." +setenv DOXYGEN_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/doxygen-1.9.6-6pmayng6wlois3fojo45rdupqdnycabl" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/dssp/3.1.4 b/modulefiles/hpccf/peloton/tcl/dssp/3.1.4 new file mode 100644 index 00000000..96871e53 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/dssp/3.1.4 @@ -0,0 +1,27 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:17.261240 +## +## dssp@3.1.4%gcc@11.3.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/grw3g3x +## +## Configure options: --with-boost=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/boost-1.82.0-qwtzu7tpga4mlh2i3v2u3mm722bkgyeb +## + + +module-whatis "'mkdssp' utility. (dictionary of protein secondary structure)" + +proc ModulesHelp { } { + puts stderr "Name : dssp" + puts stderr "Version: 3.1.4" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "'mkdssp' utility. (dictionary of protein secondary structure)" +} + +conflict dssp + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/dssp-3.1.4-grw3g3x2sro4brai6ifp27sczahsuyz5/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/dssp-3.1.4-grw3g3x2sro4brai6ifp27sczahsuyz5/." +setenv DSSP_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/dssp-3.1.4-grw3g3x2sro4brai6ifp27sczahsuyz5" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/ea-utils/2021-10-20 b/modulefiles/hpccf/peloton/tcl/ea-utils/2021-10-20 new file mode 100644 index 00000000..b2f1c63d --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/ea-utils/2021-10-20 @@ -0,0 +1,27 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:17.319216 +## +## ea-utils@2021-10-20%gcc@11.3.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v2/6njqvjr +## + + +module-whatis "Command-line tools for processing biological sequencing data. Barcode demultiplexing, adapter trimming, etc. Primarily written to support an Illumina based pipeline - but should work with any FASTQs." + +proc ModulesHelp { } { + puts stderr "Name : ea-utils" + puts stderr "Version: 2021-10-20" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Command-line tools for processing biological sequencing data. Barcode" + puts stderr "demultiplexing, adapter trimming, etc. Primarily written to support an" + puts stderr "Illumina based pipeline - but should work with any FASTQs." +} + +conflict ea-utils + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ea-utils-2021-10-20-6njqvjr66ozjwvplwuljsdjjsu4l7tcp/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ea-utils-2021-10-20-6njqvjr66ozjwvplwuljsdjjsu4l7tcp/." +setenv EA_UTILS_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ea-utils-2021-10-20-6njqvjr66ozjwvplwuljsdjjsu4l7tcp" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/eigen/3.4.0 b/modulefiles/hpccf/peloton/tcl/eigen/3.4.0 new file mode 100644 index 00000000..8723f30c --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/eigen/3.4.0 @@ -0,0 +1,32 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:17.386837 +## +## eigen@3.4.0%gcc@11.3.0~ipo build_system=cmake build_type=RelWithDebInfo generator=make arch=linux-ubuntu22.04-x86_64_v2/eseowcc +## +## Configure options: -DBUILD_TESTING:STRING=ON +## + + +module-whatis "Eigen is a C++ template library for linear algebra matrices, vectors, numerical solvers, and related algorithms. " + +proc ModulesHelp { } { + puts stderr "Name : eigen" + puts stderr "Version: 3.4.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Eigen is a C++ template library for linear algebra matrices, vectors," + puts stderr "numerical solvers, and related algorithms." +} + +conflict eigen + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/eigen-3.4.0-eseowccb56lxvmxlcktlgtlewxlqpvds/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/eigen-3.4.0-eseowccb56lxvmxlcktlgtlewxlqpvds/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/eigen-3.4.0-eseowccb56lxvmxlcktlgtlewxlqpvds/include" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/eigen-3.4.0-eseowccb56lxvmxlcktlgtlewxlqpvds/share/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/eigen-3.4.0-eseowccb56lxvmxlcktlgtlewxlqpvds/." +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/eigen-3.4.0-eseowccb56lxvmxlcktlgtlewxlqpvds/include/eigen3" +setenv EIGEN_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/eigen-3.4.0-eseowccb56lxvmxlcktlgtlewxlqpvds" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/elk/8.3.22 b/modulefiles/hpccf/peloton/tcl/elk/8.3.22 new file mode 100644 index 00000000..5b887dfe --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/elk/8.3.22 @@ -0,0 +1,26 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:17.430559 +## +## elk@8.3.22%gcc@11.3.0+libxc+mpi+openmp~w90 build_system=makefile fft=internal linalg=internal arch=linux-ubuntu22.04-x86_64_v2/wscyhhw +## + + +module-whatis "An all-electron full-potential linearised augmented-plane wave (FP-LAPW) code with many advanced features." + +proc ModulesHelp { } { + puts stderr "Name : elk" + puts stderr "Version: 8.3.22" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "An all-electron full-potential linearised augmented-plane wave (FP-LAPW)" + puts stderr "code with many advanced features." +} + +conflict elk + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/elk-8.3.22-wscyhhwt5g5air6vbp7xqhzremg42oyj/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/elk-8.3.22-wscyhhwt5g5air6vbp7xqhzremg42oyj/." +setenv ELK_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/elk-8.3.22-wscyhhwt5g5air6vbp7xqhzremg42oyj" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/emboss/6.6.0 b/modulefiles/hpccf/peloton/tcl/emboss/6.6.0 new file mode 100644 index 00000000..556c5e04 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/emboss/6.6.0 @@ -0,0 +1,33 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:17.503275 +## +## emboss@6.6.0%gcc@11.3.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/jzvf7ex +## + + +module-whatis "EMBOSS is a free Open Source software analysis package specially developed for the needs of the molecular biology (e.g. EMBnet) user community" + +proc ModulesHelp { } { + puts stderr "Name : emboss" + puts stderr "Version: 6.6.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "EMBOSS is a free Open Source software analysis package specially" + puts stderr "developed for the needs of the molecular biology (e.g. EMBnet) user" + puts stderr "community" +} + +conflict emboss + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/emboss-6.6.0-jzvf7exteh54kwss64sehw73hmqd3jg5/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/emboss-6.6.0-jzvf7exteh54kwss64sehw73hmqd3jg5/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/emboss-6.6.0-jzvf7exteh54kwss64sehw73hmqd3jg5/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/emboss-6.6.0-jzvf7exteh54kwss64sehw73hmqd3jg5/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/emboss-6.6.0-jzvf7exteh54kwss64sehw73hmqd3jg5/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/emboss-6.6.0-jzvf7exteh54kwss64sehw73hmqd3jg5/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/emboss-6.6.0-jzvf7exteh54kwss64sehw73hmqd3jg5/." +prepend-path --delim ":" XLOCALEDIR "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libx11-1.8.4-elhqje4pmr6c4jp256hrfear2cp45szn/share/X11/locale" +setenv EMBOSS_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/emboss-6.6.0-jzvf7exteh54kwss64sehw73hmqd3jg5" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/environment-modules/5.2.0 b/modulefiles/hpccf/peloton/tcl/environment-modules/5.2.0 new file mode 100644 index 00000000..af27992e --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/environment-modules/5.2.0 @@ -0,0 +1,29 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:17.609931 +## +## environment-modules@5.2.0%gcc@11.3.0+X build_system=generic arch=linux-ubuntu22.04-x86_64_v2/hb3dqsp +## + + +module-whatis "The Environment Modules package provides for the dynamic modification of a user's environment via module files. " + +proc ModulesHelp { } { + puts stderr "Name : environment-modules" + puts stderr "Version: 5.2.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "The Environment Modules package provides for the dynamic modification of" + puts stderr "a user's environment via module files." +} + +conflict environment-modules + +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/environment-modules-5.2.0-hb3dqsp3sqhi52lcweanluahgkwf7iu7/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/environment-modules-5.2.0-hb3dqsp3sqhi52lcweanluahgkwf7iu7/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/environment-modules-5.2.0-hb3dqsp3sqhi52lcweanluahgkwf7iu7/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/environment-modules-5.2.0-hb3dqsp3sqhi52lcweanluahgkwf7iu7/share/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/environment-modules-5.2.0-hb3dqsp3sqhi52lcweanluahgkwf7iu7/." +setenv ENVIRONMENT_MODULES_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/environment-modules-5.2.0-hb3dqsp3sqhi52lcweanluahgkwf7iu7" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/exonerate-gff3/2.3.0 b/modulefiles/hpccf/peloton/tcl/exonerate-gff3/2.3.0 new file mode 100644 index 00000000..fe3e92bb --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/exonerate-gff3/2.3.0 @@ -0,0 +1,27 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:17.792687 +## +## exonerate-gff3@2.3.0%gcc@11.3.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/oahlh4a +## + + +module-whatis "This is an exonerate fork with added gff3 support. Original website with user guides: http://www.ebi.ac.uk/~guy/exonerate/" + +proc ModulesHelp { } { + puts stderr "Name : exonerate-gff3" + puts stderr "Version: 2.3.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "This is an exonerate fork with added gff3 support. Original website with" + puts stderr "user guides: http://www.ebi.ac.uk/~guy/exonerate/" +} + +conflict exonerate-gff3 + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/exonerate-gff3-2.3.0-oahlh4azjwqonrbqz5pxtdrz3dj4gvy2/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/exonerate-gff3-2.3.0-oahlh4azjwqonrbqz5pxtdrz3dj4gvy2/share/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/exonerate-gff3-2.3.0-oahlh4azjwqonrbqz5pxtdrz3dj4gvy2/." +setenv EXONERATE_GFF3_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/exonerate-gff3-2.3.0-oahlh4azjwqonrbqz5pxtdrz3dj4gvy2" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/exonerate/2.4.0 b/modulefiles/hpccf/peloton/tcl/exonerate/2.4.0 new file mode 100644 index 00000000..4ce90e98 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/exonerate/2.4.0 @@ -0,0 +1,28 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:17.642451 +## +## exonerate@2.4.0%gcc@11.3.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/lgy5uw4 +## +## Configure options: --disable-debug --disable-dependency-tracking +## + + +module-whatis "Pairwise sequence alignment of DNA and proteins" + +proc ModulesHelp { } { + puts stderr "Name : exonerate" + puts stderr "Version: 2.4.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Pairwise sequence alignment of DNA and proteins" +} + +conflict exonerate + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/exonerate-2.4.0-lgy5uw4mblomjvbxtzohkb4gqaatmpix/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/exonerate-2.4.0-lgy5uw4mblomjvbxtzohkb4gqaatmpix/share/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/exonerate-2.4.0-lgy5uw4mblomjvbxtzohkb4gqaatmpix/." +setenv EXONERATE_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/exonerate-2.4.0-lgy5uw4mblomjvbxtzohkb4gqaatmpix" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/fastani/1.33 b/modulefiles/hpccf/peloton/tcl/fastani/1.33 new file mode 100644 index 00000000..392d82ec --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/fastani/1.33 @@ -0,0 +1,26 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-21 11:52:58.660634 +## +## fastani@1.33%gcc@11.3.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/tlg52jp +## + + +module-whatis "Fast, alignment-free computation of whole-genome Average Nucleotide Identity (ANI)" + +proc ModulesHelp { } { + puts stderr "Name : fastani" + puts stderr "Version: 1.33" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Fast, alignment-free computation of whole-genome Average Nucleotide" + puts stderr "Identity (ANI)" +} + +conflict fastani + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/fastani-1.33-tlg52jp4uu4tz42vn6becz4qvp7caqir/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/fastani-1.33-tlg52jp4uu4tz42vn6becz4qvp7caqir/." +setenv FASTANI_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/fastani-1.33-tlg52jp4uu4tz42vn6becz4qvp7caqir" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/fastme/2.1.5.1 b/modulefiles/hpccf/peloton/tcl/fastme/2.1.5.1 new file mode 100644 index 00000000..1ae7b732 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/fastme/2.1.5.1 @@ -0,0 +1,26 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:17.846125 +## +## fastme@2.1.5.1%gcc@11.3.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/gssbdpi +## + + +module-whatis "FastME is a distance based phylogeny reconstruction program that works on distance matrices and, as of v2.0, sequence data." + +proc ModulesHelp { } { + puts stderr "Name : fastme" + puts stderr "Version: 2.1.5.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "FastME is a distance based phylogeny reconstruction program that works" + puts stderr "on distance matrices and, as of v2.0, sequence data." +} + +conflict fastme + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/fastme-2.1.5.1-gssbdpib6hdro7h5nok35caedizwdoay/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/fastme-2.1.5.1-gssbdpib6hdro7h5nok35caedizwdoay/." +setenv FASTME_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/fastme-2.1.5.1-gssbdpib6hdro7h5nok35caedizwdoay" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/fastq-screen/0.11.2 b/modulefiles/hpccf/peloton/tcl/fastq-screen/0.11.2 new file mode 100644 index 00000000..83aeb9db --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/fastq-screen/0.11.2 @@ -0,0 +1,37 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:17.911598 +## +## fastq-screen@0.11.2%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/wixgttv +## + + +module-whatis "FastQ Screen allows you to screen a library of sequences in FastQ format against a set of sequence databases so you can see if the composition of the library matches with what you expect." + +proc ModulesHelp { } { + puts stderr "Name : fastq-screen" + puts stderr "Version: 0.11.2" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "FastQ Screen allows you to screen a library of sequences in FastQ format" + puts stderr "against a set of sequence databases so you can see if the composition of" + puts stderr "the library matches with what you expect." +} + +module load bowtie/1.3.1 +module load bowtie2/2.4.2 +module load bwa/0.7.17 +module load samtools/1.16.1 +prereq bowtie/1.3.1 +prereq bowtie2/2.4.2 +prereq bwa/0.7.17 +prereq samtools/1.16.1 +conflict fastq-screen + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/fastq-screen-0.11.2-wixgttvv3jd6grtu2nkh3a32xywkweqn/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/fastq-screen-0.11.2-wixgttvv3jd6grtu2nkh3a32xywkweqn/." +prepend-path --delim ":" PERL5LIB "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-gdgraph-1.4308-q6bw4orefmv62h3usvimk4zcerrot7la/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-capture-tiny-0.48-il3jaqf2upunnzkzlotqopvqx2s3iz3i/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-gd-2.53-et6oidgcguwzv5o5wcqz2m2zk5jsnzpy/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-extutils-makemaker-7.70-rs3m2xdtlyecj4hfzi6zz6szqrbvq7v5/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-extutils-pkgconfig-1.16-yivzadgu3f6nnoom3z5pudvxe4euml5h/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-gdtextutil-0.86-xl4y3t777ni3p3fi7ivxkv54w3g5qxqn/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-test-exception-0.43-4nwuxhcxzhhn2yk3aj3ynjswvpyvhjy7/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-sub-uplevel-0.2800-jss357ct2ifo6fobdh4ec3su33mixbh7/lib/perl5" +prepend-path --delim ":" XLOCALEDIR "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libx11-1.8.4-rx4ruu6iblxc6tsoulpncimn5jrtpnly/share/X11/locale" +setenv FASTQ_SCREEN_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/fastq-screen-0.11.2-wixgttvv3jd6grtu2nkh3a32xywkweqn" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/fastqc/0.11.9 b/modulefiles/hpccf/peloton/tcl/fastqc/0.11.9 new file mode 100644 index 00000000..23b84b78 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/fastqc/0.11.9 @@ -0,0 +1,27 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:18.102464 +## +## fastqc@0.11.9%gcc@11.3.0 build_system=generic patches=b237b24 arch=linux-ubuntu22.04-x86_64_v2/s7st2ja +## + + +module-whatis "A quality control tool for high throughput sequence data." + +proc ModulesHelp { } { + puts stderr "Name : fastqc" + puts stderr "Version: 0.11.9" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "A quality control tool for high throughput sequence data." +} + +conflict fastqc + +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/fastqc-0.11.9-s7st2ja4hrjlysdyzxdswkfnjy7a6ix4/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/fastqc-0.11.9-s7st2ja4hrjlysdyzxdswkfnjy7a6ix4/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/fastqc-0.11.9-s7st2ja4hrjlysdyzxdswkfnjy7a6ix4/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/fastqc-0.11.9-s7st2ja4hrjlysdyzxdswkfnjy7a6ix4/." +setenv FASTQC_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/fastqc-0.11.9-s7st2ja4hrjlysdyzxdswkfnjy7a6ix4" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/fasttree/2.1.11 b/modulefiles/hpccf/peloton/tcl/fasttree/2.1.11 new file mode 100644 index 00000000..cad3aeb6 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/fasttree/2.1.11 @@ -0,0 +1,26 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:18.154711 +## +## fasttree@2.1.11%gcc@11.3.0+openmp build_system=generic arch=linux-ubuntu22.04-x86_64_v2/o2djdyx +## + + +module-whatis "FastTree infers approximately-maximum-likelihood phylogenetic trees from alignments of nucleotide or protein sequences. " + +proc ModulesHelp { } { + puts stderr "Name : fasttree" + puts stderr "Version: 2.1.11" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "FastTree infers approximately-maximum-likelihood phylogenetic trees from" + puts stderr "alignments of nucleotide or protein sequences." +} + +conflict fasttree + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/fasttree-2.1.11-o2djdyxw6ejide6h2c72n5y2g2xrdzct/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/fasttree-2.1.11-o2djdyxw6ejide6h2c72n5y2g2xrdzct/." +setenv FASTTREE_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/fasttree-2.1.11-o2djdyxw6ejide6h2c72n5y2g2xrdzct" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/fastx-toolkit/0.0.14 b/modulefiles/hpccf/peloton/tcl/fastx-toolkit/0.0.14 new file mode 100644 index 00000000..8d7e4b81 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/fastx-toolkit/0.0.14 @@ -0,0 +1,27 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:18.207424 +## +## fastx-toolkit@0.0.14%gcc@11.3.0 build_system=autotools patches=915bdfc arch=linux-ubuntu22.04-x86_64_v2/hh2zr2l +## + + +module-whatis "The FASTX-Toolkit is a collection of command line tools for Short-Reads FASTA/FASTQ files preprocessing." + +proc ModulesHelp { } { + puts stderr "Name : fastx-toolkit" + puts stderr "Version: 0.0.14" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "The FASTX-Toolkit is a collection of command line tools for Short-Reads" + puts stderr "FASTA/FASTQ files preprocessing." +} + +conflict fastx-toolkit + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/fastx-toolkit-0.0.14-hh2zr2lub4ocircye24ucofkliphf5fs/bin" +prepend-path --delim ":" ACLOCAL_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/fastx-toolkit-0.0.14-hh2zr2lub4ocircye24ucofkliphf5fs/share/aclocal" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/fastx-toolkit-0.0.14-hh2zr2lub4ocircye24ucofkliphf5fs/." +setenv FASTX_TOOLKIT_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/fastx-toolkit-0.0.14-hh2zr2lub4ocircye24ucofkliphf5fs" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/feh/3.10 b/modulefiles/hpccf/peloton/tcl/feh/3.10 new file mode 100644 index 00000000..7eebbeba --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/feh/3.10 @@ -0,0 +1,30 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-13 15:52:50.801651 +## +## feh@3.10%gcc@11.3.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v2/dumvrja +## + + +module-whatis " feh is an X11 image viewer aimed mostly at console users. Unlike most other viewers, it does not have a fancy GUI, but simply displays images. It is controlled via commandline arguments and configurable key/mouse actions. " + +proc ModulesHelp { } { + puts stderr "Name : feh" + puts stderr "Version: 3.10" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr " feh is an X11 image viewer aimed mostly at console users. Unlike most" + puts stderr "other viewers, it does not have a fancy GUI, but simply displays images." + puts stderr "It is controlled via commandline arguments and configurable key/mouse" + puts stderr "actions." +} + +conflict feh + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/feh-3.10-dumvrjard7pd2y6ng73g2ndpazpukdyz/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/feh-3.10-dumvrjard7pd2y6ng73g2ndpazpukdyz/share/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/feh-3.10-dumvrjard7pd2y6ng73g2ndpazpukdyz/." +prepend-path --delim ":" XLOCALEDIR "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libx11-1.8.4-elhqje4pmr6c4jp256hrfear2cp45szn/share/X11/locale" +setenv FEH_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/feh-3.10-dumvrjard7pd2y6ng73g2ndpazpukdyz" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/fftw/3.3.10 b/modulefiles/hpccf/peloton/tcl/fftw/3.3.10 new file mode 100644 index 00000000..ef7ed5bc --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/fftw/3.3.10 @@ -0,0 +1,37 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:18.259720 +## +## fftw@3.3.10%gcc@11.3.0+mpi+openmp~pfft_patches build_system=autotools precision=double,float arch=linux-ubuntu22.04-x86_64_v2/pr4hd22 +## + + +module-whatis "FFTW is a C subroutine library for computing the discrete Fourier transform (DFT) in one or more dimensions, of arbitrary input size, and of both real and complex data (as well as of even/odd data, i.e. the discrete cosine/sine transforms or DCT/DST). We believe that FFTW, which is free software, should become the FFT library of choice for most applications." + +proc ModulesHelp { } { + puts stderr "Name : fftw" + puts stderr "Version: 3.3.10" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "FFTW is a C subroutine library for computing the discrete Fourier" + puts stderr "transform (DFT) in one or more dimensions, of arbitrary input size, and" + puts stderr "of both real and complex data (as well as of even/odd data, i.e. the" + puts stderr "discrete cosine/sine transforms or DCT/DST). We believe that FFTW, which" + puts stderr "is free software, should become the FFT library of choice for most" + puts stderr "applications." +} + +conflict fftw + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/fftw-3.3.10-pr4hd22yph7x5z3t2lnfc2mngunqs6sz/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/fftw-3.3.10-pr4hd22yph7x5z3t2lnfc2mngunqs6sz/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/fftw-3.3.10-pr4hd22yph7x5z3t2lnfc2mngunqs6sz/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/fftw-3.3.10-pr4hd22yph7x5z3t2lnfc2mngunqs6sz/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/fftw-3.3.10-pr4hd22yph7x5z3t2lnfc2mngunqs6sz/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/fftw-3.3.10-pr4hd22yph7x5z3t2lnfc2mngunqs6sz/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/fftw-3.3.10-pr4hd22yph7x5z3t2lnfc2mngunqs6sz/share/man" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/fftw-3.3.10-pr4hd22yph7x5z3t2lnfc2mngunqs6sz/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/fftw-3.3.10-pr4hd22yph7x5z3t2lnfc2mngunqs6sz/." +setenv FFTW_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/fftw-3.3.10-pr4hd22yph7x5z3t2lnfc2mngunqs6sz" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/freebayes/1.3.6 b/modulefiles/hpccf/peloton/tcl/freebayes/1.3.6 new file mode 100644 index 00000000..129a6777 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/freebayes/1.3.6 @@ -0,0 +1,29 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:18.347400 +## +## freebayes@1.3.6%gcc@11.3.0~strip build_system=meson buildtype=release default_library=shared arch=linux-ubuntu22.04-x86_64_v2/kometob +## + + +module-whatis "Bayesian haplotype-based genetic polymorphism discovery and genotyping." + +proc ModulesHelp { } { + puts stderr "Name : freebayes" + puts stderr "Version: 1.3.6" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Bayesian haplotype-based genetic polymorphism discovery and genotyping." +} + +module load samtools/1.16.1 +module load zlib/1.2.13 +prereq samtools/1.16.1 +prereq zlib/1.2.13 +conflict freebayes + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/freebayes-1.3.6-kometob7oihun5kklh5mv5zmp5rc7aom/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/freebayes-1.3.6-kometob7oihun5kklh5mv5zmp5rc7aom/." +setenv FREEBAYES_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/freebayes-1.3.6-kometob7oihun5kklh5mv5zmp5rc7aom" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/freesurfer/7.2.0 b/modulefiles/hpccf/peloton/tcl/freesurfer/7.2.0 new file mode 100644 index 00000000..ca46e191 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/freesurfer/7.2.0 @@ -0,0 +1,37 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:18.546797 +## +## freesurfer@7.2.0%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/76dllw7 +## + + +module-whatis "Freesurfer is an open source software suite for processing and analyzing (human) brain MRI images." + +proc ModulesHelp { } { + puts stderr "Name : freesurfer" + puts stderr "Version: 7.2.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Freesurfer is an open source software suite for processing and analyzing" + puts stderr "(human) brain MRI images." +} + +conflict freesurfer + +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/freesurfer-7.2.0-76dllw7aadeqarrsv6az6a2ydgjfgwxi/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/freesurfer-7.2.0-76dllw7aadeqarrsv6az6a2ydgjfgwxi/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/freesurfer-7.2.0-76dllw7aadeqarrsv6az6a2ydgjfgwxi/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/freesurfer-7.2.0-76dllw7aadeqarrsv6az6a2ydgjfgwxi/." +prepend-path --delim ":" XLOCALEDIR "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libx11-1.8.4-rx4ruu6iblxc6tsoulpncimn5jrtpnly/share/X11/locale" +prepend-path --delim ":" XDG_DATA_DIRS "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gobject-introspection-1.72.1-ralzj5olxxto55h4sekvksjoadh47hbh/share" +prepend-path --delim ":" GI_TYPELIB_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gobject-introspection-1.72.1-ralzj5olxxto55h4sekvksjoadh47hbh/lib/girepository-1.0" +prepend-path --delim ":" XDG_DATA_DIRS "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/harfbuzz-5.3.1-uke7zhhjhpw5p2xcrtpm5dolwrxzqcwt/share" +prepend-path --delim ":" GI_TYPELIB_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/harfbuzz-5.3.1-uke7zhhjhpw5p2xcrtpm5dolwrxzqcwt/lib/girepository-1.0" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/freesurfer-7.2.0-76dllw7aadeqarrsv6az6a2ydgjfgwxi/bin" +setenv FREESURFER_HOME "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/freesurfer-7.2.0-76dllw7aadeqarrsv6az6a2ydgjfgwxi" +setenv SUBJECTS_DIR "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/freesurfer-7.2.0-76dllw7aadeqarrsv6az6a2ydgjfgwxi/subjects" +setenv FUNCTIONALS_DIR "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/freesurfer-7.2.0-76dllw7aadeqarrsv6az6a2ydgjfgwxi/sessions" +setenv FREESURFER_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/freesurfer-7.2.0-76dllw7aadeqarrsv6az6a2ydgjfgwxi" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/gatk/3.8.1 b/modulefiles/hpccf/peloton/tcl/gatk/3.8.1 new file mode 100644 index 00000000..0a59c0cb --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/gatk/3.8.1 @@ -0,0 +1,27 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:19.380548 +## +## gatk@3.8.1%gcc@11.3.0~r build_system=generic arch=linux-ubuntu22.04-x86_64_v2/wuvsq2g +## + + +module-whatis " Genome Analysis Toolkit Variant Discovery in High-Throughput Sequencing Data " + +proc ModulesHelp { } { + puts stderr "Name : gatk" + puts stderr "Version: 3.8.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr " Genome Analysis Toolkit Variant Discovery in High-Throughput Sequencing" + puts stderr "Data" +} + +conflict gatk + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gatk-3.8.1-wuvsq2g2wt2p7qsswnf2lx23xk5va7os/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gatk-3.8.1-wuvsq2g2wt2p7qsswnf2lx23xk5va7os/." +prepend-path --delim ":" GATK "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gatk-3.8.1-wuvsq2g2wt2p7qsswnf2lx23xk5va7os/bin/GenomeAnalysisTK.jar" +setenv GATK_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gatk-3.8.1-wuvsq2g2wt2p7qsswnf2lx23xk5va7os" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/gatk/4.2.6.1 b/modulefiles/hpccf/peloton/tcl/gatk/4.2.6.1 new file mode 100644 index 00000000..e11157b6 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/gatk/4.2.6.1 @@ -0,0 +1,29 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:19.432865 +## +## gatk@4.2.6.1%gcc@11.3.0~r build_system=generic arch=linux-ubuntu22.04-x86_64_v2/rj7wz7n +## + + +module-whatis " Genome Analysis Toolkit Variant Discovery in High-Throughput Sequencing Data " + +proc ModulesHelp { } { + puts stderr "Name : gatk" + puts stderr "Version: 4.2.6.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr " Genome Analysis Toolkit Variant Discovery in High-Throughput Sequencing" + puts stderr "Data" +} + +module load openjdk/16.0.2 +prereq openjdk/16.0.2 +conflict gatk + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gatk-4.2.6.1-rj7wz7nd34h35qbmzv2rulr44w2h7bzh/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gatk-4.2.6.1-rj7wz7nd34h35qbmzv2rulr44w2h7bzh/." +prepend-path --delim ":" GATK "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gatk-4.2.6.1-rj7wz7nd34h35qbmzv2rulr44w2h7bzh/bin/GenomeAnalysisTK.jar" +setenv GATK_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gatk-4.2.6.1-rj7wz7nd34h35qbmzv2rulr44w2h7bzh" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/gcc/11.3.0 b/modulefiles/hpccf/peloton/tcl/gcc/11.3.0 new file mode 100644 index 00000000..e15ba2f8 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/gcc/11.3.0 @@ -0,0 +1,30 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:19.610263 +## +## gcc@11.3.0%gcc@11.3.0~binutils+bootstrap~graphite~nvptx~piclibs~profiled~strip build_system=autotools build_type=RelWithDebInfo languages=c,c++,fortran patches=cc6112d arch=linux-ubuntu22.04-x86_64_v2/5pwmlvp +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis "The GNU Compiler Collection includes front ends for C, C++, Objective-C, Fortran, Ada, and Go, as well as libraries for these languages." + +proc ModulesHelp { } { + puts stderr "Name : gcc" + puts stderr "Version: 11.3.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "The GNU Compiler Collection includes front ends for C, C++, Objective-C," + puts stderr "Fortran, Ada, and Go, as well as libraries for these languages." +} + +conflict gcc + +prepend-path --delim ":" MANPATH "/usr/share/man" +prepend-path --delim ":" ACLOCAL_PATH "/usr/share/aclocal" +prepend-path --delim ":" PKG_CONFIG_PATH "/usr/lib/pkgconfig" +prepend-path --delim ":" PKG_CONFIG_PATH "/usr/share/pkgconfig" +setenv GCC_ROOT "/usr" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/gcc/7.5.0 b/modulefiles/hpccf/peloton/tcl/gcc/7.5.0 new file mode 100644 index 00000000..faae1403 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/gcc/7.5.0 @@ -0,0 +1,40 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:19.538781 +## +## gcc@7.5.0%gcc@11.3.0~binutils+bootstrap~graphite~nvptx~piclibs~profiled~strip build_system=autotools build_type=RelWithDebInfo languages=c,c++,fortran patches=98a9c96,b620e92,d4919d6,dc1ca24 arch=linux-ubuntu22.04-x86_64_v2/arl2gs2 +## +## Configure options: --with-pkgversion=Spack GCC --with-bugurl=https://github.com/spack/spack/issues --disable-multilib --enable-languages=c,c++,fortran --disable-nls --disable-canonical-system-headers --with-system-zlib --with-zstd-include=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/zstd-1.5.5-qjrrg3esbkloxigc53fdiqvubqq2kk6s/include --with-zstd-lib=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/zstd-1.5.5-qjrrg3esbkloxigc53fdiqvubqq2kk6s/lib --enable-bootstrap --with-mpfr-include=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mpfr-3.1.6-axyvy2a2yzhgg3uxecipyxyy6nvr2zxm/include --with-mpfr-lib=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mpfr-3.1.6-axyvy2a2yzhgg3uxecipyxyy6nvr2zxm/lib --with-gmp-include=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gmp-6.2.1-qyjndnvcjkrswgso5x4ef52hjzxvsmhw/include --with-gmp-lib=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gmp-6.2.1-qyjndnvcjkrswgso5x4ef52hjzxvsmhw/lib --with-mpc-include=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mpc-1.1.0-svg6abzmj47cauqqde4njrqangsn55h4/include --with-mpc-lib=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mpc-1.1.0-svg6abzmj47cauqqde4njrqangsn55h4/lib --without-isl --with-stage1-ldflags=-Wl,-rpath,/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gcc-7.5.0-arl2gs2ker5foure2u76jkouhq4zbgws/lib -Wl,-rpath,/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gcc-7.5.0-arl2gs2ker5foure2u76jkouhq4zbgws/lib64 -Wl,-rpath,/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gmp-6.2.1-qyjndnvcjkrswgso5x4ef52hjzxvsmhw/lib -Wl,-rpath,/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mpc-1.1.0-svg6abzmj47cauqqde4njrqangsn55h4/lib -Wl,-rpath,/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mpfr-3.1.6-axyvy2a2yzhgg3uxecipyxyy6nvr2zxm/lib -Wl,-rpath,/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/zlib-1.2.13-77qi6rvrwc4iwqziogd6vdxucahcm5qe/lib --with-boot-ldflags=-Wl,-rpath,/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gcc-7.5.0-arl2gs2ker5foure2u76jkouhq4zbgws/lib -Wl,-rpath,/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gcc-7.5.0-arl2gs2ker5foure2u76jkouhq4zbgws/lib64 -Wl,-rpath,/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gmp-6.2.1-qyjndnvcjkrswgso5x4ef52hjzxvsmhw/lib -Wl,-rpath,/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mpc-1.1.0-svg6abzmj47cauqqde4njrqangsn55h4/lib -Wl,-rpath,/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mpfr-3.1.6-axyvy2a2yzhgg3uxecipyxyy6nvr2zxm/lib -Wl,-rpath,/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/zlib-1.2.13-77qi6rvrwc4iwqziogd6vdxucahcm5qe/lib -static-libstdc++ -static-libgcc --with-build-config=spack +## + + +module-whatis "The GNU Compiler Collection includes front ends for C, C++, Objective-C, Fortran, Ada, and Go, as well as libraries for these languages." + +proc ModulesHelp { } { + puts stderr "Name : gcc" + puts stderr "Version: 7.5.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "The GNU Compiler Collection includes front ends for C, C++, Objective-C," + puts stderr "Fortran, Ada, and Go, as well as libraries for these languages." +} + +conflict gcc + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gcc-7.5.0-arl2gs2ker5foure2u76jkouhq4zbgws/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gcc-7.5.0-arl2gs2ker5foure2u76jkouhq4zbgws/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gcc-7.5.0-arl2gs2ker5foure2u76jkouhq4zbgws/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gcc-7.5.0-arl2gs2ker5foure2u76jkouhq4zbgws/lib64" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gcc-7.5.0-arl2gs2ker5foure2u76jkouhq4zbgws/lib64" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gcc-7.5.0-arl2gs2ker5foure2u76jkouhq4zbgws/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gcc-7.5.0-arl2gs2ker5foure2u76jkouhq4zbgws/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gcc-7.5.0-arl2gs2ker5foure2u76jkouhq4zbgws/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gcc-7.5.0-arl2gs2ker5foure2u76jkouhq4zbgws/share/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gcc-7.5.0-arl2gs2ker5foure2u76jkouhq4zbgws/." +setenv CC "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gcc-7.5.0-arl2gs2ker5foure2u76jkouhq4zbgws/bin/gcc" +setenv CXX "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gcc-7.5.0-arl2gs2ker5foure2u76jkouhq4zbgws/bin/g++" +setenv FC "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gcc-7.5.0-arl2gs2ker5foure2u76jkouhq4zbgws/bin/gfortran" +setenv F77 "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gcc-7.5.0-arl2gs2ker5foure2u76jkouhq4zbgws/bin/gfortran" +setenv GCC_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gcc-7.5.0-arl2gs2ker5foure2u76jkouhq4zbgws" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/gcc/9.5.0 b/modulefiles/hpccf/peloton/tcl/gcc/9.5.0 new file mode 100644 index 00000000..c52d73a6 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/gcc/9.5.0 @@ -0,0 +1,35 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:19.585561 +## +## gcc@9.5.0%gcc@11.3.0~binutils+bootstrap~graphite~nvptx~piclibs~profiled~strip build_system=autotools build_type=RelWithDebInfo languages=c,c++,fortran patches=0d13622,d4919d6 arch=linux-ubuntu22.04-x86_64_v2/lo5s2bu +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis "The GNU Compiler Collection includes front ends for C, C++, Objective-C, Fortran, Ada, and Go, as well as libraries for these languages." + +proc ModulesHelp { } { + puts stderr "Name : gcc" + puts stderr "Version: 9.5.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "The GNU Compiler Collection includes front ends for C, C++, Objective-C," + puts stderr "Fortran, Ada, and Go, as well as libraries for these languages." +} + +conflict gcc + +prepend-path --delim ":" MANPATH "/usr/share/man" +prepend-path --delim ":" ACLOCAL_PATH "/usr/share/aclocal" +prepend-path --delim ":" PKG_CONFIG_PATH "/usr/lib/pkgconfig" +prepend-path --delim ":" PKG_CONFIG_PATH "/usr/share/pkgconfig" +setenv GCC_ROOT "/usr" + +if [module-info mode load] { +} + +set-alias gcc /usr/bin/gcc-9 +set-alias g++ /usr/bin/g++-9 +set-alias cc /usr/bin/gcc-9 +set-alias c++ /usr/bin/g++-9 diff --git a/modulefiles/hpccf/peloton/tcl/geant4/11.1.1 b/modulefiles/hpccf/peloton/tcl/geant4/11.1.1 new file mode 100644 index 00000000..27c01778 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/geant4/11.1.1 @@ -0,0 +1,47 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:19.652618 +## +## geant4@11.1.1%gcc@11.3.0~ipo~motif~opengl~qt~tbb+threads~vecgeom~vtk~x11 build_system=cmake build_type=Release cxxstd=17 generator=make arch=linux-ubuntu22.04-x86_64_v2/oxvl3k7 +## +## Configure options: -DGEANT4_USE_SYSTEM_CLHEP:BOOL=ON -DGEANT4_USE_SYSTEM_EXPAT:BOOL=ON -DGEANT4_USE_SYSTEM_ZLIB:BOOL=ON -DGEANT4_USE_G3TOG4:BOOL=ON -DGEANT4_USE_GDML:BOOL=ON -DXERCESC_ROOT_DIR:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/xerces-c-3.2.4-ld55z644l2ocg2d6z3maohyqv3dae7f4 -DCMAKE_CXX_STANDARD:STRING=17 -DGEANT4_INSTALL_PACKAGE_CACHE:BOOL=ON -DGEANT4_BUILD_MULTITHREADED:BOOL=ON -DGEANT4_USE_TBB:BOOL=OFF -DGEANT4_BUILD_TLS_MODEL=global-dynamic -DGEANT4_INSTALL_DATA:BOOL=OFF -DGEANT4_INSTALL_DATADIR:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/geant4-data-11.1.0-7xya7o6qpr37gpkw5lkuq4xky7sxb5de/share/geant4-data-11.1.0 -DGEANT4_USE_VTK:BOOL=OFF +## + + +module-whatis "Geant4 is a toolkit for the simulation of the passage of particles through matter. Its areas of application include high energy, nuclear and accelerator physics, as well as studies in medical and space science." + +proc ModulesHelp { } { + puts stderr "Name : geant4" + puts stderr "Version: 11.1.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Geant4 is a toolkit for the simulation of the passage of particles" + puts stderr "through matter. Its areas of application include high energy, nuclear" + puts stderr "and accelerator physics, as well as studies in medical and space" + puts stderr "science." +} + +conflict geant4 + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/geant4-11.1.1-oxvl3k7kczzb6gognppc6ibrpwxs2xyx/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/geant4-11.1.1-oxvl3k7kczzb6gognppc6ibrpwxs2xyx/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/geant4-11.1.1-oxvl3k7kczzb6gognppc6ibrpwxs2xyx/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/geant4-11.1.1-oxvl3k7kczzb6gognppc6ibrpwxs2xyx/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/geant4-11.1.1-oxvl3k7kczzb6gognppc6ibrpwxs2xyx/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/geant4-11.1.1-oxvl3k7kczzb6gognppc6ibrpwxs2xyx/bin" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/geant4-11.1.1-oxvl3k7kczzb6gognppc6ibrpwxs2xyx/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/geant4-11.1.1-oxvl3k7kczzb6gognppc6ibrpwxs2xyx/." +setenv G4ABLADATA "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/g4abla-3.1-76evgfjmdjg5wxuktnmb4l2ut2shjviu/share/data/G4ABLA3.1" +setenv G4LEDATA "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/g4emlow-8.2-5owg2sowgwbqvmvkzlqsasctmjifxgq2/share/data/G4EMLOW8.2" +setenv G4ENSDFSTATEDATA "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/g4ensdfstate-2.3-uyjpnuwpwo5gtyz2rsmsz3fy2r5p5u3e/share/data/G4ENSDFSTATE2.3" +setenv G4INCLDATA "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/g4incl-1.0-go7yhdn6sawd4ztenjv3rycgcgjvcmxj/share/data/G4INCL1.0" +setenv G4NEUTRONHPDATA "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/g4ndl-4.7-d76o3uprt2giidbnadaiojzowmybvprp/share/data/G4NDL4.7" +setenv G4PARTICLEXSDATA "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/g4particlexs-4.0-varor6eytegofrgtbdkzs4sl3y5xvtru/share/data/G4PARTICLEXS4.0" +setenv G4LEVELGAMMADATA "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/g4photonevaporation-5.7-sjlvtjswfiuioclexxsdp4yfzlz5sgs2/share/data/PhotonEvaporation5.7" +setenv G4PIIDATA "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/g4pii-1.3-btjrfgnntjpiiy4zzt5fpxucbv2v6a2n/share/data/G4PII1.3" +setenv G4RADIOACTIVEDATA "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/g4radioactivedecay-5.6-ftehg7meig5lfndsygedwztejwk36hh7/share/data/RadioactiveDecay5.6" +setenv G4REALSURFACEDATA "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/g4realsurface-2.2-clx3bkbr5e4yyp6jpp7pwgw6kldiw6wc/share/data/RealSurface2.2" +setenv G4SAIDXSDATA "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/g4saiddata-2.0-w2fo7plcht7b2vyakhtagtqeacgpozs7/share/data/G4SAIDDATA2.0" +setenv GEANT4_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/geant4-11.1.1-oxvl3k7kczzb6gognppc6ibrpwxs2xyx" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/gemma/0.98.5 b/modulefiles/hpccf/peloton/tcl/gemma/0.98.5 new file mode 100644 index 00000000..9c05beca --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/gemma/0.98.5 @@ -0,0 +1,27 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:19.997954 +## +## gemma@0.98.5%gcc@11.3.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v2/2fudwyo +## + + +module-whatis "GEMMA is a software toolkit for fast application of linear mixed models (LMMs) and related models to genome-wide association studies (GWAS) and other large-scale data sets." + +proc ModulesHelp { } { + puts stderr "Name : gemma" + puts stderr "Version: 0.98.5" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "GEMMA is a software toolkit for fast application of linear mixed models" + puts stderr "(LMMs) and related models to genome-wide association studies (GWAS) and" + puts stderr "other large-scale data sets." +} + +conflict gemma + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gemma-0.98.5-2fudwyolx47popzmnjvf65yajrtxex5t/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gemma-0.98.5-2fudwyolx47popzmnjvf65yajrtxex5t/." +setenv GEMMA_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gemma-0.98.5-2fudwyolx47popzmnjvf65yajrtxex5t" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/genometools/1.6.2 b/modulefiles/hpccf/peloton/tcl/genometools/1.6.2 new file mode 100644 index 00000000..d8eb7b41 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/genometools/1.6.2 @@ -0,0 +1,38 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:20.078175 +## +## genometools@1.6.2%gcc@11.3.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v2/3hxmim5 +## + + +module-whatis "genometools is a free collection of bioinformatics tools (in the realm of genome informatics) combined into a single binary named gt." + +proc ModulesHelp { } { + puts stderr "Name : genometools" + puts stderr "Version: 1.6.2" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "genometools is a free collection of bioinformatics tools (in the realm" + puts stderr "of genome informatics) combined into a single binary named gt." +} + +conflict genometools + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/genometools-1.6.2-3hxmim5qs5ko323utr7ola7k6h7qbeyn/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/genometools-1.6.2-3hxmim5qs5ko323utr7ola7k6h7qbeyn/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/genometools-1.6.2-3hxmim5qs5ko323utr7ola7k6h7qbeyn/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/genometools-1.6.2-3hxmim5qs5ko323utr7ola7k6h7qbeyn/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/genometools-1.6.2-3hxmim5qs5ko323utr7ola7k6h7qbeyn/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/genometools-1.6.2-3hxmim5qs5ko323utr7ola7k6h7qbeyn/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/genometools-1.6.2-3hxmim5qs5ko323utr7ola7k6h7qbeyn/." +prepend-path --delim ":" XLOCALEDIR "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libx11-1.8.4-elhqje4pmr6c4jp256hrfear2cp45szn/share/X11/locale" +prepend-path --delim ":" XDG_DATA_DIRS "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gobject-introspection-1.72.1-nu356my5vhotbyf4w2nfliyqilhq7edi/share" +prepend-path --delim ":" GI_TYPELIB_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gobject-introspection-1.72.1-nu356my5vhotbyf4w2nfliyqilhq7edi/lib/girepository-1.0" +prepend-path --delim ":" XDG_DATA_DIRS "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/harfbuzz-5.3.1-qyvpfb7knng7m4hxr5id3jvtluoqxeoj/share" +prepend-path --delim ":" GI_TYPELIB_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/harfbuzz-5.3.1-qyvpfb7knng7m4hxr5id3jvtluoqxeoj/lib/girepository-1.0" +prepend-path --delim ":" XDG_DATA_DIRS "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/pango-1.50.13-xyculs47or3ygkdcemaibdyrmvkab3gf/share" +prepend-path --delim ":" GI_TYPELIB_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/pango-1.50.13-xyculs47or3ygkdcemaibdyrmvkab3gf/lib/girepository-1.0" +setenv GENOMETOOLS_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/genometools-1.6.2-3hxmim5qs5ko323utr7ola7k6h7qbeyn" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/genrich/0.6.1 b/modulefiles/hpccf/peloton/tcl/genrich/0.6.1 new file mode 100644 index 00000000..9c78d162 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/genrich/0.6.1 @@ -0,0 +1,25 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:20.260779 +## +## genrich@0.6.1%gcc@11.3.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v2/45mu5od +## + + +module-whatis "Genrich is a peak-caller for genomic enrichment assays." + +proc ModulesHelp { } { + puts stderr "Name : genrich" + puts stderr "Version: 0.6.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Genrich is a peak-caller for genomic enrichment assays." +} + +conflict genrich + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/genrich-0.6.1-45mu5odx2cuvyh6pstjqscvngrh42a6q/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/genrich-0.6.1-45mu5odx2cuvyh6pstjqscvngrh42a6q/." +setenv GENRICH_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/genrich-0.6.1-45mu5odx2cuvyh6pstjqscvngrh42a6q" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/gffcompare/0.12.6 b/modulefiles/hpccf/peloton/tcl/gffcompare/0.12.6 new file mode 100644 index 00000000..7a3778aa --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/gffcompare/0.12.6 @@ -0,0 +1,31 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:20.311715 +## +## gffcompare@0.12.6%gcc@11.3.0 build_system=makefile patches=86d7701 arch=linux-ubuntu22.04-x86_64_v2/nnq2gs2 +## + + +module-whatis "Compare and evaluate the accuracy of RNA-Seq transcript assemblers (Cufflinks, Stringtie); collapse (merge) duplicate transcripts from multiple GTF/GFF3 files (e.g. resulted from assembly of different samples); classify transcripts from one or multiple GTF/GFF3 files as they relate to reference transcripts provided in a annotation file (also in GTF/GFF3 format)" + +proc ModulesHelp { } { + puts stderr "Name : gffcompare" + puts stderr "Version: 0.12.6" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Compare and evaluate the accuracy of RNA-Seq transcript assemblers" + puts stderr "(Cufflinks, Stringtie); collapse (merge) duplicate transcripts from" + puts stderr "multiple GTF/GFF3 files (e.g. resulted from assembly of different" + puts stderr "samples); classify transcripts from one or multiple GTF/GFF3 files as" + puts stderr "they relate to reference transcripts provided in a annotation file (also" + puts stderr "in GTF/GFF3 format) More details can be found in the paper: DOI:" + puts stderr "10.12688/f1000research.23297.1" +} + +conflict gffcompare + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gffcompare-0.12.6-nnq2gs2mhecgozi3um5cyeihogl6jgng/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gffcompare-0.12.6-nnq2gs2mhecgozi3um5cyeihogl6jgng/." +setenv GFFCOMPARE_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gffcompare-0.12.6-nnq2gs2mhecgozi3um5cyeihogl6jgng" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/gffread/0.12.7 b/modulefiles/hpccf/peloton/tcl/gffread/0.12.7 new file mode 100644 index 00000000..86f6b3ff --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/gffread/0.12.7 @@ -0,0 +1,27 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:20.355020 +## +## gffread@0.12.7%gcc@11.3.0 build_system=makefile patches=a25b092 arch=linux-ubuntu22.04-x86_64_v2/gbtzrwb +## + + +module-whatis "GFF/GTF utility providing format conversions, filtering, FASTA sequence extraction and more. The paper can be found at: DOI: 10.12688/f1000research.23297.1" + +proc ModulesHelp { } { + puts stderr "Name : gffread" + puts stderr "Version: 0.12.7" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "GFF/GTF utility providing format conversions, filtering, FASTA sequence" + puts stderr "extraction and more. The paper can be found at: DOI:" + puts stderr "10.12688/f1000research.23297.1" +} + +conflict gffread + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gffread-0.12.7-gbtzrwbcr3hhjc3cmxtvfusgnzl7k3ub/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gffread-0.12.7-gbtzrwbcr3hhjc3cmxtvfusgnzl7k3ub/." +setenv GFFREAD_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gffread-0.12.7-gbtzrwbcr3hhjc3cmxtvfusgnzl7k3ub" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/glimmer/3.02b b/modulefiles/hpccf/peloton/tcl/glimmer/3.02b new file mode 100644 index 00000000..1664b913 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/glimmer/3.02b @@ -0,0 +1,26 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:20.391195 +## +## glimmer@3.02b%gcc@11.3.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v2/uw25zl6 +## + + +module-whatis "Glimmer is a system for finding genes in microbial DNA, especially the genomes of bacteria, archaea, and viruses." + +proc ModulesHelp { } { + puts stderr "Name : glimmer" + puts stderr "Version: 3.02b" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Glimmer is a system for finding genes in microbial DNA, especially the" + puts stderr "genomes of bacteria, archaea, and viruses." +} + +conflict glimmer + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/glimmer-3.02b-uw25zl6vlq5f2quyacmm2s57zewdogda/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/glimmer-3.02b-uw25zl6vlq5f2quyacmm2s57zewdogda/." +setenv GLIMMER_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/glimmer-3.02b-uw25zl6vlq5f2quyacmm2s57zewdogda" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/gmp/6.2.1 b/modulefiles/hpccf/peloton/tcl/gmp/6.2.1 new file mode 100644 index 00000000..0cc50a06 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/gmp/6.2.1 @@ -0,0 +1,33 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:20.422600 +## +## gmp@6.2.1%gcc@11.3.0+cxx build_system=autotools libs=shared,static patches=69ad2e2 arch=linux-ubuntu22.04-x86_64_v2/s6757r7 +## +## Configure options: --enable-cxx --enable-shared --enable-static --with-pic +## + + +module-whatis "GMP is a free library for arbitrary precision arithmetic, operating on signed integers, rational numbers, and floating-point numbers." + +proc ModulesHelp { } { + puts stderr "Name : gmp" + puts stderr "Version: 6.2.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "GMP is a free library for arbitrary precision arithmetic, operating on" + puts stderr "signed integers, rational numbers, and floating-point numbers." +} + +conflict gmp + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gmp-6.2.1-s6757r7lp6sarjcav6x2uqidijhcqxlk/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gmp-6.2.1-s6757r7lp6sarjcav6x2uqidijhcqxlk/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gmp-6.2.1-s6757r7lp6sarjcav6x2uqidijhcqxlk/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gmp-6.2.1-s6757r7lp6sarjcav6x2uqidijhcqxlk/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gmp-6.2.1-s6757r7lp6sarjcav6x2uqidijhcqxlk/lib" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gmp-6.2.1-s6757r7lp6sarjcav6x2uqidijhcqxlk/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gmp-6.2.1-s6757r7lp6sarjcav6x2uqidijhcqxlk/." +setenv GMP_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gmp-6.2.1-s6757r7lp6sarjcav6x2uqidijhcqxlk" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/gmt/6.2.0 b/modulefiles/hpccf/peloton/tcl/gmt/6.2.0 new file mode 100644 index 00000000..51346a38 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/gmt/6.2.0 @@ -0,0 +1,35 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:20.449885 +## +## gmt@6.2.0%gcc@11.3.0~blas~docs~ffmpeg~fftw~gdal~ghostscript~glib~graphicsmagick~lapack~pcre build_system=generic arch=linux-ubuntu22.04-x86_64_v2/hp77ltj +## + + +module-whatis "GMT (Generic Mapping Tools) is an open source collection of about 80 command-line tools for manipulating geographic and Cartesian data sets (including filtering, trend fitting, gridding, projecting, etc.) and producing PostScript illustrations ranging from simple x-y plots via contour maps to artificially illuminated surfaces and 3D perspective views. " + +proc ModulesHelp { } { + puts stderr "Name : gmt" + puts stderr "Version: 6.2.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "GMT (Generic Mapping Tools) is an open source collection of about 80" + puts stderr "command-line tools for manipulating geographic and Cartesian data sets" + puts stderr "(including filtering, trend fitting, gridding, projecting, etc.) and" + puts stderr "producing PostScript illustrations ranging from simple x-y plots via" + puts stderr "contour maps to artificially illuminated surfaces and 3D perspective" + puts stderr "views." +} + +conflict gmt + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gmt-6.2.0-hp77ltj4s44skapf2dvdi5h7bwpzwqv2/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gmt-6.2.0-hp77ltj4s44skapf2dvdi5h7bwpzwqv2/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gmt-6.2.0-hp77ltj4s44skapf2dvdi5h7bwpzwqv2/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gmt-6.2.0-hp77ltj4s44skapf2dvdi5h7bwpzwqv2/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gmt-6.2.0-hp77ltj4s44skapf2dvdi5h7bwpzwqv2/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gmt-6.2.0-hp77ltj4s44skapf2dvdi5h7bwpzwqv2/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gmt-6.2.0-hp77ltj4s44skapf2dvdi5h7bwpzwqv2/." +setenv GMT_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gmt-6.2.0-hp77ltj4s44skapf2dvdi5h7bwpzwqv2" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/gnuplot/5.4.3 b/modulefiles/hpccf/peloton/tcl/gnuplot/5.4.3 new file mode 100644 index 00000000..68dc6388 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/gnuplot/5.4.3 @@ -0,0 +1,42 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:20.538266 +## +## gnuplot@5.4.3%gcc@11.3.0~X+cairo+gd+libcerf~pbm~qt+readline~wx build_system=autotools patches=ad89f23 arch=linux-ubuntu22.04-x86_64_v2/t5mtapd +## +## Configure options: --disable-dependency-tracking --disable-silent-rules --without-tutorial --with-readline=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/readline-8.2-6qdjsl6balcjd7o6zj5gdofbb5wt7ln7 --without-bitmap-terminals --without-x --with-qt=no --disable-wxwidgets --with-gd=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libgd-2.2.4-o3nzir6q7oqclk74rjv4kxwy5glwxdj7 --with-cairo --with-libcerf --without-pdf --without-lua --without-latex --without-aquaterm +## + + +module-whatis "Gnuplot is a portable command-line driven graphing utility for Linux, OS/2, MS Windows, OSX, VMS, and many other platforms. The source code is copyrighted but freely distributed (i.e., you don't have to pay for it). It was originally created to allow scientists and students to visualize mathematical functions and data interactively, but has grown to support many non-interactive uses such as web scripting. It is also used as a plotting engine by third-party applications like Octave. Gnuplot has been supported and under active development since 1986" + +proc ModulesHelp { } { + puts stderr "Name : gnuplot" + puts stderr "Version: 5.4.3" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Gnuplot is a portable command-line driven graphing utility for Linux," + puts stderr "OS/2, MS Windows, OSX, VMS, and many other platforms. The source code is" + puts stderr "copyrighted but freely distributed (i.e., you don't have to pay for it)." + puts stderr "It was originally created to allow scientists and students to visualize" + puts stderr "mathematical functions and data interactively, but has grown to support" + puts stderr "many non-interactive uses such as web scripting. It is also used as a" + puts stderr "plotting engine by third-party applications like Octave. Gnuplot has" + puts stderr "been supported and under active development since 1986" +} + +conflict gnuplot + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gnuplot-5.4.3-t5mtapdrq3wlaxoxk4lgdiag4zwm542v/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gnuplot-5.4.3-t5mtapdrq3wlaxoxk4lgdiag4zwm542v/share/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gnuplot-5.4.3-t5mtapdrq3wlaxoxk4lgdiag4zwm542v/." +prepend-path --delim ":" XLOCALEDIR "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libx11-1.8.4-elhqje4pmr6c4jp256hrfear2cp45szn/share/X11/locale" +prepend-path --delim ":" XDG_DATA_DIRS "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gobject-introspection-1.72.1-nu356my5vhotbyf4w2nfliyqilhq7edi/share" +prepend-path --delim ":" GI_TYPELIB_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gobject-introspection-1.72.1-nu356my5vhotbyf4w2nfliyqilhq7edi/lib/girepository-1.0" +prepend-path --delim ":" XDG_DATA_DIRS "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/harfbuzz-5.3.1-qyvpfb7knng7m4hxr5id3jvtluoqxeoj/share" +prepend-path --delim ":" GI_TYPELIB_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/harfbuzz-5.3.1-qyvpfb7knng7m4hxr5id3jvtluoqxeoj/lib/girepository-1.0" +prepend-path --delim ":" XDG_DATA_DIRS "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/pango-1.50.13-xyculs47or3ygkdcemaibdyrmvkab3gf/share" +prepend-path --delim ":" GI_TYPELIB_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/pango-1.50.13-xyculs47or3ygkdcemaibdyrmvkab3gf/lib/girepository-1.0" +setenv GNUPLOT_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gnuplot-5.4.3-t5mtapdrq3wlaxoxk4lgdiag4zwm542v" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/go/1.20.3 b/modulefiles/hpccf/peloton/tcl/go/1.20.3 new file mode 100644 index 00000000..c10ec18a --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/go/1.20.3 @@ -0,0 +1,27 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:20.656767 +## +## go@1.20.3%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/td6hopf +## + + +module-whatis "The golang compiler and build environment" + +proc ModulesHelp { } { + puts stderr "Name : go" + puts stderr "Version: 1.20.3" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "The golang compiler and build environment" +} + +conflict go + +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/go-1.20.3-td6hopfgq2oxrh4wcycmjeql3hf6ofuy/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/go-1.20.3-td6hopfgq2oxrh4wcycmjeql3hf6ofuy/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/go-1.20.3-td6hopfgq2oxrh4wcycmjeql3hf6ofuy/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/go-1.20.3-td6hopfgq2oxrh4wcycmjeql3hf6ofuy/." +setenv GO_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/go-1.20.3-td6hopfgq2oxrh4wcycmjeql3hf6ofuy" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/gromacs/2019.6 b/modulefiles/hpccf/peloton/tcl/gromacs/2019.6 new file mode 100644 index 00000000..83cce5e4 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/gromacs/2019.6 @@ -0,0 +1,40 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:20.819966 +## +## gromacs@2019.6%gcc@11.3.0~blas~cp2k~cuda~cycle_subcounters~double+hwloc~ipo~lapack~mdrun_only+mpi~nosuffix~opencl+openmp~plumed~relaxed_double_precision+shared~sycl build_system=cmake build_type=Release generator=make openmp_max_threads=none arch=linux-ubuntu22.04-x86_64_v2/33ctcbi +## + + +module-whatis "GROMACS is a molecular dynamics package primarily designed for simulations of proteins, lipids and nucleic acids. It was originally developed in the Biophysical Chemistry department of University of Groningen, and is now maintained by contributors in universities and research centers across the world." + +proc ModulesHelp { } { + puts stderr "Name : gromacs" + puts stderr "Version: 2019.6" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "GROMACS is a molecular dynamics package primarily designed for" + puts stderr "simulations of proteins, lipids and nucleic acids. It was originally" + puts stderr "developed in the Biophysical Chemistry department of University of" + puts stderr "Groningen, and is now maintained by contributors in universities and" + puts stderr "research centers across the world. GROMACS is one of the fastest and" + puts stderr "most popular software packages available and can run on CPUs as well as" + puts stderr "GPUs. It is free, open source released under the GNU Lesser General" + puts stderr "Public License. Before the version 4.6, GROMACS was released under the" + puts stderr "GNU General Public License." +} + +conflict gromacs + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gromacs-2019.6-33ctcbirxrq7c2uhy6s3z6y6sqy4mckw/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gromacs-2019.6-33ctcbirxrq7c2uhy6s3z6y6sqy4mckw/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gromacs-2019.6-33ctcbirxrq7c2uhy6s3z6y6sqy4mckw/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gromacs-2019.6-33ctcbirxrq7c2uhy6s3z6y6sqy4mckw/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gromacs-2019.6-33ctcbirxrq7c2uhy6s3z6y6sqy4mckw/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gromacs-2019.6-33ctcbirxrq7c2uhy6s3z6y6sqy4mckw/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gromacs-2019.6-33ctcbirxrq7c2uhy6s3z6y6sqy4mckw/share/man" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gromacs-2019.6-33ctcbirxrq7c2uhy6s3z6y6sqy4mckw/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gromacs-2019.6-33ctcbirxrq7c2uhy6s3z6y6sqy4mckw/." +setenv GROMACS_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gromacs-2019.6-33ctcbirxrq7c2uhy6s3z6y6sqy4mckw" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/gromacs/2023.1 b/modulefiles/hpccf/peloton/tcl/gromacs/2023.1 new file mode 100644 index 00000000..d4168596 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/gromacs/2023.1 @@ -0,0 +1,40 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:20.850537 +## +## gromacs@2023.1%gcc@11.3.0~blas~cp2k~cuda~cycle_subcounters~double+hwloc~ipo~lapack~mdrun_only+mpi~nosuffix~opencl+openmp~relaxed_double_precision+shared~sycl build_system=cmake build_type=Release generator=make openmp_max_threads=none arch=linux-ubuntu22.04-x86_64_v2/fqybbme +## + + +module-whatis "GROMACS is a molecular dynamics package primarily designed for simulations of proteins, lipids and nucleic acids. It was originally developed in the Biophysical Chemistry department of University of Groningen, and is now maintained by contributors in universities and research centers across the world." + +proc ModulesHelp { } { + puts stderr "Name : gromacs" + puts stderr "Version: 2023.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "GROMACS is a molecular dynamics package primarily designed for" + puts stderr "simulations of proteins, lipids and nucleic acids. It was originally" + puts stderr "developed in the Biophysical Chemistry department of University of" + puts stderr "Groningen, and is now maintained by contributors in universities and" + puts stderr "research centers across the world. GROMACS is one of the fastest and" + puts stderr "most popular software packages available and can run on CPUs as well as" + puts stderr "GPUs. It is free, open source released under the GNU Lesser General" + puts stderr "Public License. Before the version 4.6, GROMACS was released under the" + puts stderr "GNU General Public License." +} + +conflict gromacs + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gromacs-2023.1-fqybbmegrrrxhhdnkh32v64pkjcektfm/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gromacs-2023.1-fqybbmegrrrxhhdnkh32v64pkjcektfm/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gromacs-2023.1-fqybbmegrrrxhhdnkh32v64pkjcektfm/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gromacs-2023.1-fqybbmegrrrxhhdnkh32v64pkjcektfm/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gromacs-2023.1-fqybbmegrrrxhhdnkh32v64pkjcektfm/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gromacs-2023.1-fqybbmegrrrxhhdnkh32v64pkjcektfm/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gromacs-2023.1-fqybbmegrrrxhhdnkh32v64pkjcektfm/share/man" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gromacs-2023.1-fqybbmegrrrxhhdnkh32v64pkjcektfm/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gromacs-2023.1-fqybbmegrrrxhhdnkh32v64pkjcektfm/." +setenv GROMACS_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gromacs-2023.1-fqybbmegrrrxhhdnkh32v64pkjcektfm" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/gsl/2.7.1 b/modulefiles/hpccf/peloton/tcl/gsl/2.7.1 new file mode 100644 index 00000000..38b5ad50 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/gsl/2.7.1 @@ -0,0 +1,37 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:21.016963 +## +## gsl@2.7.1%gcc@11.3.0~external-cblas build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/7z5dz5c +## + + +module-whatis "The GNU Scientific Library (GSL) is a numerical library for C and C++ programmers. It is free software under the GNU General Public License. The library provides a wide range of mathematical routines such as random number generators, special functions and least-squares fitting. There are over 1000 functions in total with an extensive test suite." + +proc ModulesHelp { } { + puts stderr "Name : gsl" + puts stderr "Version: 2.7.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "The GNU Scientific Library (GSL) is a numerical library for C and C++" + puts stderr "programmers. It is free software under the GNU General Public License." + puts stderr "The library provides a wide range of mathematical routines such as" + puts stderr "random number generators, special functions and least-squares fitting." + puts stderr "There are over 1000 functions in total with an extensive test suite." +} + +conflict gsl + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gsl-2.7.1-7z5dz5cle3byaeyf4uvq6x3biakagq2b/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gsl-2.7.1-7z5dz5cle3byaeyf4uvq6x3biakagq2b/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gsl-2.7.1-7z5dz5cle3byaeyf4uvq6x3biakagq2b/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gsl-2.7.1-7z5dz5cle3byaeyf4uvq6x3biakagq2b/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gsl-2.7.1-7z5dz5cle3byaeyf4uvq6x3biakagq2b/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gsl-2.7.1-7z5dz5cle3byaeyf4uvq6x3biakagq2b/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gsl-2.7.1-7z5dz5cle3byaeyf4uvq6x3biakagq2b/share/man" +prepend-path --delim ":" ACLOCAL_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gsl-2.7.1-7z5dz5cle3byaeyf4uvq6x3biakagq2b/share/aclocal" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gsl-2.7.1-7z5dz5cle3byaeyf4uvq6x3biakagq2b/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gsl-2.7.1-7z5dz5cle3byaeyf4uvq6x3biakagq2b/." +setenv GSL_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gsl-2.7.1-7z5dz5cle3byaeyf4uvq6x3biakagq2b" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/hdf5/1.14.1-2 b/modulefiles/hpccf/peloton/tcl/hdf5/1.14.1-2 new file mode 100644 index 00000000..1a06102c --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/hdf5/1.14.1-2 @@ -0,0 +1,35 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:21.057048 +## +## hdf5@1.14.1-2%gcc@11.3.0~cxx~fortran~hl~ipo~java~map+mpi+shared~szip~threadsafe+tools api=default build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v2/zsywol5 +## +## Configure options: -DALLOW_UNSUPPORTED:BOOL=ON -DHDF5_BUILD_EXAMPLES:BOOL=OFF -DBUILD_TESTING:BOOL=OFF -DHDF5_ENABLE_MAP_API:BOOL=OFF -DHDF5_ENABLE_Z_LIB_SUPPORT:BOOL=ON -DHDF5_ENABLE_SZIP_SUPPORT:BOOL=OFF -DHDF5_ENABLE_SZIP_ENCODING:BOOL=OFF -DBUILD_SHARED_LIBS:BOOL=ON -DONLY_SHARED_LIBS:BOOL=OFF -DHDF5_ENABLE_PARALLEL:BOOL=ON -DHDF5_ENABLE_THREADSAFE:BOOL=OFF -DHDF5_BUILD_HL_LIB:BOOL=OFF -DHDF5_BUILD_CPP_LIB:BOOL=OFF -DHDF5_BUILD_FORTRAN:BOOL=OFF -DHDF5_BUILD_JAVA:BOOL=OFF -DHDF5_BUILD_TOOLS:BOOL=ON -DMPI_CXX_COMPILER:PATH=/share/apps/22.04/manual/openmpi/4.1.5/bin/mpic++ -DMPI_C_COMPILER:PATH=/share/apps/22.04/manual/openmpi/4.1.5/bin/mpicc +## + + +module-whatis "HDF5 is a data model, library, and file format for storing and managing data. It supports an unlimited variety of datatypes, and is designed for flexible and efficient I/O and for high volume and complex data. " + +proc ModulesHelp { } { + puts stderr "Name : hdf5" + puts stderr "Version: 1.14.1-2" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "HDF5 is a data model, library, and file format for storing and managing" + puts stderr "data. It supports an unlimited variety of datatypes, and is designed for" + puts stderr "flexible and efficient I/O and for high volume and complex data." +} + +conflict hdf5 + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/hdf5-1.14.1-2-zsywol5sprfce42nopmhcnevfnmpxbj6/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/hdf5-1.14.1-2-zsywol5sprfce42nopmhcnevfnmpxbj6/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/hdf5-1.14.1-2-zsywol5sprfce42nopmhcnevfnmpxbj6/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/hdf5-1.14.1-2-zsywol5sprfce42nopmhcnevfnmpxbj6/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/hdf5-1.14.1-2-zsywol5sprfce42nopmhcnevfnmpxbj6/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/hdf5-1.14.1-2-zsywol5sprfce42nopmhcnevfnmpxbj6/bin" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/hdf5-1.14.1-2-zsywol5sprfce42nopmhcnevfnmpxbj6/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/hdf5-1.14.1-2-zsywol5sprfce42nopmhcnevfnmpxbj6/." +setenv HDF5_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/hdf5-1.14.1-2-zsywol5sprfce42nopmhcnevfnmpxbj6" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/hh-suite/3.3.0 b/modulefiles/hpccf/peloton/tcl/hh-suite/3.3.0 new file mode 100644 index 00000000..6f9a29a5 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/hh-suite/3.3.0 @@ -0,0 +1,28 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:21.100513 +## +## hh-suite@3.3.0%gcc@11.3.0~ipo+mpi build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v2/md7kvgy +## + + +module-whatis "HH-suite is a widely used open source software suite for sensitive sequence similarity searches and protein fold recognition. It is based on pairwise alignment of profile Hidden Markov models (HMMs), which represent multiple sequence alignments of homologous proteins." + +proc ModulesHelp { } { + puts stderr "Name : hh-suite" + puts stderr "Version: 3.3.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "HH-suite is a widely used open source software suite for sensitive" + puts stderr "sequence similarity searches and protein fold recognition. It is based" + puts stderr "on pairwise alignment of profile Hidden Markov models (HMMs), which" + puts stderr "represent multiple sequence alignments of homologous proteins." +} + +conflict hh-suite + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/hh-suite-3.3.0-md7kvgy444qsp5gv2odbwjvtks6fzzmz/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/hh-suite-3.3.0-md7kvgy444qsp5gv2odbwjvtks6fzzmz/." +setenv HH_SUITE_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/hh-suite-3.3.0-md7kvgy444qsp5gv2odbwjvtks6fzzmz" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/hisat2/2.2.1 b/modulefiles/hpccf/peloton/tcl/hisat2/2.2.1 new file mode 100644 index 00000000..b9b60e0c --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/hisat2/2.2.1 @@ -0,0 +1,28 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:21.160127 +## +## hisat2@2.2.1%gcc@11.3.0~sra build_system=makefile arch=linux-ubuntu22.04-x86_64_v2/gfgu72r +## + + +module-whatis "HISAT2 is a fast and sensitive alignment program for mapping next-generation sequencing reads (whole-genome, transcriptome, and exome sequencing data) against the general human population (as well as against a single reference genome)." + +proc ModulesHelp { } { + puts stderr "Name : hisat2" + puts stderr "Version: 2.2.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "HISAT2 is a fast and sensitive alignment program for mapping next-" + puts stderr "generation sequencing reads (whole-genome, transcriptome, and exome" + puts stderr "sequencing data) against the general human population (as well as" + puts stderr "against a single reference genome)." +} + +conflict hisat2 + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/hisat2-2.2.1-gfgu72rrpkmddjznwckv2wotiwhmuy6f/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/hisat2-2.2.1-gfgu72rrpkmddjznwckv2wotiwhmuy6f/." +setenv HISAT2_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/hisat2-2.2.1-gfgu72rrpkmddjznwckv2wotiwhmuy6f" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/hmmer/3.3.2 b/modulefiles/hpccf/peloton/tcl/hmmer/3.3.2 new file mode 100644 index 00000000..7f58c462 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/hmmer/3.3.2 @@ -0,0 +1,28 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:21.215066 +## +## hmmer@3.3.2%gcc@11.3.0~gsl+mpi build_system=generic arch=linux-ubuntu22.04-x86_64_v2/csjsnjv +## + + +module-whatis "HMMER is used for searching sequence databases for sequence homologs, and for making sequence alignments. It implements methods using probabilistic models called profile hidden Markov models (profile HMMs). " + +proc ModulesHelp { } { + puts stderr "Name : hmmer" + puts stderr "Version: 3.3.2" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "HMMER is used for searching sequence databases for sequence homologs," + puts stderr "and for making sequence alignments. It implements methods using" + puts stderr "probabilistic models called profile hidden Markov models (profile HMMs)." +} + +conflict hmmer + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/hmmer-3.3.2-csjsnjvgzp6hakghrvllvdam2wmohvhu/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/hmmer-3.3.2-csjsnjvgzp6hakghrvllvdam2wmohvhu/share/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/hmmer-3.3.2-csjsnjvgzp6hakghrvllvdam2wmohvhu/." +setenv HMMER_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/hmmer-3.3.2-csjsnjvgzp6hakghrvllvdam2wmohvhu" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/homer/4.11.1 b/modulefiles/hpccf/peloton/tcl/homer/4.11.1 new file mode 100644 index 00000000..a03b4220 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/homer/4.11.1 @@ -0,0 +1,28 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:21.276078 +## +## homer@4.11.1%gcc@11.3.0~data build_system=generic arch=linux-ubuntu22.04-x86_64_v2/m7dwget +## + + +module-whatis "Software for motif discovery and next generation sequencing analysis" + +proc ModulesHelp { } { + puts stderr "Name : homer" + puts stderr "Version: 4.11.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Software for motif discovery and next generation sequencing analysis" +} + +conflict homer + +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/homer-4.11.1-m7dwgetfxqfvhly656p6nvzmory5lfhb/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/homer-4.11.1-m7dwgetfxqfvhly656p6nvzmory5lfhb/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/homer-4.11.1-m7dwgetfxqfvhly656p6nvzmory5lfhb/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/homer-4.11.1-m7dwgetfxqfvhly656p6nvzmory5lfhb/." +setenv R_HOME "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/r-4.2.2-kfibfnbb4qyeu67brykexwi56hldkrwy/rlib/R" +setenv HOMER_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/homer-4.11.1-m7dwgetfxqfvhly656p6nvzmory5lfhb" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/htslib/1.17 b/modulefiles/hpccf/peloton/tcl/htslib/1.17 new file mode 100644 index 00000000..b2fd5bf7 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/htslib/1.17 @@ -0,0 +1,34 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:22.338403 +## +## htslib@1.17%gcc@11.3.0+libcurl+libdeflate build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/hwdq4ev +## +## Configure options: --enable-libcurl --enable-libdeflate +## + + +module-whatis "C library for high-throughput sequencing data formats." + +proc ModulesHelp { } { + puts stderr "Name : htslib" + puts stderr "Version: 1.17" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "C library for high-throughput sequencing data formats." +} + +conflict htslib + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/htslib-1.17-hwdq4evx67zqjemualwrbounveioxbzn/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/htslib-1.17-hwdq4evx67zqjemualwrbounveioxbzn/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/htslib-1.17-hwdq4evx67zqjemualwrbounveioxbzn/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/htslib-1.17-hwdq4evx67zqjemualwrbounveioxbzn/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/htslib-1.17-hwdq4evx67zqjemualwrbounveioxbzn/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/htslib-1.17-hwdq4evx67zqjemualwrbounveioxbzn/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/htslib-1.17-hwdq4evx67zqjemualwrbounveioxbzn/share/man" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/htslib-1.17-hwdq4evx67zqjemualwrbounveioxbzn/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/htslib-1.17-hwdq4evx67zqjemualwrbounveioxbzn/." +setenv HTSLIB_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/htslib-1.17-hwdq4evx67zqjemualwrbounveioxbzn" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/hwloc/2.9.0 b/modulefiles/hpccf/peloton/tcl/hwloc/2.9.0 new file mode 100644 index 00000000..5fbfc781 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/hwloc/2.9.0 @@ -0,0 +1,43 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:22.360524 +## +## hwloc@2.9.0%gcc@11.3.0~cairo~cuda~gl~libudev+libxml2~netloc~nvml~oneapi-level-zero~opencl+pci~rocm build_system=autotools libs=shared,static arch=linux-ubuntu22.04-x86_64_v2/jh42wxu +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis "The Hardware Locality (hwloc) software project." + +proc ModulesHelp { } { + puts stderr "Name : hwloc" + puts stderr "Version: 2.9.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "The Hardware Locality (hwloc) software project. The Portable Hardware" + puts stderr "Locality (hwloc) software package provides a portable abstraction" + puts stderr "(across OS, versions, architectures, ...) of the hierarchical topology" + puts stderr "of modern architectures, including NUMA memory nodes, sockets, shared" + puts stderr "caches, cores and simultaneous multithreading. It also gathers various" + puts stderr "system attributes such as cache and memory information as well as the" + puts stderr "locality of I/O devices such as network interfaces, InfiniBand HCAs or" + puts stderr "GPUs. It primarily aims at helping applications with gathering" + puts stderr "information about modern computing hardware so as to exploit it" + puts stderr "accordingly and efficiently." +} + +conflict hwloc + +prepend-path --delim ":" CPATH "/share/apps/22.04/manual/hwloc/2.9.0/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/manual/hwloc/2.9.0/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/manual/hwloc/2.9.0/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/manual/hwloc/2.9.0/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/manual/hwloc/2.9.0/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/manual/hwloc/2.9.0/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/manual/hwloc/2.9.0/share/man" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/manual/hwloc/2.9.0/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/manual/hwloc/2.9.0/." +setenv HWLOC_ROOT "/share/apps/22.04/manual/hwloc/2.9.0" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/hwloc/2.9.3 b/modulefiles/hpccf/peloton/tcl/hwloc/2.9.3 new file mode 100644 index 00000000..fb8dee86 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/hwloc/2.9.3 @@ -0,0 +1,43 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-09-14 16:05:39.894962 +## +## hwloc@2.9.3%gcc@11.3.0~cairo~cuda~gl~libudev+libxml2~netloc~nvml~oneapi-level-zero~opencl+pci~rocm build_system=autotools libs=shared,static arch=linux-ubuntu22.04-x86_64_v2/aq3nccb +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis "The Hardware Locality (hwloc) software project." + +proc ModulesHelp { } { + puts stderr "Name : hwloc" + puts stderr "Version: 2.9.3" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "The Hardware Locality (hwloc) software project. The Portable Hardware" + puts stderr "Locality (hwloc) software package provides a portable abstraction" + puts stderr "(across OS, versions, architectures, ...) of the hierarchical topology" + puts stderr "of modern architectures, including NUMA memory nodes, sockets, shared" + puts stderr "caches, cores and simultaneous multithreading. It also gathers various" + puts stderr "system attributes such as cache and memory information as well as the" + puts stderr "locality of I/O devices such as network interfaces, InfiniBand HCAs or" + puts stderr "GPUs. It primarily aims at helping applications with gathering" + puts stderr "information about modern computing hardware so as to exploit it" + puts stderr "accordingly and efficiently." +} + +conflict hwloc + +prepend-path --delim ":" CPATH "/share/apps/22.04/manual/hwloc/2.9.3/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/manual/hwloc/2.9.3/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/manual/hwloc/2.9.3/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/manual/hwloc/2.9.3/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/manual/hwloc/2.9.3/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/manual/hwloc/2.9.3/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/manual/hwloc/2.9.3/share/man" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/manual/hwloc/2.9.3/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/manual/hwloc/2.9.3/." +setenv HWLOC_ROOT "/share/apps/22.04/manual/hwloc/2.9.3" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/hypre/2.28.0 b/modulefiles/hpccf/peloton/tcl/hypre/2.28.0 new file mode 100644 index 00000000..08cce8fb --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/hypre/2.28.0 @@ -0,0 +1,33 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:22.409020 +## +## hypre@2.28.0%gcc@11.3.0~complex~cuda~debug+fortran~gptune~int64~internal-superlu~mixedint+mpi~openmp~rocm+shared~superlu-dist~sycl~umpire~unified-memory build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/fvgg7a4 +## +## Configure options: --prefix=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/hypre-2.28.0-fvgg7a4xnzfjd7ux3fiz3ykikjp263fb --with-lapack-libs=openblas --with-lapack-lib-dirs=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openblas-0.3.23-hjvgpb5hmku762lpowdlqs4qoxmmizv3/lib --with-blas-libs=openblas --with-blas-lib-dirs=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openblas-0.3.23-hjvgpb5hmku762lpowdlqs4qoxmmizv3/lib --with-MPI --with-MPI-lib-dirs=/share/apps/22.04/manual/openmpi/4.1.5/lib --with-MPI-include=/share/apps/22.04/manual/openmpi/4.1.5/include --without-openmp --disable-bigint --disable-mixedint --disable-complex --enable-shared --without-superlu --without-mli --without-fei --disable-debug --without-cuda --disable-curand --disable-cusparse --without-hip --disable-rocrand --disable-rocsparse --enable-fortran +## + + +module-whatis "Hypre is a library of high performance preconditioners that features parallel multigrid methods for both structured and unstructured grid problems." + +proc ModulesHelp { } { + puts stderr "Name : hypre" + puts stderr "Version: 2.28.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Hypre is a library of high performance preconditioners that features" + puts stderr "parallel multigrid methods for both structured and unstructured grid" + puts stderr "problems." +} + +conflict hypre + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/hypre-2.28.0-fvgg7a4xnzfjd7ux3fiz3ykikjp263fb/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/hypre-2.28.0-fvgg7a4xnzfjd7ux3fiz3ykikjp263fb/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/hypre-2.28.0-fvgg7a4xnzfjd7ux3fiz3ykikjp263fb/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/hypre-2.28.0-fvgg7a4xnzfjd7ux3fiz3ykikjp263fb/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/hypre-2.28.0-fvgg7a4xnzfjd7ux3fiz3ykikjp263fb/lib" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/hypre-2.28.0-fvgg7a4xnzfjd7ux3fiz3ykikjp263fb/." +setenv HYPRE_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/hypre-2.28.0-fvgg7a4xnzfjd7ux3fiz3ykikjp263fb" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/idl/8.7.3 b/modulefiles/hpccf/peloton/tcl/idl/8.7.3 new file mode 100644 index 00000000..7efd50e0 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/idl/8.7.3 @@ -0,0 +1,29 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-12 14:27:27.349220 +## +## idl@8.7.3%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/ufcjfbt +## + + +module-whatis "IDL Software: Interactive Data Visulation." + +proc ModulesHelp { } { + puts stderr "Name : idl" + puts stderr "Version: 8.7.3" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "IDL Software: Interactive Data Visulation. Note: IDL is a licensed" + puts stderr "software. You will also need an existing downloaded tarball of IDL in" + puts stderr "your current directory or in a spack mirror in order to install." +} + +conflict idl + +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/idl-8.7.3-ufcjfbtfnvi6r2cnvnb74zb3wx7a5qwq/." +prepend-path --delim ":" EXELIS_DIR "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/idl-8.7.3-ufcjfbtfnvi6r2cnvnb74zb3wx7a5qwq" +prepend-path --delim ":" IDL_DIR "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/idl-8.7.3-ufcjfbtfnvi6r2cnvnb74zb3wx7a5qwq/idl" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/idl-8.7.3-ufcjfbtfnvi6r2cnvnb74zb3wx7a5qwq/idl/bin" +setenv IDL_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/idl-8.7.3-ufcjfbtfnvi6r2cnvnb74zb3wx7a5qwq" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/igv/2.12.3 b/modulefiles/hpccf/peloton/tcl/igv/2.12.3 new file mode 100644 index 00000000..9d895749 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/igv/2.12.3 @@ -0,0 +1,30 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:22.433134 +## +## igv@2.12.3%gcc@11.3.0~igvtools build_system=generic arch=linux-ubuntu22.04-x86_64_v2/eizdh3h +## + + +module-whatis "The Integrative Genomics Viewer (IGV) is a high-performance visualization tool for interactive exploration of large, integrated genomic datasets. It supports a wide variety of data types, including array-based and next-generation sequence data, and genomic annotations." + +proc ModulesHelp { } { + puts stderr "Name : igv" + puts stderr "Version: 2.12.3" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "The Integrative Genomics Viewer (IGV) is a high-performance" + puts stderr "visualization tool for interactive exploration of large, integrated" + puts stderr "genomic datasets. It supports a wide variety of data types, including" + puts stderr "array-based and next-generation sequence data, and genomic annotations." +} + +conflict igv + +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/igv-2.12.3-eizdh3hkgycytzxfnl5iecg2ap7fadh3/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/igv-2.12.3-eizdh3hkgycytzxfnl5iecg2ap7fadh3/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/igv-2.12.3-eizdh3hkgycytzxfnl5iecg2ap7fadh3/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/igv-2.12.3-eizdh3hkgycytzxfnl5iecg2ap7fadh3/." +setenv IGV_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/igv-2.12.3-eizdh3hkgycytzxfnl5iecg2ap7fadh3" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/imagemagick/7.0.8-7 b/modulefiles/hpccf/peloton/tcl/imagemagick/7.0.8-7 new file mode 100644 index 00000000..5ee20630 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/imagemagick/7.0.8-7 @@ -0,0 +1,42 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:22.557963 +## +## imagemagick@7.0.8-7%gcc@11.3.0~ghostscript build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/waj2dj3 +## +## Configure options: --without-gslib +## + + +module-whatis "ImageMagick is a software suite to create, edit, compose, or convert bitmap images." + +proc ModulesHelp { } { + puts stderr "Name : imagemagick" + puts stderr "Version: 7.0.8-7" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "ImageMagick is a software suite to create, edit, compose, or convert" + puts stderr "bitmap images." +} + +conflict imagemagick + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/imagemagick-7.0.8-7-waj2dj3xc5ygp66fqwry4dgh2jjiir5o/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/imagemagick-7.0.8-7-waj2dj3xc5ygp66fqwry4dgh2jjiir5o/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/imagemagick-7.0.8-7-waj2dj3xc5ygp66fqwry4dgh2jjiir5o/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/imagemagick-7.0.8-7-waj2dj3xc5ygp66fqwry4dgh2jjiir5o/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/imagemagick-7.0.8-7-waj2dj3xc5ygp66fqwry4dgh2jjiir5o/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/imagemagick-7.0.8-7-waj2dj3xc5ygp66fqwry4dgh2jjiir5o/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/imagemagick-7.0.8-7-waj2dj3xc5ygp66fqwry4dgh2jjiir5o/share/man" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/imagemagick-7.0.8-7-waj2dj3xc5ygp66fqwry4dgh2jjiir5o/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/imagemagick-7.0.8-7-waj2dj3xc5ygp66fqwry4dgh2jjiir5o/." +prepend-path --delim ":" XLOCALEDIR "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libx11-1.8.4-elhqje4pmr6c4jp256hrfear2cp45szn/share/X11/locale" +prepend-path --delim ":" XDG_DATA_DIRS "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gobject-introspection-1.72.1-nu356my5vhotbyf4w2nfliyqilhq7edi/share" +prepend-path --delim ":" GI_TYPELIB_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gobject-introspection-1.72.1-nu356my5vhotbyf4w2nfliyqilhq7edi/lib/girepository-1.0" +prepend-path --delim ":" XDG_DATA_DIRS "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/harfbuzz-5.3.1-qyvpfb7knng7m4hxr5id3jvtluoqxeoj/share" +prepend-path --delim ":" GI_TYPELIB_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/harfbuzz-5.3.1-qyvpfb7knng7m4hxr5id3jvtluoqxeoj/lib/girepository-1.0" +prepend-path --delim ":" XDG_DATA_DIRS "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/pango-1.50.13-xyculs47or3ygkdcemaibdyrmvkab3gf/share" +prepend-path --delim ":" GI_TYPELIB_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/pango-1.50.13-xyculs47or3ygkdcemaibdyrmvkab3gf/lib/girepository-1.0" +setenv IMAGEMAGICK_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/imagemagick-7.0.8-7-waj2dj3xc5ygp66fqwry4dgh2jjiir5o" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/infernal/1.1.4 b/modulefiles/hpccf/peloton/tcl/infernal/1.1.4 new file mode 100644 index 00000000..f92a481f --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/infernal/1.1.4 @@ -0,0 +1,31 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:22.861266 +## +## infernal@1.1.4%gcc@11.3.0~mpi build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/3rjb7li +## +## Configure options: --disable-mpi +## + + +module-whatis "Infernal (INFERence of RNA ALignment) is for searching DNA sequence databases for RNA structure and sequence similarities. It is an implementation of a special case of profile stochastic context-free grammars called covariance models (CMs)." + +proc ModulesHelp { } { + puts stderr "Name : infernal" + puts stderr "Version: 1.1.4" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Infernal (INFERence of RNA ALignment) is for searching DNA sequence" + puts stderr "databases for RNA structure and sequence similarities. It is an" + puts stderr "implementation of a special case of profile stochastic context-free" + puts stderr "grammars called covariance models (CMs)." +} + +conflict infernal + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/infernal-1.1.4-3rjb7livfibdylw3ac6stdg7wn4djssc/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/infernal-1.1.4-3rjb7livfibdylw3ac6stdg7wn4djssc/share/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/infernal-1.1.4-3rjb7livfibdylw3ac6stdg7wn4djssc/." +setenv INFERNAL_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/infernal-1.1.4-3rjb7livfibdylw3ac6stdg7wn4djssc" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/intel-oneapi-compilers/2022.2.1 b/modulefiles/hpccf/peloton/tcl/intel-oneapi-compilers/2022.2.1 new file mode 100644 index 00000000..1feda25f --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/intel-oneapi-compilers/2022.2.1 @@ -0,0 +1,52 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:22.990808 +## +## intel-oneapi-compilers@2022.2.1%gcc@11.3.0+envmods build_system=generic arch=linux-ubuntu22.04-x86_64_v2/ludgpxx +## + + +module-whatis "Intel oneAPI Compilers. Includes: icc, icpc, ifort, icx, icpx, ifx, and dpcpp." + +proc ModulesHelp { } { + puts stderr "Name : intel-oneapi-compilers" + puts stderr "Version: 2022.2.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Intel oneAPI Compilers. Includes: icc, icpc, ifort, icx, icpx, ifx, and" + puts stderr "dpcpp. LICENSE INFORMATION: By downloading and using this software, you" + puts stderr "agree to the terms and conditions of the software license agreements at" + puts stderr "https://intel.ly/393CijO." +} + +conflict intel-oneapi-compilers + +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-ludgpxxgyrhramquhp7xxotgjm7xpq6n/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-ludgpxxgyrhramquhp7xxotgjm7xpq6n/lib" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-ludgpxxgyrhramquhp7xxotgjm7xpq6n/." +prepend-path --delim ":" ACL_BOARD_VENDOR_PATH "/opt/Intel/OpenCLFPGA/oneAPI/Boards" +setenv CMPLR_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-ludgpxxgyrhramquhp7xxotgjm7xpq6n/compiler/2022.2.1" +prepend-path --delim ":" DIAGUTIL_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-ludgpxxgyrhramquhp7xxotgjm7xpq6n/compiler/2022.2.1/sys_check/sys_check.sh" +setenv FPGA_VARS_ARGS "" +setenv FPGA_VARS_DIR "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-ludgpxxgyrhramquhp7xxotgjm7xpq6n/compiler/2022.2.1/linux/lib/oclfpga" +setenv INTELFPGAOCLSDKROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-ludgpxxgyrhramquhp7xxotgjm7xpq6n/compiler/2022.2.1/linux/lib/oclfpga" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-ludgpxxgyrhramquhp7xxotgjm7xpq6n/compiler/2022.2.1/linux/compiler/lib/intel64_lin:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-ludgpxxgyrhramquhp7xxotgjm7xpq6n/compiler/2022.2.1/linux/lib" +prepend-path --delim ":" NLSPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-ludgpxxgyrhramquhp7xxotgjm7xpq6n/compiler/2022.2.1/linux/compiler/lib/intel64_lin/locale/%l_%t/%N" +prepend-path --delim ":" OCL_ICD_FILENAMES "libintelocl_emu.so:libalteracl.so:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-ludgpxxgyrhramquhp7xxotgjm7xpq6n/compiler/2022.2.1/linux/lib/x64/libintelocl.so" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-ludgpxxgyrhramquhp7xxotgjm7xpq6n/compiler/2022.2.1/linux/IntelDPCPP" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-ludgpxxgyrhramquhp7xxotgjm7xpq6n/compiler/2022.2.1/linux/compiler/lib/intel64_lin" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-ludgpxxgyrhramquhp7xxotgjm7xpq6n/compiler/2022.2.1/linux/lib/oclfpga/host/linux64/lib" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-ludgpxxgyrhramquhp7xxotgjm7xpq6n/compiler/2022.2.1/linux/lib/x64" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-ludgpxxgyrhramquhp7xxotgjm7xpq6n/compiler/2022.2.1/linux/lib" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-ludgpxxgyrhramquhp7xxotgjm7xpq6n/compiler/2022.2.1/documentation/en/man/common:/share/apps/22.04/manual/openmpi/4.1.5/share/man:/share/apps/22.04/manual/slurm/22.05.9/share/man:/home/spack-user/.nvm/versions/node/v14.20.0/share/man::/opt/puppetlabs/puppet/share/man:/home/spack-user/.fzf/man::/home/spack-user/.fzf/man" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-ludgpxxgyrhramquhp7xxotgjm7xpq6n/compiler/2022.2.1/linux/bin" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-ludgpxxgyrhramquhp7xxotgjm7xpq6n/compiler/2022.2.1/linux/bin/intel64" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-ludgpxxgyrhramquhp7xxotgjm7xpq6n/compiler/2022.2.1/linux/lib/oclfpga/bin" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-ludgpxxgyrhramquhp7xxotgjm7xpq6n/compiler/2022.2.1/lib/pkgconfig" +setenv CC "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-ludgpxxgyrhramquhp7xxotgjm7xpq6n/compiler/2022.2.1/linux/bin/icx" +setenv CXX "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-ludgpxxgyrhramquhp7xxotgjm7xpq6n/compiler/2022.2.1/linux/bin/icpx" +setenv F77 "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-ludgpxxgyrhramquhp7xxotgjm7xpq6n/compiler/2022.2.1/linux/bin/ifx" +setenv FC "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-ludgpxxgyrhramquhp7xxotgjm7xpq6n/compiler/2022.2.1/linux/bin/ifx" +setenv INTEL_ONEAPI_COMPILERS_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-compilers-2022.2.1-ludgpxxgyrhramquhp7xxotgjm7xpq6n" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/intel-oneapi-mkl/2022.2.1 b/modulefiles/hpccf/peloton/tcl/intel-oneapi-mkl/2022.2.1 new file mode 100644 index 00000000..c194c4cb --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/intel-oneapi-mkl/2022.2.1 @@ -0,0 +1,45 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:23.249731 +## +## intel-oneapi-mkl@2022.2.1%gcc@11.3.0~cluster+envmods~ilp64+shared build_system=generic threads=none arch=linux-ubuntu22.04-x86_64_v2/wtu2kcp +## + + +module-whatis "Intel oneAPI Math Kernel Library (Intel oneMKL; formerly Intel Math Kernel Library or Intel MKL), is a library of optimized math routines for science, engineering, and financial applications. Core math functions include BLAS, LAPACK, ScaLAPACK, sparse solvers, fast Fourier transforms, and vector math." + +proc ModulesHelp { } { + puts stderr "Name : intel-oneapi-mkl" + puts stderr "Version: 2022.2.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Intel oneAPI Math Kernel Library (Intel oneMKL; formerly Intel Math" + puts stderr "Kernel Library or Intel MKL), is a library of optimized math routines" + puts stderr "for science, engineering, and financial applications. Core math" + puts stderr "functions include BLAS, LAPACK, ScaLAPACK, sparse solvers, fast Fourier" + puts stderr "transforms, and vector math. LICENSE INFORMATION: By downloading and" + puts stderr "using this software, you agree to the terms and conditions of the" + puts stderr "software license agreements at https://intel.ly/393CijO." +} + +conflict intel-oneapi-mkl + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-mkl-2022.2.1-wtu2kcp2bxbjcjjxa3ohkjn3wg76hvs3/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-mkl-2022.2.1-wtu2kcp2bxbjcjjxa3ohkjn3wg76hvs3/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-mkl-2022.2.1-wtu2kcp2bxbjcjjxa3ohkjn3wg76hvs3/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-mkl-2022.2.1-wtu2kcp2bxbjcjjxa3ohkjn3wg76hvs3/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-mkl-2022.2.1-wtu2kcp2bxbjcjjxa3ohkjn3wg76hvs3/lib" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-mkl-2022.2.1-wtu2kcp2bxbjcjjxa3ohkjn3wg76hvs3/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-mkl-2022.2.1-wtu2kcp2bxbjcjjxa3ohkjn3wg76hvs3/." +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-mkl-2022.2.1-wtu2kcp2bxbjcjjxa3ohkjn3wg76hvs3/mkl/2022.2.1/include" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-mkl-2022.2.1-wtu2kcp2bxbjcjjxa3ohkjn3wg76hvs3/mkl/2022.2.1/lib/intel64" +setenv MKLROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-mkl-2022.2.1-wtu2kcp2bxbjcjjxa3ohkjn3wg76hvs3/mkl/2022.2.1" +prepend-path --delim ":" NLSPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-mkl-2022.2.1-wtu2kcp2bxbjcjjxa3ohkjn3wg76hvs3/mkl/2022.2.1/lib/intel64/locale/%l_%t/%N" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-mkl-2022.2.1-wtu2kcp2bxbjcjjxa3ohkjn3wg76hvs3/mkl/2022.2.1/lib/intel64" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-mkl-2022.2.1-wtu2kcp2bxbjcjjxa3ohkjn3wg76hvs3/mkl/2022.2.1/bin/intel64" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-mkl-2022.2.1-wtu2kcp2bxbjcjjxa3ohkjn3wg76hvs3/mkl/2022.2.1/lib/pkgconfig" +append-path --delim " " __INTEL_POST_CFLAGS "-Wl,-rpath,/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-mkl-2022.2.1-wtu2kcp2bxbjcjjxa3ohkjn3wg76hvs3/mkl/2022.2.1/lib/intel64" +append-path --delim " " __INTEL_POST_FFLAGS "-Wl,-rpath,/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-mkl-2022.2.1-wtu2kcp2bxbjcjjxa3ohkjn3wg76hvs3/mkl/2022.2.1/lib/intel64" +setenv INTEL_ONEAPI_MKL_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-mkl-2022.2.1-wtu2kcp2bxbjcjjxa3ohkjn3wg76hvs3" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/intel-oneapi-tbb/2021.9.0 b/modulefiles/hpccf/peloton/tcl/intel-oneapi-tbb/2021.9.0 new file mode 100644 index 00000000..3e17e38a --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/intel-oneapi-tbb/2021.9.0 @@ -0,0 +1,41 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:23.492534 +## +## intel-oneapi-tbb@2021.9.0%gcc@11.3.0+envmods build_system=generic arch=linux-ubuntu22.04-x86_64_v2/pdkleen +## + + +module-whatis "Intel oneAPI Threading Building Blocks (oneTBB) is a flexible performance library that simplifies the work of adding parallelism to complex applications across accelerated architectures, even if you are not a threading expert." + +proc ModulesHelp { } { + puts stderr "Name : intel-oneapi-tbb" + puts stderr "Version: 2021.9.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Intel oneAPI Threading Building Blocks (oneTBB) is a flexible" + puts stderr "performance library that simplifies the work of adding parallelism to" + puts stderr "complex applications across accelerated architectures, even if you are" + puts stderr "not a threading expert. LICENSE INFORMATION: By downloading and using" + puts stderr "this software, you agree to the terms and conditions of the software" + puts stderr "license agreements at https://intel.ly/393CijO." +} + +conflict intel-oneapi-tbb + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-tbb-2021.9.0-pdkleenlgn32v245lvlrvgfczcykun64/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-tbb-2021.9.0-pdkleenlgn32v245lvlrvgfczcykun64/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-tbb-2021.9.0-pdkleenlgn32v245lvlrvgfczcykun64/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-tbb-2021.9.0-pdkleenlgn32v245lvlrvgfczcykun64/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-tbb-2021.9.0-pdkleenlgn32v245lvlrvgfczcykun64/lib" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-tbb-2021.9.0-pdkleenlgn32v245lvlrvgfczcykun64/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-tbb-2021.9.0-pdkleenlgn32v245lvlrvgfczcykun64/." +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-tbb-2021.9.0-pdkleenlgn32v245lvlrvgfczcykun64/tbb/2021.9.0/env/../include" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-tbb-2021.9.0-pdkleenlgn32v245lvlrvgfczcykun64/tbb/2021.9.0/env/../lib/intel64/gcc4.8" +setenv TBBROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-tbb-2021.9.0-pdkleenlgn32v245lvlrvgfczcykun64/tbb/2021.9.0/env/.." +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-tbb-2021.9.0-pdkleenlgn32v245lvlrvgfczcykun64/tbb/2021.9.0/env/.." +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-tbb-2021.9.0-pdkleenlgn32v245lvlrvgfczcykun64/tbb/2021.9.0/env/../lib/intel64/gcc4.8" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-tbb-2021.9.0-pdkleenlgn32v245lvlrvgfczcykun64/tbb/2021.9.0/env/../lib/pkgconfig" +setenv INTEL_ONEAPI_TBB_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/intel-oneapi-tbb-2021.9.0-pdkleenlgn32v245lvlrvgfczcykun64" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/interproscan/5.61-93.0 b/modulefiles/hpccf/peloton/tcl/interproscan/5.61-93.0 new file mode 100644 index 00000000..5fb04ce2 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/interproscan/5.61-93.0 @@ -0,0 +1,32 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:23.755946 +## +## interproscan@5.61-93.0%gcc@11.3.0 build_system=generic patches=6a81cbb,70c0de2 arch=linux-ubuntu22.04-x86_64_v2/3aqbpki +## + + +module-whatis "InterProScan is the software package that allows sequences (protein and nucleic) to be scanned against InterPro's signatures. Signatures are predictive models, provided by several different databases, that make up the InterPro consortium." + +proc ModulesHelp { } { + puts stderr "Name : interproscan" + puts stderr "Version: 5.61-93.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "InterProScan is the software package that allows sequences (protein and" + puts stderr "nucleic) to be scanned against InterPro's signatures. Signatures are" + puts stderr "predictive models, provided by several different databases, that make up" + puts stderr "the InterPro consortium." +} + +module load openjdk/11.0.17_8 +prereq openjdk/11.0.17_8 +conflict interproscan + +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/interproscan-5.61-93.0-3aqbpkib7mcld2yu2geyp2cmfgxwialg/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/interproscan-5.61-93.0-3aqbpkib7mcld2yu2geyp2cmfgxwialg/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/interproscan-5.61-93.0-3aqbpkib7mcld2yu2geyp2cmfgxwialg/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/interproscan-5.61-93.0-3aqbpkib7mcld2yu2geyp2cmfgxwialg/." +setenv INTERPROSCAN_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/interproscan-5.61-93.0-3aqbpkib7mcld2yu2geyp2cmfgxwialg" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/iq-tree/2.1.3 b/modulefiles/hpccf/peloton/tcl/iq-tree/2.1.3 new file mode 100644 index 00000000..9bf76c09 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/iq-tree/2.1.3 @@ -0,0 +1,27 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:23.864998 +## +## iq-tree@2.1.3%gcc@11.3.0~ipo+lsd2~mpi+openmp build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v2/vifmkgc +## +## Configure options: -DUSE_LSD2=ON -DIQTREE_FLAGS=omp +## + + +module-whatis "IQ-TREE Efficient software for phylogenomic inference" + +proc ModulesHelp { } { + puts stderr "Name : iq-tree" + puts stderr "Version: 2.1.3" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "IQ-TREE Efficient software for phylogenomic inference" +} + +conflict iq-tree + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/iq-tree-2.1.3-vifmkgclsopm36zhhmnresky243jwc57/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/iq-tree-2.1.3-vifmkgclsopm36zhhmnresky243jwc57/." +setenv IQ_TREE_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/iq-tree-2.1.3-vifmkgclsopm36zhhmnresky243jwc57" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/iqtree2/2.1.2 b/modulefiles/hpccf/peloton/tcl/iqtree2/2.1.2 new file mode 100644 index 00000000..8635ae58 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/iqtree2/2.1.2 @@ -0,0 +1,25 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:23.946667 +## +## iqtree2@2.1.2%gcc@11.3.0~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v2/tel6cgi +## + + +module-whatis "Efficient and versatile phylogenomic software by maximum likelihood" + +proc ModulesHelp { } { + puts stderr "Name : iqtree2" + puts stderr "Version: 2.1.2" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Efficient and versatile phylogenomic software by maximum likelihood" +} + +conflict iqtree2 + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/iqtree2-2.1.2-tel6cginrj34sthoepr3vhlecpubuk27/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/iqtree2-2.1.2-tel6cginrj34sthoepr3vhlecpubuk27/." +setenv IQTREE2_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/iqtree2-2.1.2-tel6cginrj34sthoepr3vhlecpubuk27" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/jags/4.3.0 b/modulefiles/hpccf/peloton/tcl/jags/4.3.0 new file mode 100644 index 00000000..2e741e0f --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/jags/4.3.0 @@ -0,0 +1,36 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:24.013394 +## +## jags@4.3.0%gcc@11.3.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/sre7nwa +## +## Configure options: --with-blas=-L/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openblas-0.3.23-hjvgpb5hmku762lpowdlqs4qoxmmizv3/lib -lopenblas --with-lapack=-L/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openblas-0.3.23-hjvgpb5hmku762lpowdlqs4qoxmmizv3/lib -lopenblas +## + + +module-whatis "JAGS is Just Another Gibbs Sampler. It is a program for analysis of Bayesian hierarchical models using Markov Chain Monte Carlo (MCMC) simulation not wholly unlike BUGS" + +proc ModulesHelp { } { + puts stderr "Name : jags" + puts stderr "Version: 4.3.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "JAGS is Just Another Gibbs Sampler. It is a program for analysis of" + puts stderr "Bayesian hierarchical models using Markov Chain Monte Carlo (MCMC)" + puts stderr "simulation not wholly unlike BUGS" +} + +conflict jags + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/jags-4.3.0-sre7nwat3chvseucugqlih2wifnrv4pt/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/jags-4.3.0-sre7nwat3chvseucugqlih2wifnrv4pt/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/jags-4.3.0-sre7nwat3chvseucugqlih2wifnrv4pt/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/jags-4.3.0-sre7nwat3chvseucugqlih2wifnrv4pt/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/jags-4.3.0-sre7nwat3chvseucugqlih2wifnrv4pt/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/jags-4.3.0-sre7nwat3chvseucugqlih2wifnrv4pt/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/jags-4.3.0-sre7nwat3chvseucugqlih2wifnrv4pt/share/man" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/jags-4.3.0-sre7nwat3chvseucugqlih2wifnrv4pt/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/jags-4.3.0-sre7nwat3chvseucugqlih2wifnrv4pt/." +setenv JAGS_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/jags-4.3.0-sre7nwat3chvseucugqlih2wifnrv4pt" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/jdk/17.0.1 b/modulefiles/hpccf/peloton/tcl/jdk/17.0.1 new file mode 100644 index 00000000..686dcdf5 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/jdk/17.0.1 @@ -0,0 +1,35 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:24.062535 +## +## jdk@17.0.1%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/dkgoji4 +## + + +module-whatis "The Java Development Kit (JDK) released by Oracle Corporation in the form of a binary product aimed at Java developers. Includes a complete JRE plus tools for developing, debugging, and monitoring Java applications." + +proc ModulesHelp { } { + puts stderr "Name : jdk" + puts stderr "Version: 17.0.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "The Java Development Kit (JDK) released by Oracle Corporation in the" + puts stderr "form of a binary product aimed at Java developers. Includes a complete" + puts stderr "JRE plus tools for developing, debugging, and monitoring Java" + puts stderr "applications." +} + +conflict jdk + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/jdk-17.0.1-dkgoji4ld43pu2ypbqjkb3umezwmw7ne/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/jdk-17.0.1-dkgoji4ld43pu2ypbqjkb3umezwmw7ne/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/jdk-17.0.1-dkgoji4ld43pu2ypbqjkb3umezwmw7ne/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/jdk-17.0.1-dkgoji4ld43pu2ypbqjkb3umezwmw7ne/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/jdk-17.0.1-dkgoji4ld43pu2ypbqjkb3umezwmw7ne/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/jdk-17.0.1-dkgoji4ld43pu2ypbqjkb3umezwmw7ne/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/jdk-17.0.1-dkgoji4ld43pu2ypbqjkb3umezwmw7ne/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/jdk-17.0.1-dkgoji4ld43pu2ypbqjkb3umezwmw7ne/." +setenv JAVA_HOME "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/jdk-17.0.1-dkgoji4ld43pu2ypbqjkb3umezwmw7ne" +setenv JDK_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/jdk-17.0.1-dkgoji4ld43pu2ypbqjkb3umezwmw7ne" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/jellyfish/1.1.11 b/modulefiles/hpccf/peloton/tcl/jellyfish/1.1.11 new file mode 100644 index 00000000..0e8c216f --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/jellyfish/1.1.11 @@ -0,0 +1,33 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:24.107990 +## +## jellyfish@1.1.11%gcc@11.3.0~ruby build_system=autotools patches=e729c13 arch=linux-ubuntu22.04-x86_64_v2/raxzxdb +## + + +module-whatis "JELLYFISH is a tool for fast, memory-efficient counting of k-mers in DNA." + +proc ModulesHelp { } { + puts stderr "Name : jellyfish" + puts stderr "Version: 1.1.11" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "JELLYFISH is a tool for fast, memory-efficient counting of k-mers in" + puts stderr "DNA." +} + +conflict jellyfish + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/jellyfish-1.1.11-raxzxdbhb7ar4hzbljuh4y76shuhb3dh/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/jellyfish-1.1.11-raxzxdbhb7ar4hzbljuh4y76shuhb3dh/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/jellyfish-1.1.11-raxzxdbhb7ar4hzbljuh4y76shuhb3dh/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/jellyfish-1.1.11-raxzxdbhb7ar4hzbljuh4y76shuhb3dh/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/jellyfish-1.1.11-raxzxdbhb7ar4hzbljuh4y76shuhb3dh/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/jellyfish-1.1.11-raxzxdbhb7ar4hzbljuh4y76shuhb3dh/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/jellyfish-1.1.11-raxzxdbhb7ar4hzbljuh4y76shuhb3dh/share/man" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/jellyfish-1.1.11-raxzxdbhb7ar4hzbljuh4y76shuhb3dh/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/jellyfish-1.1.11-raxzxdbhb7ar4hzbljuh4y76shuhb3dh/." +setenv JELLYFISH_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/jellyfish-1.1.11-raxzxdbhb7ar4hzbljuh4y76shuhb3dh" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/jellyfish/2.3.0 b/modulefiles/hpccf/peloton/tcl/jellyfish/2.3.0 new file mode 100644 index 00000000..69c06667 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/jellyfish/2.3.0 @@ -0,0 +1,33 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:24.156838 +## +## jellyfish@2.3.0%gcc@11.3.0~ruby build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/dw53mmx +## + + +module-whatis "JELLYFISH is a tool for fast, memory-efficient counting of k-mers in DNA." + +proc ModulesHelp { } { + puts stderr "Name : jellyfish" + puts stderr "Version: 2.3.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "JELLYFISH is a tool for fast, memory-efficient counting of k-mers in" + puts stderr "DNA." +} + +conflict jellyfish + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/jellyfish-2.3.0-dw53mmxdodgpb2tn4galzqvu6qkafzoi/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/jellyfish-2.3.0-dw53mmxdodgpb2tn4galzqvu6qkafzoi/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/jellyfish-2.3.0-dw53mmxdodgpb2tn4galzqvu6qkafzoi/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/jellyfish-2.3.0-dw53mmxdodgpb2tn4galzqvu6qkafzoi/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/jellyfish-2.3.0-dw53mmxdodgpb2tn4galzqvu6qkafzoi/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/jellyfish-2.3.0-dw53mmxdodgpb2tn4galzqvu6qkafzoi/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/jellyfish-2.3.0-dw53mmxdodgpb2tn4galzqvu6qkafzoi/share/man" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/jellyfish-2.3.0-dw53mmxdodgpb2tn4galzqvu6qkafzoi/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/jellyfish-2.3.0-dw53mmxdodgpb2tn4galzqvu6qkafzoi/." +setenv JELLYFISH_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/jellyfish-2.3.0-dw53mmxdodgpb2tn4galzqvu6qkafzoi" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/julia/1.9.0 b/modulefiles/hpccf/peloton/tcl/julia/1.9.0 new file mode 100644 index 00000000..05e3152f --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/julia/1.9.0 @@ -0,0 +1,25 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-05 11:44:45.879392 +## +## julia@1.9.0%gcc@11.3.0+openlibm+precompile build_system=makefile arch=linux-ubuntu22.04-x86_64_v2/j45hdu2 +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis "The Julia Language: A fresh approach to technical computing" + +proc ModulesHelp { } { + puts stderr "Name : julia" + puts stderr "Version: 1.9.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "The Julia Language: A fresh approach to technical computing" +} + +conflict julia + +setenv JULIA_ROOT "/share/apps/22.04/julia/1.9.0" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/kaiju/1.6.2 b/modulefiles/hpccf/peloton/tcl/kaiju/1.6.2 new file mode 100644 index 00000000..292ba0b0 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/kaiju/1.6.2 @@ -0,0 +1,44 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:24.212818 +## +## kaiju@1.6.2%gcc@11.3.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v2/57b2tak +## + + +module-whatis "Kaiju is a program for the taxonomic classification of high-throughput sequencing reads." + +proc ModulesHelp { } { + puts stderr "Name : kaiju" + puts stderr "Version: 1.6.2" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Kaiju is a program for the taxonomic classification of high-throughput" + puts stderr "sequencing reads." +} + +module load py-htseq/0.11.2 +prereq py-htseq/0.11.2 +conflict kaiju + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/kaiju-1.6.2-57b2tak3fjugb4akxfcond6shrncjj36/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/kaiju-1.6.2-57b2tak3fjugb4akxfcond6shrncjj36/." +prepend-path --delim ":" PERL5LIB "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-io-compress-2.204-funlu6whhgzmt6tz6aithbgfigg6e5vc/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-compress-raw-bzip2-2.204-lhs6rdur75uvjt6353qx4wuekqjfwjor/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-compress-raw-zlib-2.204-dt6ihx2o55bf3r4tygh22umlxvilyuzn/lib/perl5" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-htseq-0.11.2-spf6mjq3tv7mkxujncluybz7boloyxar/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-cython-0.29.33-xivhd7iqgiacrfxjhvudpgak2vht25m2/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-setuptools-63.4.3-lbj7d45k7odyhqivr4lk5oqyfeymtkux/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-matplotlib-3.7.1-o26yn5bpu2eupgk6jarnbariwexq5aye/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-contourpy-1.0.5-pbksj6frfrastamgk2jttz2rbx6xzayt/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-numpy-1.24.3-ncgncvgk3wg73eqiitkkumoniwwv5fnv/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-cycler-0.11.0-jb4275pnm7hbn7hthddnlwpzatbecpaw/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-fonttools-4.37.3-hk43we6pasaw4lmenav75vnz2gcusid4/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-kiwisolver-1.4.4-2hrb757fm255ofquczrzy6hq4xg5o6gz/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-packaging-23.0-guzysrx46md3mjvnsetxoui22uce5vwm/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-pillow-9.5.0-fvsebbblokzqdhycxej32hz5mdnfrv7o/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-pyparsing-3.0.9-udtuyywx67y6fhejp35vjiezfaff6pu3/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-python-dateutil-2.8.2-3npk57crmmsp3ms6sc346qcs5a7pgu5v/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-six-1.16.0-n5ow3krhvn3dl7zwzvmfwpa7wpmbfepd/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-pysam-0.21.0-c7tma2ktunehzyysfzmwpylvqievpqlx/lib/python3.10/site-packages" +setenv KAIJU_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/kaiju-1.6.2-57b2tak3fjugb4akxfcond6shrncjj36" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/kalign/3.3.1 b/modulefiles/hpccf/peloton/tcl/kalign/3.3.1 new file mode 100644 index 00000000..afc22c90 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/kalign/3.3.1 @@ -0,0 +1,25 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:24.475334 +## +## kalign@3.3.1%gcc@11.3.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/nemdeio +## + + +module-whatis "A fast multiple sequence alignment program for biological sequences." + +proc ModulesHelp { } { + puts stderr "Name : kalign" + puts stderr "Version: 3.3.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "A fast multiple sequence alignment program for biological sequences." +} + +conflict kalign + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/kalign-3.3.1-nemdeio6jeughotkmrdc3skrcvqeikgd/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/kalign-3.3.1-nemdeio6jeughotkmrdc3skrcvqeikgd/." +setenv KALIGN_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/kalign-3.3.1-nemdeio6jeughotkmrdc3skrcvqeikgd" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/kmergenie/1.7051 b/modulefiles/hpccf/peloton/tcl/kmergenie/1.7051 new file mode 100644 index 00000000..4b88326f --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/kmergenie/1.7051 @@ -0,0 +1,29 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:24.517548 +## +## kmergenie@1.7051%gcc@11.3.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v2/wpm7fsl +## + + +module-whatis "KmerGenie estimates the best k-mer length for genome de novo assembly." + +proc ModulesHelp { } { + puts stderr "Name : kmergenie" + puts stderr "Version: 1.7051" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "KmerGenie estimates the best k-mer length for genome de novo assembly." +} + +module load zlib/1.2.13 +prereq zlib/1.2.13 +conflict kmergenie + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/kmergenie-1.7051-wpm7fslnxrvrlrqps7jgnccsb7jdt5w7/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/kmergenie-1.7051-wpm7fslnxrvrlrqps7jgnccsb7jdt5w7/." +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-setuptools-67.6.0-6zptasw65hqd5nybxil3qyqli5tcvvrm/lib/python3.10/site-packages" +setenv R_HOME "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/r-4.2.2-kfibfnbb4qyeu67brykexwi56hldkrwy/rlib/R" +setenv KMERGENIE_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/kmergenie-1.7051-wpm7fslnxrvrlrqps7jgnccsb7jdt5w7" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/kraken/1.1.1 b/modulefiles/hpccf/peloton/tcl/kraken/1.1.1 new file mode 100644 index 00000000..7c1d837f --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/kraken/1.1.1 @@ -0,0 +1,26 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:24.600423 +## +## kraken@1.1.1%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/onlqqxd +## + + +module-whatis "Kraken is a system for assigning taxonomic labels to short DNA sequences, usually obtained through metagenomic studies." + +proc ModulesHelp { } { + puts stderr "Name : kraken" + puts stderr "Version: 1.1.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Kraken is a system for assigning taxonomic labels to short DNA" + puts stderr "sequences, usually obtained through metagenomic studies." +} + +conflict kraken + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/kraken-1.1.1-onlqqxd4jindsqxmfajxx5aluc3qid35/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/kraken-1.1.1-onlqqxd4jindsqxmfajxx5aluc3qid35/." +setenv KRAKEN_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/kraken-1.1.1-onlqqxd4jindsqxmfajxx5aluc3qid35" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/kraken2/2.1.2 b/modulefiles/hpccf/peloton/tcl/kraken2/2.1.2 new file mode 100644 index 00000000..9bcf5441 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/kraken2/2.1.2 @@ -0,0 +1,26 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:24.644059 +## +## kraken2@2.1.2%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/cakwhmo +## + + +module-whatis "Kraken2 is a system for assigning taxonomic labels to short DNA sequences, usually obtained through metagenomic studies." + +proc ModulesHelp { } { + puts stderr "Name : kraken2" + puts stderr "Version: 2.1.2" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Kraken2 is a system for assigning taxonomic labels to short DNA" + puts stderr "sequences, usually obtained through metagenomic studies." +} + +conflict kraken2 + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/kraken2-2.1.2-cakwhmog25xelfbx6itfpp6tetv2xpny/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/kraken2-2.1.2-cakwhmog25xelfbx6itfpp6tetv2xpny/." +setenv KRAKEN2_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/kraken2-2.1.2-cakwhmog25xelfbx6itfpp6tetv2xpny" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/krakenuniq/0.7.3 b/modulefiles/hpccf/peloton/tcl/krakenuniq/0.7.3 new file mode 100644 index 00000000..a946a1d9 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/krakenuniq/0.7.3 @@ -0,0 +1,26 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:24.770560 +## +## krakenuniq@0.7.3%gcc@11.3.0~jellyfish build_system=generic arch=linux-ubuntu22.04-x86_64_v2/4ul5ke5 +## + + +module-whatis "Metagenomics classifier with unique k-mer counting for more specific results." + +proc ModulesHelp { } { + puts stderr "Name : krakenuniq" + puts stderr "Version: 0.7.3" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Metagenomics classifier with unique k-mer counting for more specific" + puts stderr "results." +} + +conflict krakenuniq + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/krakenuniq-0.7.3-4ul5ke5vw3dvaouryvj2yd5uh5rngtb3/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/krakenuniq-0.7.3-4ul5ke5vw3dvaouryvj2yd5uh5rngtb3/." +setenv KRAKENUNIQ_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/krakenuniq-0.7.3-4ul5ke5vw3dvaouryvj2yd5uh5rngtb3" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/lammps/20230208 b/modulefiles/hpccf/peloton/tcl/lammps/20230208 new file mode 100644 index 00000000..2fb817a0 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/lammps/20230208 @@ -0,0 +1,36 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:24.861825 +## +## lammps@20230208%gcc@11.3.0~adios~amoeba~asphere~atc~awpmd~bocs~body~bpm~brownian~cg-dna~cg-spica~class2~colloid~colvars~compress~coreshell~cuda~cuda_mps~dielectric~diffraction~dipole~dpd-basic~dpd-meso~dpd-react~dpd-smooth~drude~eff~electrode~exceptions~extra-compute~extra-dump~extra-fix~extra-molecule~extra-pair~fep~ffmpeg~granular~h5md~intel~interlayer~ipo~jpeg~kim~kokkos+kspace~latboltz~latte~lepton+lib~machdyn~manifold+manybody~mc~meam~mesont~mgpt~misc~ml-hdnnp~ml-iap~ml-pod~ml-rann~ml-snap~mofff+molecule~molfile+mpi~mpiio~netcdf~opencl+openmp~openmp-package~opt~orient~peri~phonon~plugin~plumed~png~poems~ptm~python~qeq~qtb~reaction~reaxff~replica+rigid~rocm~shock~smtbq~sph~spin~srd~tally~uef~voronoi~vtk~yaff build_system=cmake build_type=Release fftw_precision=double generator=make gpu_precision=mixed lammps_sizes=smallbig arch=linux-ubuntu22.04-x86_64_v2/zdt2ngf +## +## Configure options: -DBUILD_SHARED_LIBS:BOOL=ON -DLAMMPS_EXCEPTIONS:BOOL=OFF -DBUILD_MPI:BOOL=ON -DBUILD_OMP:BOOL=ON -DENABLE_TESTING:BOOL=OFF -DPKG_GPU:BOOL=OFF -DBUILD_LIB:BOOL=ON -DCMAKE_TUNE_FLAGS:STRING=-march=x86-64-v2 -mtune=generic -DLAMMPS_SIZES:STRING=smallbig -DWITH_JPEG:BOOL=OFF -DWITH_PNG:BOOL=OFF -DWITH_FFMPEG:BOOL=OFF -DPKG_ADIOS:BOOL=OFF -DPKG_AMOEBA:BOOL=OFF -DPKG_ASPHERE:BOOL=OFF -DPKG_ATC:BOOL=OFF -DPKG_AWPMD:BOOL=OFF -DPKG_BOCS:BOOL=OFF -DPKG_BODY:BOOL=OFF -DPKG_BPM:BOOL=OFF -DPKG_BROWNIAN:BOOL=OFF -DPKG_CG-DNA:BOOL=OFF -DPKG_CG-SPICA:BOOL=OFF -DPKG_CLASS2:BOOL=OFF -DPKG_COLLOID:BOOL=OFF -DPKG_COLVARS:BOOL=OFF -DPKG_COMPRESS:BOOL=OFF -DPKG_CORESHELL:BOOL=OFF -DPKG_DIELECTRIC:BOOL=OFF -DPKG_DIFFRACTION:BOOL=OFF -DPKG_DIPOLE:BOOL=OFF -DPKG_DPD-BASIC:BOOL=OFF -DPKG_DPD-MESO:BOOL=OFF -DPKG_DPD-REACT:BOOL=OFF -DPKG_DPD-SMOOTH:BOOL=OFF -DPKG_DRUDE:BOOL=OFF -DPKG_EFF:BOOL=OFF -DPKG_ELECTRODE:BOOL=OFF -DPKG_EXTRA-COMPUTE:BOOL=OFF -DPKG_EXTRA-DUMP:BOOL=OFF -DPKG_EXTRA-FIX:BOOL=OFF -DPKG_EXTRA-MOLECULE:BOOL=OFF -DPKG_EXTRA-PAIR:BOOL=OFF -DPKG_FEP:BOOL=OFF -DPKG_GRANULAR:BOOL=OFF -DPKG_H5MD:BOOL=OFF -DPKG_INTEL:BOOL=OFF -DPKG_INTERLAYER:BOOL=OFF -DPKG_KIM:BOOL=OFF -DPKG_KOKKOS:BOOL=OFF -DPKG_KSPACE:BOOL=ON -DPKG_LATBOLTZ:BOOL=OFF -DPKG_LATTE:BOOL=OFF -DPKG_LEPTON:BOOL=OFF -DPKG_MACHDYN:BOOL=OFF -DPKG_MANIFOLD:BOOL=OFF -DPKG_MANYBODY:BOOL=ON -DPKG_MC:BOOL=OFF -DPKG_MEAM:BOOL=OFF -DPKG_MESONT:BOOL=OFF -DPKG_MGPT:BOOL=OFF -DPKG_MISC:BOOL=OFF -DPKG_ML-HDNNP:BOOL=OFF -DPKG_ML-IAP:BOOL=OFF -DPKG_ML-POD:BOOL=OFF -DPKG_ML-RANN:BOOL=OFF -DPKG_ML-SNAP:BOOL=OFF -DPKG_MOFFF:BOOL=OFF -DPKG_MOLECULE:BOOL=ON -DPKG_MOLFILE:BOOL=OFF -DPKG_MPIIO:BOOL=OFF -DPKG_NETCDF:BOOL=OFF -DPKG_OPENMP:BOOL=OFF -DPKG_OPT:BOOL=OFF -DPKG_ORIENT:BOOL=OFF -DPKG_PERI:BOOL=OFF -DPKG_PHONON:BOOL=OFF -DPKG_PLUGIN:BOOL=OFF -DPKG_PLUMED:BOOL=OFF -DPKG_POEMS:BOOL=OFF -DPKG_PTM:BOOL=OFF -DPKG_PYTHON:BOOL=OFF -DPKG_QEQ:BOOL=OFF -DPKG_QTB:BOOL=OFF -DPKG_REACTION:BOOL=OFF -DPKG_REAXFF:BOOL=OFF -DPKG_REPLICA:BOOL=OFF -DPKG_RIGID:BOOL=ON -DPKG_SHOCK:BOOL=OFF -DPKG_SMTBQ:BOOL=OFF -DPKG_SPH:BOOL=OFF -DPKG_SPIN:BOOL=OFF -DPKG_SRD:BOOL=OFF -DPKG_TALLY:BOOL=OFF -DPKG_UEF:BOOL=OFF -DPKG_VORONOI:BOOL=OFF -DPKG_VTK:BOOL=OFF -DPKG_YAFF:BOOL=OFF -DFFT:STRING=FFTW3 -DFFT_SINGLE:BOOL=OFF +## + + +module-whatis "LAMMPS stands for Large-scale Atomic/Molecular Massively Parallel Simulator. " + +proc ModulesHelp { } { + puts stderr "Name : lammps" + puts stderr "Version: 20230208" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "LAMMPS stands for Large-scale Atomic/Molecular Massively Parallel" + puts stderr "Simulator." +} + +conflict lammps + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/lammps-20230208-zdt2ngftgn5ogfi4rwrgvr757ecim3xz/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/lammps-20230208-zdt2ngftgn5ogfi4rwrgvr757ecim3xz/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/lammps-20230208-zdt2ngftgn5ogfi4rwrgvr757ecim3xz/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/lammps-20230208-zdt2ngftgn5ogfi4rwrgvr757ecim3xz/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/lammps-20230208-zdt2ngftgn5ogfi4rwrgvr757ecim3xz/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/lammps-20230208-zdt2ngftgn5ogfi4rwrgvr757ecim3xz/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/lammps-20230208-zdt2ngftgn5ogfi4rwrgvr757ecim3xz/share/man" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/lammps-20230208-zdt2ngftgn5ogfi4rwrgvr757ecim3xz/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/lammps-20230208-zdt2ngftgn5ogfi4rwrgvr757ecim3xz/." +setenv LAMMPS_POTENTIALS "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/lammps-20230208-zdt2ngftgn5ogfi4rwrgvr757ecim3xz/share/lammps/potentials" +setenv LAMMPS_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/lammps-20230208-zdt2ngftgn5ogfi4rwrgvr757ecim3xz" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/last/1282 b/modulefiles/hpccf/peloton/tcl/last/1282 new file mode 100644 index 00000000..7e3ab4c8 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/last/1282 @@ -0,0 +1,27 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:24.894393 +## +## last@1282%gcc@11.3.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v2/i3ppzim +## + + +module-whatis "LAST finds similar regions between sequences, and aligns them. It is designed for comparing large datasets to each other (e.g. vertebrate genomes and/or large numbers of DNA reads)." + +proc ModulesHelp { } { + puts stderr "Name : last" + puts stderr "Version: 1282" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "LAST finds similar regions between sequences, and aligns them. It is" + puts stderr "designed for comparing large datasets to each other (e.g. vertebrate" + puts stderr "genomes and/or large numbers of DNA reads)." +} + +conflict last + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/last-1282-i3ppzimb2imikj6nayecy6ezkzbevzpw/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/last-1282-i3ppzimb2imikj6nayecy6ezkzbevzpw/." +setenv LAST_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/last-1282-i3ppzimb2imikj6nayecy6ezkzbevzpw" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/lcov/1.16 b/modulefiles/hpccf/peloton/tcl/lcov/1.16 new file mode 100644 index 00000000..0c66cdb6 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/lcov/1.16 @@ -0,0 +1,30 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:24.916125 +## +## lcov@1.16%gcc@11.3.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v2/wd2mmgs +## + + +module-whatis "LCOV is a graphical front-end for GCC's coverage testing tool gcov. It collects gcov data for multiple source files and creates HTML pages containing the source code annotated with coverage information. It also adds overview pages for easy navigation within the file structure. LCOV supports statement, function and branch coverage measurement." + +proc ModulesHelp { } { + puts stderr "Name : lcov" + puts stderr "Version: 1.16" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "LCOV is a graphical front-end for GCC's coverage testing tool gcov. It" + puts stderr "collects gcov data for multiple source files and creates HTML pages" + puts stderr "containing the source code annotated with coverage information. It also" + puts stderr "adds overview pages for easy navigation within the file structure. LCOV" + puts stderr "supports statement, function and branch coverage measurement." +} + +conflict lcov + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/lcov-1.16-wd2mmgsuvkoaeelzh4sw4kgylrs36ixg/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/lcov-1.16-wd2mmgsuvkoaeelzh4sw4kgylrs36ixg/share/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/lcov-1.16-wd2mmgsuvkoaeelzh4sw4kgylrs36ixg/." +setenv LCOV_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/lcov-1.16-wd2mmgsuvkoaeelzh4sw4kgylrs36ixg" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/libevent/2.1.12 b/modulefiles/hpccf/peloton/tcl/libevent/2.1.12 new file mode 100644 index 00000000..4e3dbd9e --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/libevent/2.1.12 @@ -0,0 +1,36 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:24.939685 +## +## libevent@2.1.12%gcc@11.3.0+openssl build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/jmoh6b5 +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis "The libevent API provides a mechanism to execute a callback function when a specific event occurs on a file descriptor or after a timeout has been reached. Furthermore, libevent also support callbacks due to signals or regular timeouts." + +proc ModulesHelp { } { + puts stderr "Name : libevent" + puts stderr "Version: 2.1.12" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "The libevent API provides a mechanism to execute a callback function" + puts stderr "when a specific event occurs on a file descriptor or after a timeout has" + puts stderr "been reached. Furthermore, libevent also support callbacks due to" + puts stderr "signals or regular timeouts." +} + +conflict libevent + +prepend-path --delim ":" CPATH "/share/apps/22.04/manual/libevent/2.1.12-stable/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/manual/libevent/2.1.12-stable/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/manual/libevent/2.1.12-stable/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/manual/libevent/2.1.12-stable/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/manual/libevent/2.1.12-stable/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/manual/libevent/2.1.12-stable/bin" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/manual/libevent/2.1.12-stable/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/manual/libevent/2.1.12-stable/." +setenv LIBEVENT_ROOT "/share/apps/22.04/manual/libevent/2.1.12-stable" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/librsvg/2.51.0 b/modulefiles/hpccf/peloton/tcl/librsvg/2.51.0 new file mode 100644 index 00000000..d1f3766b --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/librsvg/2.51.0 @@ -0,0 +1,45 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:25.005344 +## +## librsvg@2.51.0%gcc@11.3.0~doc build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/qzbtkyh +## +## Configure options: --disable-gtk-doc GTKDOC_MKPDF=/bin/true GTKDOC_REBASE=/bin/true GTKDOC_CHECK_PATH=/bin/true +## + + +module-whatis "Library to render SVG files using Cairo" + +proc ModulesHelp { } { + puts stderr "Name : librsvg" + puts stderr "Version: 2.51.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Library to render SVG files using Cairo" +} + +conflict librsvg + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/librsvg-2.51.0-qzbtkyhkwwv4uat2rhs3nd7zstv37xci/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/librsvg-2.51.0-qzbtkyhkwwv4uat2rhs3nd7zstv37xci/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/librsvg-2.51.0-qzbtkyhkwwv4uat2rhs3nd7zstv37xci/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/librsvg-2.51.0-qzbtkyhkwwv4uat2rhs3nd7zstv37xci/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/librsvg-2.51.0-qzbtkyhkwwv4uat2rhs3nd7zstv37xci/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/librsvg-2.51.0-qzbtkyhkwwv4uat2rhs3nd7zstv37xci/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/librsvg-2.51.0-qzbtkyhkwwv4uat2rhs3nd7zstv37xci/share/man" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/librsvg-2.51.0-qzbtkyhkwwv4uat2rhs3nd7zstv37xci/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/librsvg-2.51.0-qzbtkyhkwwv4uat2rhs3nd7zstv37xci/." +prepend-path --delim ":" XLOCALEDIR "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libx11-1.8.4-elhqje4pmr6c4jp256hrfear2cp45szn/share/X11/locale" +prepend-path --delim ":" XDG_DATA_DIRS "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gobject-introspection-1.72.1-nu356my5vhotbyf4w2nfliyqilhq7edi/share" +prepend-path --delim ":" GI_TYPELIB_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gobject-introspection-1.72.1-nu356my5vhotbyf4w2nfliyqilhq7edi/lib/girepository-1.0" +prepend-path --delim ":" XDG_DATA_DIRS "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/shared-mime-info-1.10-nirlzdw5a4soupmbu3eq7hgqbtkd73pv/share" +prepend-path --delim ":" XDG_DATA_DIRS "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gdk-pixbuf-2.42.10-mt6emdf3o65evljg5it3zpoub33tsh6c/share" +prepend-path --delim ":" GI_TYPELIB_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gdk-pixbuf-2.42.10-mt6emdf3o65evljg5it3zpoub33tsh6c/lib/girepository-1.0" +prepend-path --delim ":" XDG_DATA_DIRS "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/harfbuzz-5.3.1-qyvpfb7knng7m4hxr5id3jvtluoqxeoj/share" +prepend-path --delim ":" GI_TYPELIB_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/harfbuzz-5.3.1-qyvpfb7knng7m4hxr5id3jvtluoqxeoj/lib/girepository-1.0" +prepend-path --delim ":" XDG_DATA_DIRS "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/pango-1.50.13-xyculs47or3ygkdcemaibdyrmvkab3gf/share" +prepend-path --delim ":" GI_TYPELIB_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/pango-1.50.13-xyculs47or3ygkdcemaibdyrmvkab3gf/lib/girepository-1.0" +prepend-path --delim ":" XDG_DATA_DIRS "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/librsvg-2.51.0-qzbtkyhkwwv4uat2rhs3nd7zstv37xci/share" +setenv LIBRSVG_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/librsvg-2.51.0-qzbtkyhkwwv4uat2rhs3nd7zstv37xci" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/libsvm/323 b/modulefiles/hpccf/peloton/tcl/libsvm/323 new file mode 100644 index 00000000..ca552eda --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/libsvm/323 @@ -0,0 +1,28 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:25.304150 +## +## libsvm@323%gcc@11.3.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v2/677gox5 +## + + +module-whatis "Libsvm is a simple, easy-to-use, and efficient software for SVM classification and regression." + +proc ModulesHelp { } { + puts stderr "Name : libsvm" + puts stderr "Version: 323" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Libsvm is a simple, easy-to-use, and efficient software for SVM" + puts stderr "classification and regression." +} + +conflict libsvm + +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libsvm-323-677gox55r2iaylyfr2sjpjsgdjfmzwae/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libsvm-323-677gox55r2iaylyfr2sjpjsgdjfmzwae/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libsvm-323-677gox55r2iaylyfr2sjpjsgdjfmzwae/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libsvm-323-677gox55r2iaylyfr2sjpjsgdjfmzwae/." +setenv LIBSVM_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libsvm-323-677gox55r2iaylyfr2sjpjsgdjfmzwae" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/libszip/2.1.1 b/modulefiles/hpccf/peloton/tcl/libszip/2.1.1 new file mode 100644 index 00000000..f9960fe8 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/libszip/2.1.1 @@ -0,0 +1,33 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:25.324459 +## +## libszip@2.1.1%gcc@11.3.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/zsteyuj +## +## Configure options: --enable-production --enable-shared --enable-static --enable-encoding +## + + +module-whatis "Szip is an implementation of the extended-Rice lossless compression algorithm." + +proc ModulesHelp { } { + puts stderr "Name : libszip" + puts stderr "Version: 2.1.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Szip is an implementation of the extended-Rice lossless compression" + puts stderr "algorithm. It provides lossless compression of scientific data, and is" + puts stderr "provided with HDF software products." +} + +conflict libszip + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libszip-2.1.1-zsteyujess2r7spjnbmocscgno77u22r/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libszip-2.1.1-zsteyujess2r7spjnbmocscgno77u22r/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libszip-2.1.1-zsteyujess2r7spjnbmocscgno77u22r/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libszip-2.1.1-zsteyujess2r7spjnbmocscgno77u22r/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libszip-2.1.1-zsteyujess2r7spjnbmocscgno77u22r/lib" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libszip-2.1.1-zsteyujess2r7spjnbmocscgno77u22r/." +setenv LIBSZIP_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libszip-2.1.1-zsteyujess2r7spjnbmocscgno77u22r" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/libxc/6.1.0 b/modulefiles/hpccf/peloton/tcl/libxc/6.1.0 new file mode 100644 index 00000000..5c133605 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/libxc/6.1.0 @@ -0,0 +1,34 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:25.346803 +## +## libxc@6.1.0%gcc@11.3.0~cuda+shared build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/7pt6zsh +## +## Configure options: --enable-shared --disable-cuda +## + + +module-whatis "Libxc is a library of exchange-correlation functionals for density-functional theory." + +proc ModulesHelp { } { + puts stderr "Name : libxc" + puts stderr "Version: 6.1.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Libxc is a library of exchange-correlation functionals for density-" + puts stderr "functional theory." +} + +conflict libxc + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libxc-6.1.0-7pt6zshdcve2siz4wk3nk3vqasx7zey6/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libxc-6.1.0-7pt6zshdcve2siz4wk3nk3vqasx7zey6/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libxc-6.1.0-7pt6zshdcve2siz4wk3nk3vqasx7zey6/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libxc-6.1.0-7pt6zshdcve2siz4wk3nk3vqasx7zey6/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libxc-6.1.0-7pt6zshdcve2siz4wk3nk3vqasx7zey6/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libxc-6.1.0-7pt6zshdcve2siz4wk3nk3vqasx7zey6/bin" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libxc-6.1.0-7pt6zshdcve2siz4wk3nk3vqasx7zey6/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libxc-6.1.0-7pt6zshdcve2siz4wk3nk3vqasx7zey6/." +setenv LIBXC_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libxc-6.1.0-7pt6zshdcve2siz4wk3nk3vqasx7zey6" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/mafft/7.505 b/modulefiles/hpccf/peloton/tcl/mafft/7.505 new file mode 100644 index 00000000..d7f6db82 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/mafft/7.505 @@ -0,0 +1,29 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:25.388545 +## +## mafft@7.505%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/rwqyw7j +## + + +module-whatis "MAFFT is a multiple sequence alignment program for unix-like operating systems. It offers a range of multiple alignment methods, L-INS-i (accurate; for alignment of <~200 sequences), FFT-NS-2 (fast; for alignment of <~30,000 sequences), etc." + +proc ModulesHelp { } { + puts stderr "Name : mafft" + puts stderr "Version: 7.505" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "MAFFT is a multiple sequence alignment program for unix-like operating" + puts stderr "systems. It offers a range of multiple alignment methods, L-INS-i" + puts stderr "(accurate; for alignment of <~200 sequences), FFT-NS-2 (fast; for" + puts stderr "alignment of <~30,000 sequences), etc." +} + +conflict mafft + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mafft-7.505-rwqyw7jolufalygtnvgh6pusdqfcdz2d/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mafft-7.505-rwqyw7jolufalygtnvgh6pusdqfcdz2d/share/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mafft-7.505-rwqyw7jolufalygtnvgh6pusdqfcdz2d/." +setenv MAFFT_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mafft-7.505-rwqyw7jolufalygtnvgh6pusdqfcdz2d" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/maker/3.01.04 b/modulefiles/hpccf/peloton/tcl/maker/3.01.04 new file mode 100644 index 00000000..0f81ffa3 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/maker/3.01.04 @@ -0,0 +1,54 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-09-14 16:05:46.320375 +## +## maker@3.01.04%gcc@11.3.0+mpi build_system=generic patches=4e875dd,77bd88b,92e6c02 arch=linux-ubuntu22.04-x86_64_v2/dxxzisb +## + + +module-whatis "MAKER is a portable and easily configurable genome annotation pipeline. It's purpose is to allow smaller eukaryotic and prokaryotic genomeprojects to independently annotate their genomes and to create genome databases. MAKER identifies repeats, aligns ESTs and proteins to a genome, produces ab-initio gene predictions and automatically synthesizes these data into gene annotations having evidence-based quality values. MAKER is also easily trainable: outputs of preliminary runs can be used to automatically retrain its gene prediction algorithm, producing higher quality gene-models on subsequent runs. MAKER's inputs are minimal and its ouputs can be directly loaded into a GMOD database. They can also be viewed in the Apollo genome browser; this feature of MAKER provides an easy means to annotate, view and edit individual contigs and BACs without the overhead of a database. MAKER should prove especially useful for emerging model organism projects with minimal bioinformatics expertise and computer resources." + +proc ModulesHelp { } { + puts stderr "Name : maker" + puts stderr "Version: 3.01.04" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "MAKER is a portable and easily configurable genome annotation pipeline." + puts stderr "It's purpose is to allow smaller eukaryotic and prokaryotic" + puts stderr "genomeprojects to independently annotate their genomes and to create" + puts stderr "genome databases. MAKER identifies repeats, aligns ESTs and proteins to" + puts stderr "a genome, produces ab-initio gene predictions and automatically" + puts stderr "synthesizes these data into gene annotations having evidence-based" + puts stderr "quality values. MAKER is also easily trainable: outputs of preliminary" + puts stderr "runs can be used to automatically retrain its gene prediction algorithm," + puts stderr "producing higher quality gene-models on subsequent runs. MAKER's inputs" + puts stderr "are minimal and its ouputs can be directly loaded into a GMOD database." + puts stderr "They can also be viewed in the Apollo genome browser; this feature of" + puts stderr "MAKER provides an easy means to annotate, view and edit individual" + puts stderr "contigs and BACs without the overhead of a database. MAKER should prove" + puts stderr "especially useful for emerging model organism projects with minimal" + puts stderr "bioinformatics expertise and computer resources. Note: MAKER requires" + puts stderr "registration. Fill out the form at" + puts stderr "http://yandell.topaz.genetics.utah.edu/cgi-bin/maker_license.cgi to get" + puts stderr "a download link. Spack will search your current directory for the" + puts stderr "download file. Alternatively, add this file to a mirror so that Spack" + puts stderr "can find it. For instructions on how to set up a mirror, see" + puts stderr "https://spack.readthedocs.io/en/latest/mirrors.html" +} + +module load augustus/3.5.0 +module load openmpi/4.1.5 +module load snap-korf/2021-11-04 +prereq augustus/3.5.0 +prereq openmpi/4.1.5 +prereq snap-korf/2021-11-04 +conflict maker + +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/maker-3.01.04-dxxzisbv6uynvfw4b756ph3y77ona34f/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/maker-3.01.04-dxxzisbv6uynvfw4b756ph3y77ona34f/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/maker-3.01.04-dxxzisbv6uynvfw4b756ph3y77ona34f/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/maker-3.01.04-dxxzisbv6uynvfw4b756ph3y77ona34f/." +prepend-path --delim ":" PERL5LIB "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-bioperl-1.7.6-bqqwhzbw4okaiqivhvpzftsdztgs6afl/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-data-stag-0.14-itfpofvjnhda5w5trruyfjb4abuksrs4/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-io-string-1.08-xinf5rluu7q7j6vcuqgec2zloqrtxhrw/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-error-0.17029-kaizbkgkkkkbj2kznfafd56j46vqhlwt/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-graph-0.20105-5m35m6jesnwo5jvhnyojhuqllghwcvtf/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-http-message-6.44-qvxsc3v24pjxs6vvwcy3u2jb6fscttke/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-encode-locale-1.05-mxiobwxfd5xvcdri3e7rfbmx7z7k4k5z/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-http-date-6.02-wltb47srrbo6r5uxfel5mkgc7sdauypv/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-io-html-1.004-cqqsjjhzzds5igmu5tqha4fgkch45jnj/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-lwp-mediatypes-6.02-m5jzn3jnbips3cwcdkxfnym3xfxwnlle/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-try-tiny-0.31-432e3zpsxdhmrfcx4avstmyhdofr4wgo/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-uri-5.08-zlzdyl42tjgezd6shdnwzjzyhaosh3dy/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-io-stringy-2.111-wbqku5x4klant34rlfkruew2swwlamis/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-ipc-run-20220807.0-ngpivfgfphfqz2lsnrtzndqneumomstn/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-io-tty-1.17-hpbk7mxshepzmaxp3v47cjvkk62h2sdo/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-libwww-perl-6.68-cxsga2h74zm4a5idjp7zdvkzoh6lycud/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-file-listing-6.04-3nvsbodmuptrelw6pl43laj6ehbgv63w/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-html-parser-3.72-5iwkgb7f4iqq5sw3kbbcxj4jz4pizrvw/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-html-tagset-3.20-3dflz3kwiysncjmaf5stokozbku4hb4y/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-http-cookies-6.10-5jl6lpkjnytfflks274vvjhhacvb55vd/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-http-daemon-6.01-lvbvmoalpkd5uyo4vwwqfk3ikztkaun3/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-http-negotiate-6.01-o2fa7ty2oqjfoilnb24cf4fhnsnulunk/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-net-http-6.22-cepw4mdkypylj5hxvapyd33b4fq6mhii/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-www-robotrules-6.02-k4csvpikgonelbs5grhekqlqb77wq3fb/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-libxml-perl-0.08-fbxz7qguwymrwdbx3hjshwogbviiihqy/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-list-moreutils-0.430-mdc472j2vx7p7uvt3umcxfvzpfhqqmik/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-exporter-tiny-1.006002-4zqn5jwmxwhvgehp3cq42nsol635h7um/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-list-moreutils-xs-0.430-hjt25ottegq5pwrncrqqsv3lfswsmajw/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-module-build-0.4232-lv7hb6vdylfgs2gqxai3ymkuzdqbpmbj/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-set-scalar-1.29-zj3odpdrspb4vbxjkhnymypon24am7fv/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-test-most-0.38-tealnmjhaxqxm6ycpl4aijrlzgjaodbs/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-exception-class-1.45-nubcsxyodvtzhy5ri23u4zmazlch77ny/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-class-data-inheritable-0.08-ddsz5tj6ieqck3kvmenjnjwihnutxc6x/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-devel-stacktrace-2.04-aojfkj4haitnhphbpykietoopvy4rihy/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-test-deep-1.204-6zasscvzcsim4vascshadms3vdtpxguh/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-test-differences-0.69-x5yf23s3iby3hfwlkc5jv4tx7qejqf2v/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-capture-tiny-0.48-7rif5bdz277yimxomgyh56m5mi2yy43i/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-text-diff-1.45-hzbujfepge6544w36in3glk3zqzncjee/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-algorithm-diff-1.1903-y5ppdnxwtcruytclo5k737k4xoxew6jj/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-test-exception-0.43-fhitw573dflayytby2hpe4zaywb63cea/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-sub-uplevel-0.2800-urby72o2tnpyfzotytnrydihgt3zajjp/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-test-warn-0.30-qvc6iruf7burzbvmetoftl7dickkbbrg/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-test-requiresinternet-0.05-2fpkzuywph5zrvbpdoqrclxi4k2h576q/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-dom-1.46-27tukuwgj3inm3e7qgxnazgohe3comxs/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-parser-2.46-4awbqjkjk2gk3hhvmivhfdxq3uvjqtte/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-regexp-0.04-s4gzikww5nnzhacs5hj4wuekpl2ncqyw/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-dom-xpath-0.14-5meaxm4dwbawe6bwyajipje54hjre62o/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-xpathengine-0.14-ontoidt2fq3lfkgrodyb2aipdzxhomx6/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-libxml-2.0201-b6rbdba7wfcigkhkwr6ageauljra2sr2/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-namespacesupport-1.12_9-kwxyncoa6t6lgwyvobq3fs4tofwhwicw/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-sax-1.02-eta5s4lheqym6dpkbr3f7s2ug2tdle4b/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-sax-base-1.09-dntf6w6dfyi2k64vnxkshkydygldnb5q/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-sax-writer-0.57-fnvamofqlwekhhjfqwv7pwbes7ci5zzt/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-filter-buffertext-1.01-igvlfqa4xasofgslxcd6d7w5jmgdx3cr/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-twig-3.52-ijz72lswdrbkoywcfrps7pdzcalrvoal/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-writer-0.900-r4vw4irlb7bldfhgqptjv7popz62flvc/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-yaml-1.30-gsmre7nabbj2xozgsusznl64eige5de5/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-bit-vector-7.4-pjurxxv5zwm6haptumk3gjkibjo4juph/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-carp-clan-6.06-fmkmh3uabajtcdj6gucly5bp346zlci3/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-dbd-pg-3.16.1-7eisz4epek7mx6yip4c4f42y2zj33jeg/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-dbi-1.643-4ft6k7f2wtzjiack2qx3pvc5w77hmfem/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-dbd-sqlite-1.72-3n7affliusm7m7fc2cos2jijhmyckm7g/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-file-which-1.27-efmpgsyek4jwmas6n5rqwna7i6t3jt3x/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-forks-0.36-dhlzxtlykz4g72b237t3u3p3zv4wz2hb/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-acme-damn-0.08-j3wnnbrag6jp2ddv2qwxiaoj3zblubk6/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-devel-symdump-2.0604-wveh4um3uvhhrhw4rnjcu4yrp5sihcfm/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-sys-sigaction-0.23-psulljknqw3gkhbsgm6zti5pvyg4fjdr/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-inline-c-0.81-a3er7xcpveeq63btbx2epuymd2avcsrc/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-file-copy-recursive-0.45-hq7tyhukl5xqokfjc6go6mnbjlqpox74/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-inline-0.86-ze2wlojxhnmronzcojxs6yzzguqep7od/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-parse-recdescent-1.967015-ktuavs57qywrrnrvt3b3fg4mtgvkkbrz/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-pegex-0.75-idgpuwwllu767swv5pguxxpat4daamro/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-file-sharedir-install-0.14-glc2v5oarwvpmiiwgwgchqog6kwdn22q/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-yaml-libyaml-0.84-7athonykkobdtxczuzohpboo2ikjbv3x/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-io-all-0.87-cjic3bhtw4ju7deybx7oi7ex7xz7vkuv/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-io-prompt-0.997004-2a2uz4466upnyqusdjgv6liddj3swlbv/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-termreadkey-2.38-pgapvkq6fejctydc5owslyr4rzey42ol/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-want-0.29-6urkesxzhybfgmhndr56r62dtjmibose/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-perl-unsafe-signals-0.03-ag5tkmenacdgmpaejqfwblu7zcby5aox/lib/perl5" +setenv MAKER_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/maker-3.01.04-dxxzisbv6uynvfw4b756ph3y77ona34f" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/mark/2023-04-10 b/modulefiles/hpccf/peloton/tcl/mark/2023-04-10 new file mode 100644 index 00000000..72d58154 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/mark/2023-04-10 @@ -0,0 +1,27 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:25.411052 +## +## mark@2023-04-10%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/rrd5gko +## + + +module-whatis "Program MARK, developed and maintained by Gary White (Colorado State University) is the most flexible, widely used application currently available for parameter estimation using data from marked individuals." + +proc ModulesHelp { } { + puts stderr "Name : mark" + puts stderr "Version: 2023-04-10" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Program MARK, developed and maintained by Gary White (Colorado State" + puts stderr "University) is the most flexible, widely used application currently" + puts stderr "available for parameter estimation using data from marked individuals." +} + +conflict mark + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mark-2023-04-10-rrd5gkol2vz77ebs45inat2qz33tvsee/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mark-2023-04-10-rrd5gkol2vz77ebs45inat2qz33tvsee/." +setenv MARK_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mark-2023-04-10-rrd5gkol2vz77ebs45inat2qz33tvsee" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/mash/2.3 b/modulefiles/hpccf/peloton/tcl/mash/2.3 new file mode 100644 index 00000000..80f385da --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/mash/2.3 @@ -0,0 +1,33 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:25.433804 +## +## mash@2.3%gcc@11.3.0 build_system=autotools patches=3e6d6ee arch=linux-ubuntu22.04-x86_64_v2/wydsvan +## +## Configure options: --with-capnp=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/capnproto-0.10.2-p5mw2o42lwtf5viwh4oln2ixmfomdgmt --with-gsl=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gsl-2.7.1-7z5dz5cle3byaeyf4uvq6x3biakagq2b +## + + +module-whatis " Fast genome and metagenome distance estimation using MinHash. " + +proc ModulesHelp { } { + puts stderr "Name : mash" + puts stderr "Version: 2.3" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr " Fast genome and metagenome distance estimation using MinHash." +} + +conflict mash + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mash-2.3-wydsvanz2vae47ez2guv2wlijornykwn/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mash-2.3-wydsvanz2vae47ez2guv2wlijornykwn/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mash-2.3-wydsvanz2vae47ez2guv2wlijornykwn/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mash-2.3-wydsvanz2vae47ez2guv2wlijornykwn/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mash-2.3-wydsvanz2vae47ez2guv2wlijornykwn/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mash-2.3-wydsvanz2vae47ez2guv2wlijornykwn/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mash-2.3-wydsvanz2vae47ez2guv2wlijornykwn/share/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mash-2.3-wydsvanz2vae47ez2guv2wlijornykwn/." +setenv MASH_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mash-2.3-wydsvanz2vae47ez2guv2wlijornykwn" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/masurca/4.1.0 b/modulefiles/hpccf/peloton/tcl/masurca/4.1.0 new file mode 100644 index 00000000..fd8b9f62 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/masurca/4.1.0 @@ -0,0 +1,33 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:25.520013 +## +## masurca@4.1.0%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/wvg2por +## + + +module-whatis "MaSuRCA is whole genome assembly software. It combines the efficiency of the de Bruijn graph and Overlap-Layout-Consensus (OLC) approaches." + +proc ModulesHelp { } { + puts stderr "Name : masurca" + puts stderr "Version: 4.1.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "MaSuRCA is whole genome assembly software. It combines the efficiency of" + puts stderr "the de Bruijn graph and Overlap-Layout-Consensus (OLC) approaches." +} + +conflict masurca + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/masurca-4.1.0-wvg2por5up6dmhdrewgy4zi2dzlbqkcx/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/masurca-4.1.0-wvg2por5up6dmhdrewgy4zi2dzlbqkcx/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/masurca-4.1.0-wvg2por5up6dmhdrewgy4zi2dzlbqkcx/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/masurca-4.1.0-wvg2por5up6dmhdrewgy4zi2dzlbqkcx/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/masurca-4.1.0-wvg2por5up6dmhdrewgy4zi2dzlbqkcx/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/masurca-4.1.0-wvg2por5up6dmhdrewgy4zi2dzlbqkcx/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/masurca-4.1.0-wvg2por5up6dmhdrewgy4zi2dzlbqkcx/share/man" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/masurca-4.1.0-wvg2por5up6dmhdrewgy4zi2dzlbqkcx/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/masurca-4.1.0-wvg2por5up6dmhdrewgy4zi2dzlbqkcx/." +setenv MASURCA_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/masurca-4.1.0-wvg2por5up6dmhdrewgy4zi2dzlbqkcx" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/maven/3.8.4 b/modulefiles/hpccf/peloton/tcl/maven/3.8.4 new file mode 100644 index 00000000..e139e18d --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/maven/3.8.4 @@ -0,0 +1,27 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:25.588954 +## +## maven@3.8.4%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/yq6f6zt +## + + +module-whatis "Apache Maven is a software project management and comprehension tool." + +proc ModulesHelp { } { + puts stderr "Name : maven" + puts stderr "Version: 3.8.4" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Apache Maven is a software project management and comprehension tool." +} + +conflict maven + +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/maven-3.8.4-yq6f6ztzjk5knxmpcr62hjiul2qm6ef4/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/maven-3.8.4-yq6f6ztzjk5knxmpcr62hjiul2qm6ef4/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/maven-3.8.4-yq6f6ztzjk5knxmpcr62hjiul2qm6ef4/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/maven-3.8.4-yq6f6ztzjk5knxmpcr62hjiul2qm6ef4/." +setenv MAVEN_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/maven-3.8.4-yq6f6ztzjk5knxmpcr62hjiul2qm6ef4" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/mcl/14-137 b/modulefiles/hpccf/peloton/tcl/mcl/14-137 new file mode 100644 index 00000000..e882e0e2 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/mcl/14-137 @@ -0,0 +1,28 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:25.640032 +## +## mcl@14-137%gcc@11.3.0~blast build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/wju4wvr +## + + +module-whatis "The MCL algorithm is short for the Markov Cluster Algorithm, a fast and scalable unsupervised cluster algorithm for graphs (also known as networks) based on simulation of (stochastic) flow in graphs." + +proc ModulesHelp { } { + puts stderr "Name : mcl" + puts stderr "Version: 14-137" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "The MCL algorithm is short for the Markov Cluster Algorithm, a fast and" + puts stderr "scalable unsupervised cluster algorithm for graphs (also known as" + puts stderr "networks) based on simulation of (stochastic) flow in graphs." +} + +conflict mcl + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mcl-14-137-wju4wvr63phpyoa2fgbedubydecf3sjf/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mcl-14-137-wju4wvr63phpyoa2fgbedubydecf3sjf/share/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mcl-14-137-wju4wvr63phpyoa2fgbedubydecf3sjf/." +setenv MCL_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mcl-14-137-wju4wvr63phpyoa2fgbedubydecf3sjf" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/megahit/1.1.4 b/modulefiles/hpccf/peloton/tcl/megahit/1.1.4 new file mode 100644 index 00000000..eba90ff2 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/megahit/1.1.4 @@ -0,0 +1,26 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:25.664552 +## +## megahit@1.1.4%gcc@7.5.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v2/xwluiz2 +## + + +module-whatis "MEGAHIT: An ultra-fast single-node solution for large and complex metagenomics assembly via succinct de Bruijn graph" + +proc ModulesHelp { } { + puts stderr "Name : megahit" + puts stderr "Version: 1.1.4" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "MEGAHIT: An ultra-fast single-node solution for large and complex" + puts stderr "metagenomics assembly via succinct de Bruijn graph" +} + +conflict megahit + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-7.5.0/megahit-1.1.4-xwluiz2er3d6xtdx3v2fjbwyna65jg7g/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-7.5.0/megahit-1.1.4-xwluiz2er3d6xtdx3v2fjbwyna65jg7g/." +setenv MEGAHIT_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-7.5.0/megahit-1.1.4-xwluiz2er3d6xtdx3v2fjbwyna65jg7g" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/metaeuk/6-a5d39d9 b/modulefiles/hpccf/peloton/tcl/metaeuk/6-a5d39d9 new file mode 100644 index 00000000..2480246d --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/metaeuk/6-a5d39d9 @@ -0,0 +1,26 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:25.688827 +## +## metaeuk@6-a5d39d9%gcc@11.3.0~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v2/tmp42as +## + + +module-whatis "MetaEuk is a modular toolkit designed for large-scale gene discovery and annotation in eukaryotic metagenomic contigs. " + +proc ModulesHelp { } { + puts stderr "Name : metaeuk" + puts stderr "Version: 6-a5d39d9" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "MetaEuk is a modular toolkit designed for large-scale gene discovery and" + puts stderr "annotation in eukaryotic metagenomic contigs." +} + +conflict metaeuk + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/metaeuk-6-a5d39d9-tmp42as3opbxoarwmnbjyba7p4m3nzqr/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/metaeuk-6-a5d39d9-tmp42as3opbxoarwmnbjyba7p4m3nzqr/." +setenv METAEUK_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/metaeuk-6-a5d39d9-tmp42as3opbxoarwmnbjyba7p4m3nzqr" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/minced/0.4.2 b/modulefiles/hpccf/peloton/tcl/minced/0.4.2 new file mode 100644 index 00000000..6d1945b6 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/minced/0.4.2 @@ -0,0 +1,28 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:25.755357 +## +## minced@0.4.2%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/6l7ozkf +## + + +module-whatis "MinCED is a program to find Clustered Regularly Interspaced Short Palindromic Repeats (CRISPRs) in full genomes or environmental datasets such as metagenomes, in which sequence size can be anywhere from 100 to 800 bp." + +proc ModulesHelp { } { + puts stderr "Name : minced" + puts stderr "Version: 0.4.2" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "MinCED is a program to find Clustered Regularly Interspaced Short" + puts stderr "Palindromic Repeats (CRISPRs) in full genomes or environmental datasets" + puts stderr "such as metagenomes, in which sequence size can be anywhere from 100 to" + puts stderr "800 bp." +} + +conflict minced + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/minced-0.4.2-6l7ozkfnztgk2qvvftwqhqc5imr74pia/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/minced-0.4.2-6l7ozkfnztgk2qvvftwqhqc5imr74pia/." +setenv MINCED_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/minced-0.4.2-6l7ozkfnztgk2qvvftwqhqc5imr74pia" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/miniasm/2018-3-30 b/modulefiles/hpccf/peloton/tcl/miniasm/2018-3-30 new file mode 100644 index 00000000..e461ddcb --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/miniasm/2018-3-30 @@ -0,0 +1,25 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:25.798604 +## +## miniasm@2018-3-30%gcc@11.3.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v2/iqobkf5 +## + + +module-whatis "Miniasm is a very fast OLC-based de novo assembler for noisy long reads." + +proc ModulesHelp { } { + puts stderr "Name : miniasm" + puts stderr "Version: 2018-3-30" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Miniasm is a very fast OLC-based de novo assembler for noisy long reads." +} + +conflict miniasm + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/miniasm-2018-3-30-iqobkf5wpr7yp3uhwqxcbviukqm2zsmo/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/miniasm-2018-3-30-iqobkf5wpr7yp3uhwqxcbviukqm2zsmo/." +setenv MINIASM_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/miniasm-2018-3-30-iqobkf5wpr7yp3uhwqxcbviukqm2zsmo" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/minimap2/2.14 b/modulefiles/hpccf/peloton/tcl/minimap2/2.14 new file mode 100644 index 00000000..0389cc35 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/minimap2/2.14 @@ -0,0 +1,32 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-09-15 12:06:18.592589 +## +## minimap2@2.14%gcc@11.3.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v2/dixx3xs +## + + +module-whatis "Minimap2 is a versatile sequence alignment program that aligns DNA or mRNA sequences against a large reference database. Mappy provides a convenient interface to minimap2." + +proc ModulesHelp { } { + puts stderr "Name : minimap2" + puts stderr "Version: 2.14" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Minimap2 is a versatile sequence alignment program that aligns DNA or" + puts stderr "mRNA sequences against a large reference database. Mappy provides a" + puts stderr "convenient interface to minimap2." +} + +module load zlib/1.2.13 +prereq zlib/1.2.13 +conflict minimap2 + +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/minimap2-2.14-dixx3xsvo5ruiffedzktry4632plx2vz/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/minimap2-2.14-dixx3xsvo5ruiffedzktry4632plx2vz/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/minimap2-2.14-dixx3xsvo5ruiffedzktry4632plx2vz/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/minimap2-2.14-dixx3xsvo5ruiffedzktry4632plx2vz/." +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/minimap2-2.14-dixx3xsvo5ruiffedzktry4632plx2vz/lib/python3.10/site-packages" +setenv MINIMAP2_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/minimap2-2.14-dixx3xsvo5ruiffedzktry4632plx2vz" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/minimap2/2.26 b/modulefiles/hpccf/peloton/tcl/minimap2/2.26 new file mode 100644 index 00000000..3af49721 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/minimap2/2.26 @@ -0,0 +1,32 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-09-15 12:06:19.047021 +## +## minimap2@2.26%gcc@11.3.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v2/lawoexu +## + + +module-whatis "Minimap2 is a versatile sequence alignment program that aligns DNA or mRNA sequences against a large reference database. Mappy provides a convenient interface to minimap2." + +proc ModulesHelp { } { + puts stderr "Name : minimap2" + puts stderr "Version: 2.26" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Minimap2 is a versatile sequence alignment program that aligns DNA or" + puts stderr "mRNA sequences against a large reference database. Mappy provides a" + puts stderr "convenient interface to minimap2." +} + +module load zlib/1.2.13 +prereq zlib/1.2.13 +conflict minimap2 + +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/minimap2-2.26-lawoexuya6js6oiydsboikjjx66baaku/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/minimap2-2.26-lawoexuya6js6oiydsboikjjx66baaku/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/minimap2-2.26-lawoexuya6js6oiydsboikjjx66baaku/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/minimap2-2.26-lawoexuya6js6oiydsboikjjx66baaku/." +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/minimap2-2.26-lawoexuya6js6oiydsboikjjx66baaku/lib/python3.10/site-packages" +setenv MINIMAP2_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/minimap2-2.26-lawoexuya6js6oiydsboikjjx66baaku" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/mirdeep2/0.0.8 b/modulefiles/hpccf/peloton/tcl/mirdeep2/0.0.8 new file mode 100644 index 00000000..329ffb48 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/mirdeep2/0.0.8 @@ -0,0 +1,29 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:26.045533 +## +## mirdeep2@0.0.8%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/4ar2uar +## + + +module-whatis "miRDeep2 is a completely overhauled tool which discovers microRNA genes by analyzing sequenced RNAs." + +proc ModulesHelp { } { + puts stderr "Name : mirdeep2" + puts stderr "Version: 0.0.8" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "miRDeep2 is a completely overhauled tool which discovers microRNA genes" + puts stderr "by analyzing sequenced RNAs." +} + +module load bowtie/1.3.1 +prereq bowtie/1.3.1 +conflict mirdeep2 + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mirdeep2-0.0.8-4ar2uarx5u324ng5leun3fwtpl2cf7ai/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mirdeep2-0.0.8-4ar2uarx5u324ng5leun3fwtpl2cf7ai/." +prepend-path --delim ":" PERL5LIB "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-pdf-api2-2.044-cbqi5xfyggc5qmzexlant7dkzrzns5kd/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-font-ttf-1.06-iw4gaimur4zgp742sejdcgkhqx5xosbl/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-test-exception-0.43-4nwuxhcxzhhn2yk3aj3ynjswvpyvhjy7/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-sub-uplevel-0.2800-jss357ct2ifo6fobdh4ec3su33mixbh7/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-test-memory-cycle-1.06-eysie33emybilbscor7b5dbfwgsqqmny/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-devel-cycle-1.12-ukabnaq2meo5puvsntmsaa4khnr3znzk/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-padwalker-2.5-ktvckewczzerpx3o7fbqlujencqkujl7/lib/perl5" +setenv MIRDEEP2_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mirdeep2-0.0.8-4ar2uarx5u324ng5leun3fwtpl2cf7ai" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/mmseqs2/14-7e284 b/modulefiles/hpccf/peloton/tcl/mmseqs2/14-7e284 new file mode 100644 index 00000000..320b5527 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/mmseqs2/14-7e284 @@ -0,0 +1,28 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:26.245486 +## +## mmseqs2@14-7e284%gcc@11.3.0~ipo~mpi~openmp build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v2/xfj5m6f +## +## Configure options: -DVERSION_OVERRIDE=14-7e284 -DUSE_SYSTEM_ZSTD=1 -DREQUIRE_OPENMP=0 -DHAVE_MPI=0 +## + + +module-whatis "MMseqs2 (Many-against-Many sequence searching) is a software suite to search and cluster huge protein and nucleotide sequence sets" + +proc ModulesHelp { } { + puts stderr "Name : mmseqs2" + puts stderr "Version: 14-7e284" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "MMseqs2 (Many-against-Many sequence searching) is a software suite to" + puts stderr "search and cluster huge protein and nucleotide sequence sets" +} + +conflict mmseqs2 + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mmseqs2-14-7e284-xfj5m6fiyqsztge3kwrtbv3kjm3oojnz/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mmseqs2-14-7e284-xfj5m6fiyqsztge3kwrtbv3kjm3oojnz/." +setenv MMSEQS2_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mmseqs2-14-7e284-xfj5m6fiyqsztge3kwrtbv3kjm3oojnz" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/module-index.yaml b/modulefiles/hpccf/peloton/tcl/module-index.yaml new file mode 100644 index 00000000..a00c9c67 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/module-index.yaml @@ -0,0 +1,1030 @@ +module_index: + obavyvnrq6gsfe6qlnvoltzyyc77wd6u: + path: /share/apps/22.04/modulefiles/spack/tcl/abyss/2.3.5 + use_name: abyss/2.3.5 + tdfl776tjelozp4ejdtcblpyieravo5q: + path: /share/apps/22.04/modulefiles/spack/tcl/amdfftw/3.2+amd + use_name: amdfftw/3.2+amd + xe5hgpk3h2kyyqybvyvx5653dspjk55y: + path: /share/apps/22.04/modulefiles/spack/tcl/aragorn/1.2.41 + use_name: aragorn/1.2.41 + 3nbosab6kinjix5byuknci6m4iwdkr7a: + path: /share/apps/22.04/modulefiles/spack/tcl/aria2/1.36.0 + use_name: aria2/1.36.0 + pbcdmfmnjhx3bmlwtglhgrayazs2k2zo: + path: /share/apps/22.04/modulefiles/spack/tcl/aspera-cli/3.7.7 + use_name: aspera-cli/3.7.7 + cepb73kjwaewkrok6mzxxs2j6a4r5q2t: + path: /share/apps/22.04/modulefiles/spack/tcl/awscli/1.27.84 + use_name: awscli/1.27.84 + p3bn2rd3mlzp7hzpfjj34r2rqh7pvpic: + path: /share/apps/22.04/modulefiles/spack/tcl/bayenv2/2.0 + use_name: bayenv2/2.0 + ij3pq56fl7ijpjjpugcvu455umkjacsf: + path: /share/apps/22.04/modulefiles/spack/tcl/bbmap/39.01 + use_name: bbmap/39.01 + 4b3n2ydf6i4jq4uaqojf5whnlkz5jrwl: + path: /share/apps/22.04/modulefiles/spack/tcl/beagle/5.4 + use_name: beagle/5.4 + 4y2nyivrtnilyolhessrnejymu7niswb: + path: /share/apps/22.04/modulefiles/spack/tcl/bedops/2.4.40 + use_name: bedops/2.4.40 + zzffpfzwqqzexr2ax5px65g5wj5vn2se: + path: /share/apps/22.04/modulefiles/spack/tcl/bedtools2/2.31.0 + use_name: bedtools2/2.31.0 + vttkjtrajdx35frqsp2wvun6qhiit6ci: + path: /share/apps/22.04/modulefiles/spack/tcl/blast-plus/2.13.0 + use_name: blast-plus/2.13.0 + tobcxlxoqnsz6qshaosdji3hhm3jfoiv: + path: /share/apps/22.04/modulefiles/spack/tcl/blast2go/5.2.5 + use_name: blast2go/5.2.5 + ne53ujh3f4cw72frrc6emjge34dxfarf: + path: /share/apps/22.04/modulefiles/spack/tcl/blat/37 + use_name: blat/37 + wgxpvwq4sg4k3qxzyq2xinnvxqm2rkli: + path: /share/apps/22.04/modulefiles/spack/tcl/boost/1.82.0 + use_name: boost/1.82.0 + givlfh76d7xwvmebey3zetmy7qcgigb3: + path: /share/apps/22.04/modulefiles/spack/tcl/bowtie/1.3.1 + use_name: bowtie/1.3.1 + rfd3iu2wljwxilf4vpiu223nlbh35rrt: + path: /share/apps/22.04/modulefiles/spack/tcl/bowtie2/2.4.2 + use_name: bowtie2/2.4.2 + xz4ny7repxhbg3zijiymaejp52w3j5ee: + path: /share/apps/22.04/modulefiles/spack/tcl/bwa/0.7.17 + use_name: bwa/0.7.17 + jivt3g4pn246cuxx32t4mhwzftwzh2kn: + path: /share/apps/22.04/modulefiles/spack/tcl/cap3/2015-02-11 + use_name: cap3/2015-02-11 + 2ifo6gciy63xcwe64xbhrbmtlztf2omo: + path: /share/apps/22.04/modulefiles/spack/tcl/ccfits/2.6 + use_name: ccfits/2.6 + laufwtzn7qxnt4hjvl34xe3cnixwwg7r: + path: /share/apps/22.04/modulefiles/spack/tcl/cdhit/4.8.1 + use_name: cdhit/4.8.1 + uqd4bcfcoxvwccrt6x2mgd4kq4mhga5v: + path: /share/apps/22.04/modulefiles/spack/tcl/cdo/2.1.1 + use_name: cdo/2.1.1 + pqyld7pe7wegi337y5sk6fqmy4bjc5ay: + path: /share/apps/22.04/modulefiles/spack/tcl/cfitsio/4.2.0 + use_name: cfitsio/4.2.0 + ff5qza6saibuevdnjf35eqeqbho5jhyq: + path: /share/apps/22.04/modulefiles/spack/tcl/cgal/5.4.1 + use_name: cgal/5.4.1 + wwq5hw7pogh4ritzfvhor2byapk277iv: + path: /share/apps/22.04/modulefiles/spack/tcl/circos/0.69-9 + use_name: circos/0.69-9 + 2zg7tzxxpai3jkht36gxwskp5igxkjgm: + path: /share/apps/22.04/modulefiles/spack/tcl/clustal-omega/1.2.4 + use_name: clustal-omega/1.2.4 + jw2m33wj43egnumiuu45joocqmmd6aez: + path: /share/apps/22.04/modulefiles/spack/tcl/clustalw/2.1 + use_name: clustalw/2.1 + fujthgkgifgxszpgnzajhhm2i7oky2tg: + path: /share/apps/22.04/modulefiles/spack/tcl/cmake/3.26.3 + use_name: cmake/3.26.3 + x7ldc2lo3i67ateuhjocfryjzst3mvnn: + path: /share/apps/22.04/modulefiles/spack/tcl/corset/1.09 + use_name: corset/1.09 + 66qffrfzf7w5sbvqm62unwy55d33bwip: + path: /share/apps/22.04/modulefiles/spack/tcl/cuda/11.7.1 + use_name: cuda/11.7.1 + zxox7y4g2anygml5oqfrawuze352vj7f: + path: /share/apps/22.04/modulefiles/spack/tcl/cufflinks/2.2.1 + use_name: cufflinks/2.2.1 + amd4qgiiy45iq65nw4ue6nucntm5zys6: + path: /share/apps/22.04/modulefiles/spack/tcl/dealii/9.4.2 + use_name: dealii/9.4.2 + 224xiauptjlhtadfabodcy3dnyyfyiia: + path: /share/apps/22.04/modulefiles/spack/tcl/diamond/2.0.15 + use_name: diamond/2.0.15 + 6pmayng6wlois3fojo45rdupqdnycabl: + path: /share/apps/22.04/modulefiles/spack/tcl/doxygen/1.9.6 + use_name: doxygen/1.9.6 + olghg2ddkb3kkxh3w2x6qqpnptkx7a63: + path: /share/apps/22.04/modulefiles/spack/tcl/dssp/3.1.4 + use_name: dssp/3.1.4 + xyuhf2t4ncrjkr2hfxbruhot4vx4ex2n: + path: /share/apps/22.04/modulefiles/spack/tcl/ea-utils/2021-10-20 + use_name: ea-utils/2021-10-20 + eseowccb56lxvmxlcktlgtlewxlqpvds: + path: /share/apps/22.04/modulefiles/spack/tcl/eigen/3.4.0 + use_name: eigen/3.4.0 + guahfqs2fxcppzj4wlzrupn53f3v5257: + path: /share/apps/22.04/modulefiles/spack/tcl/elk/8.3.22 + use_name: elk/8.3.22 + hb3dqsp3sqhi52lcweanluahgkwf7iu7: + path: /share/apps/22.04/modulefiles/spack/tcl/environment-modules/5.2.0 + use_name: environment-modules/5.2.0 + lgy5uw4mblomjvbxtzohkb4gqaatmpix: + path: /share/apps/22.04/modulefiles/spack/tcl/exonerate/2.4.0 + use_name: exonerate/2.4.0 + oahlh4azjwqonrbqz5pxtdrz3dj4gvy2: + path: /share/apps/22.04/modulefiles/spack/tcl/exonerate-gff3/2.3.0 + use_name: exonerate-gff3/2.3.0 + gssbdpib6hdro7h5nok35caedizwdoay: + path: /share/apps/22.04/modulefiles/spack/tcl/fastme/2.1.5.1 + use_name: fastme/2.1.5.1 + pmgmc5kgzhiish6ts37l6op23rvcpjye: + path: /share/apps/22.04/modulefiles/spack/tcl/fastqc/0.11.9 + use_name: fastqc/0.11.9 + o2djdyxw6ejide6h2c72n5y2g2xrdzct: + path: /share/apps/22.04/modulefiles/spack/tcl/fasttree/2.1.11 + use_name: fasttree/2.1.11 + hh2zr2lub4ocircye24ucofkliphf5fs: + path: /share/apps/22.04/modulefiles/spack/tcl/fastx-toolkit/0.0.14 + use_name: fastx-toolkit/0.0.14 + pr4hd22yph7x5z3t2lnfc2mngunqs6sz: + path: /share/apps/22.04/modulefiles/spack/tcl/fftw/3.3.10 + use_name: fftw/3.3.10 + losbaokzv2ud674pprxnaxspxro54yyo: + path: /share/apps/22.04/modulefiles/spack/tcl/freesurfer/7.2.0 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path: /share/apps/22.04/modulefiles/spack/tcl/openblas/0.3.23 + use_name: openblas/0.3.23 + spf6mjq3tv7mkxujncluybz7boloyxar: + path: /share/apps/22.04/modulefiles/spack/tcl/py-htseq/0.11.2 + use_name: py-htseq/0.11.2 + vma4h737hgsp67bknpzabx6m6rqomr46: + path: /share/apps/22.04/modulefiles/spack/tcl/pythia8/8.309 + use_name: pythia8/8.309 + lnn4vjrhnbbdgni5kzliy3xulc2cbxe5: + path: /share/apps/22.04/modulefiles/spack/tcl/samtools/1.16.1 + use_name: samtools/1.16.1 + fbmmcspwjfkgfab2nw2tk7ltwp23iaec: + path: /share/apps/22.04/modulefiles/spack/tcl/satsuma2/2021-03-04 + use_name: satsuma2/2021-03-04 + wndvvjwa23w57sjit2zqhzmyqfqcsuvk: + path: /share/apps/22.04/modulefiles/spack/tcl/slim/4.0.1 + use_name: slim/4.0.1 + swnurw2n7sycaoxx5oejym2gh6oicdy6: + path: /share/apps/22.04/modulefiles/spack/tcl/trilinos/13.0.1 + use_name: trilinos/13.0.1 + kmjvboscycmd2uq5mbbt6ik2mz72ulzy: + path: /share/apps/22.04/modulefiles/spack/tcl/vcftools/0.1.14 + use_name: vcftools/0.1.14 + cllmvtnmzqfpsqxvstkduyd5csjfmyn4: + path: /share/apps/22.04/modulefiles/spack/tcl/ntirpc/3.2 + use_name: ntirpc/3.2 + dtsdvarms4sm5nhcsdmhljkzfplepf4p: + path: /share/apps/22.04/modulefiles/spack/tcl/bzip2/1.0.8 + use_name: bzip2/1.0.8 + 3uyc4njzdcyqqyclxc6b2oe3ibvhxith: + path: /share/apps/22.04/modulefiles/spack/tcl/coverm/0.6.1 + use_name: coverm/0.6.1 + tlg52jp4uu4tz42vn6becz4qvp7caqir: + path: /share/apps/22.04/modulefiles/spack/tcl/fastani/1.33 + use_name: fastani/1.33 + gjrcpsvjroucnzhe3qyi7bkdvkgbusd6: + path: /share/apps/22.04/modulefiles/spack/tcl/numactl/2.0.14 + use_name: numactl/2.0.14 + lawoexuya6js6oiydsboikjjx66baaku: + path: /share/apps/22.04/modulefiles/spack/tcl/minimap2/2.26 + use_name: minimap2/2.26 diff --git a/modulefiles/hpccf/peloton/tcl/mothur/1.48.0 b/modulefiles/hpccf/peloton/tcl/mothur/1.48.0 new file mode 100644 index 00000000..6a4ff970 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/mothur/1.48.0 @@ -0,0 +1,30 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:26.292438 +## +## mothur@1.48.0%gcc@11.3.0+boost~gsl~hdf5 build_system=makefile arch=linux-ubuntu22.04-x86_64_v2/7brn3r6 +## + + +module-whatis "This project seeks to develop a single piece of open-source, expandable software to fill the bioinformatics needs of the microbial ecology community." + +proc ModulesHelp { } { + puts stderr "Name : mothur" + puts stderr "Version: 1.48.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "This project seeks to develop a single piece of open-source, expandable" + puts stderr "software to fill the bioinformatics needs of the microbial ecology" + puts stderr "community." +} + +conflict mothur + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mothur-1.48.0-7brn3r6lvtd6vi74h5j7jdlib3nrziqu/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mothur-1.48.0-7brn3r6lvtd6vi74h5j7jdlib3nrziqu/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mothur-1.48.0-7brn3r6lvtd6vi74h5j7jdlib3nrziqu/include" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mothur-1.48.0-7brn3r6lvtd6vi74h5j7jdlib3nrziqu/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mothur-1.48.0-7brn3r6lvtd6vi74h5j7jdlib3nrziqu/." +setenv MOTHUR_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mothur-1.48.0-7brn3r6lvtd6vi74h5j7jdlib3nrziqu" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/mpfr/4.2.0 b/modulefiles/hpccf/peloton/tcl/mpfr/4.2.0 new file mode 100644 index 00000000..2e788783 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/mpfr/4.2.0 @@ -0,0 +1,33 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:26.382299 +## +## mpfr@4.2.0%gcc@11.3.0 build_system=autotools libs=shared,static arch=linux-ubuntu22.04-x86_64_v2/huvidfw +## +## Configure options: --with-gmp=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gmp-6.2.1-qyjndnvcjkrswgso5x4ef52hjzxvsmhw --enable-shared --enable-static --with-pic +## + + +module-whatis "The MPFR library is a C library for multiple-precision floating-point computations with correct rounding." + +proc ModulesHelp { } { + puts stderr "Name : mpfr" + puts stderr "Version: 4.2.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "The MPFR library is a C library for multiple-precision floating-point" + puts stderr "computations with correct rounding." +} + +conflict mpfr + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mpfr-4.2.0-huvidfw2qvo35geewumhef7x3hxalkz3/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mpfr-4.2.0-huvidfw2qvo35geewumhef7x3hxalkz3/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mpfr-4.2.0-huvidfw2qvo35geewumhef7x3hxalkz3/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mpfr-4.2.0-huvidfw2qvo35geewumhef7x3hxalkz3/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mpfr-4.2.0-huvidfw2qvo35geewumhef7x3hxalkz3/lib" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mpfr-4.2.0-huvidfw2qvo35geewumhef7x3hxalkz3/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mpfr-4.2.0-huvidfw2qvo35geewumhef7x3hxalkz3/." +setenv MPFR_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mpfr-4.2.0-huvidfw2qvo35geewumhef7x3hxalkz3" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/mummer/3.23 b/modulefiles/hpccf/peloton/tcl/mummer/3.23 new file mode 100644 index 00000000..710de66f --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/mummer/3.23 @@ -0,0 +1,34 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:26.464155 +## +## mummer@3.23%gcc@11.3.0 build_system=generic patches=05f53ea,c23ea85 arch=linux-ubuntu22.04-x86_64_v2/kusmfnx +## + + +module-whatis "MUMmer is a system for rapidly aligning entire genomes." + +proc ModulesHelp { } { + puts stderr "Name : mummer" + puts stderr "Version: 3.23" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "MUMmer is a system for rapidly aligning entire genomes." +} + +module load gnuplot/5.4.3 +prereq gnuplot/5.4.3 +conflict mummer + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mummer-3.23-kusmfnxubsxtt3krarj4hyx2mvkaxcim/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mummer-3.23-kusmfnxubsxtt3krarj4hyx2mvkaxcim/." +prepend-path --delim ":" XLOCALEDIR "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libx11-1.8.4-elhqje4pmr6c4jp256hrfear2cp45szn/share/X11/locale" +prepend-path --delim ":" XDG_DATA_DIRS "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gobject-introspection-1.72.1-nu356my5vhotbyf4w2nfliyqilhq7edi/share" +prepend-path --delim ":" GI_TYPELIB_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gobject-introspection-1.72.1-nu356my5vhotbyf4w2nfliyqilhq7edi/lib/girepository-1.0" +prepend-path --delim ":" XDG_DATA_DIRS "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/harfbuzz-5.3.1-qyvpfb7knng7m4hxr5id3jvtluoqxeoj/share" +prepend-path --delim ":" GI_TYPELIB_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/harfbuzz-5.3.1-qyvpfb7knng7m4hxr5id3jvtluoqxeoj/lib/girepository-1.0" +prepend-path --delim ":" XDG_DATA_DIRS "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/pango-1.50.13-xyculs47or3ygkdcemaibdyrmvkab3gf/share" +prepend-path --delim ":" GI_TYPELIB_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/pango-1.50.13-xyculs47or3ygkdcemaibdyrmvkab3gf/lib/girepository-1.0" +setenv MUMMER_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mummer-3.23-kusmfnxubsxtt3krarj4hyx2mvkaxcim" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/mummer4/4.0.0rc1 b/modulefiles/hpccf/peloton/tcl/mummer4/4.0.0rc1 new file mode 100644 index 00000000..a9cb296f --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/mummer4/4.0.0rc1 @@ -0,0 +1,31 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:26.701126 +## +## mummer4@4.0.0rc1%gcc@11.3.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/ou3viqv +## + + +module-whatis "MUMmer is a versatil alignment tool for DNA and protein sequences." + +proc ModulesHelp { } { + puts stderr "Name : mummer4" + puts stderr "Version: 4.0.0rc1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "MUMmer is a versatil alignment tool for DNA and protein sequences." +} + +conflict mummer4 + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mummer4-4.0.0rc1-ou3viqvsaoiqmhj4g37bapo76icfszpu/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mummer4-4.0.0rc1-ou3viqvsaoiqmhj4g37bapo76icfszpu/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mummer4-4.0.0rc1-ou3viqvsaoiqmhj4g37bapo76icfszpu/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mummer4-4.0.0rc1-ou3viqvsaoiqmhj4g37bapo76icfszpu/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mummer4-4.0.0rc1-ou3viqvsaoiqmhj4g37bapo76icfszpu/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mummer4-4.0.0rc1-ou3viqvsaoiqmhj4g37bapo76icfszpu/bin" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mummer4-4.0.0rc1-ou3viqvsaoiqmhj4g37bapo76icfszpu/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mummer4-4.0.0rc1-ou3viqvsaoiqmhj4g37bapo76icfszpu/." +setenv MUMMER4_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/mummer4-4.0.0rc1-ou3viqvsaoiqmhj4g37bapo76icfszpu" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/muscle/3.8.1551 b/modulefiles/hpccf/peloton/tcl/muscle/3.8.1551 new file mode 100644 index 00000000..c3336f81 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/muscle/3.8.1551 @@ -0,0 +1,27 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:26.772138 +## +## muscle@3.8.1551%gcc@11.3.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v2/nvnr65c +## + + +module-whatis "MUSCLE is one of the best-performing multiple alignment programs according to published benchmark tests, with accuracy and speed that are consistently better than CLUSTALW." + +proc ModulesHelp { } { + puts stderr "Name : muscle" + puts stderr "Version: 3.8.1551" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "MUSCLE is one of the best-performing multiple alignment programs" + puts stderr "according to published benchmark tests, with accuracy and speed that are" + puts stderr "consistently better than CLUSTALW." +} + +conflict muscle + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/muscle-3.8.1551-nvnr65czwetfnzlcmikk6jr67kjzx6jj/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/muscle-3.8.1551-nvnr65czwetfnzlcmikk6jr67kjzx6jj/." +setenv MUSCLE_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/muscle-3.8.1551-nvnr65czwetfnzlcmikk6jr67kjzx6jj" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/muscle5/5.1.0 b/modulefiles/hpccf/peloton/tcl/muscle5/5.1.0 new file mode 100644 index 00000000..c8f3abfc --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/muscle5/5.1.0 @@ -0,0 +1,26 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:26.815655 +## +## muscle5@5.1.0%gcc@11.3.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v2/y24vfh4 +## + + +module-whatis "MUSCLE is widely-used software for making multiple alignments of biological sequences. " + +proc ModulesHelp { } { + puts stderr "Name : muscle5" + puts stderr "Version: 5.1.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "MUSCLE is widely-used software for making multiple alignments of" + puts stderr "biological sequences." +} + +conflict muscle5 + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/muscle5-5.1.0-y24vfh4aubgzbepqzsdsjdmgiekngnai/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/muscle5-5.1.0-y24vfh4aubgzbepqzsdsjdmgiekngnai/." +setenv MUSCLE5_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/muscle5-5.1.0-y24vfh4aubgzbepqzsdsjdmgiekngnai" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/ncbi-rmblastn/2.11.0 b/modulefiles/hpccf/peloton/tcl/ncbi-rmblastn/2.11.0 new file mode 100644 index 00000000..0371f02a --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/ncbi-rmblastn/2.11.0 @@ -0,0 +1,32 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:26.851568 +## +## ncbi-rmblastn@2.11.0%gcc@11.3.0 build_system=autotools patches=ce985ab arch=linux-ubuntu22.04-x86_64_v2/5l7qypb +## +## Configure options: --with-mt --without-debug --without-krb5 --without-openssl --without-libuv --with-projects=scripts/projects/rmblastn/project.lst +## + + +module-whatis "RMBlast search engine for NCBI" + +proc ModulesHelp { } { + puts stderr "Name : ncbi-rmblastn" + puts stderr "Version: 2.11.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "RMBlast search engine for NCBI" +} + +conflict ncbi-rmblastn + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ncbi-rmblastn-2.11.0-5l7qypbbokbmg6ty2fy32jzga2qb6lzt/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ncbi-rmblastn-2.11.0-5l7qypbbokbmg6ty2fy32jzga2qb6lzt/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ncbi-rmblastn-2.11.0-5l7qypbbokbmg6ty2fy32jzga2qb6lzt/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ncbi-rmblastn-2.11.0-5l7qypbbokbmg6ty2fy32jzga2qb6lzt/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ncbi-rmblastn-2.11.0-5l7qypbbokbmg6ty2fy32jzga2qb6lzt/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ncbi-rmblastn-2.11.0-5l7qypbbokbmg6ty2fy32jzga2qb6lzt/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ncbi-rmblastn-2.11.0-5l7qypbbokbmg6ty2fy32jzga2qb6lzt/." +setenv NCBI_RMBLASTN_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ncbi-rmblastn-2.11.0-5l7qypbbokbmg6ty2fy32jzga2qb6lzt" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/ncbi-toolkit/26_0_1 b/modulefiles/hpccf/peloton/tcl/ncbi-toolkit/26_0_1 new file mode 100644 index 00000000..4a6b0d59 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/ncbi-toolkit/26_0_1 @@ -0,0 +1,36 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:26.952381 +## +## ncbi-toolkit@26_0_1%gcc@11.3.0~debug build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/n6tolwg +## +## Configure options: --without-sybase --without-fastcgi --without-debug +## + + +module-whatis "NCBI C++ Toolkit" + +proc ModulesHelp { } { + puts stderr "Name : ncbi-toolkit" + puts stderr "Version: 26_0_1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "NCBI C++ Toolkit" +} + +module load bzip2/1.0.8 +module load zlib/1.2.13 +prereq bzip2/1.0.8 +prereq zlib/1.2.13 +conflict ncbi-toolkit + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ncbi-toolkit-26_0_1-n6tolwgs347r6oixdnzqeupzgmpp7itz/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ncbi-toolkit-26_0_1-n6tolwgs347r6oixdnzqeupzgmpp7itz/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ncbi-toolkit-26_0_1-n6tolwgs347r6oixdnzqeupzgmpp7itz/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ncbi-toolkit-26_0_1-n6tolwgs347r6oixdnzqeupzgmpp7itz/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ncbi-toolkit-26_0_1-n6tolwgs347r6oixdnzqeupzgmpp7itz/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ncbi-toolkit-26_0_1-n6tolwgs347r6oixdnzqeupzgmpp7itz/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ncbi-toolkit-26_0_1-n6tolwgs347r6oixdnzqeupzgmpp7itz/." +setenv NCBI_TOOLKIT_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ncbi-toolkit-26_0_1-n6tolwgs347r6oixdnzqeupzgmpp7itz" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/ncbi-vdb/3.0.2 b/modulefiles/hpccf/peloton/tcl/ncbi-vdb/3.0.2 new file mode 100644 index 00000000..1ae58f2d --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/ncbi-vdb/3.0.2 @@ -0,0 +1,33 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:27.256539 +## +## ncbi-vdb@3.0.2%gcc@11.3.0~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v2/luhovuf +## + + +module-whatis "The SRA Toolkit and SDK from NCBI is a collection of tools and libraries for using data in the INSDC Sequence Read Archives. This package contains the interface to the VDB." + +proc ModulesHelp { } { + puts stderr "Name : ncbi-vdb" + puts stderr "Version: 3.0.2" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "The SRA Toolkit and SDK from NCBI is a collection of tools and libraries" + puts stderr "for using data in the INSDC Sequence Read Archives. This package" + puts stderr "contains the interface to the VDB." +} + +module load openjdk/11.0.17_8 +prereq openjdk/11.0.17_8 +conflict ncbi-vdb + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ncbi-vdb-3.0.2-luhovuf5o55lsdfhvurhex6fqzbkl7xw/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ncbi-vdb-3.0.2-luhovuf5o55lsdfhvurhex6fqzbkl7xw/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ncbi-vdb-3.0.2-luhovuf5o55lsdfhvurhex6fqzbkl7xw/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ncbi-vdb-3.0.2-luhovuf5o55lsdfhvurhex6fqzbkl7xw/lib64" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ncbi-vdb-3.0.2-luhovuf5o55lsdfhvurhex6fqzbkl7xw/lib64" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ncbi-vdb-3.0.2-luhovuf5o55lsdfhvurhex6fqzbkl7xw/." +setenv NCBI_VDB_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ncbi-vdb-3.0.2-luhovuf5o55lsdfhvurhex6fqzbkl7xw" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/nco/5.1.5 b/modulefiles/hpccf/peloton/tcl/nco/5.1.5 new file mode 100644 index 00000000..32dfe702 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/nco/5.1.5 @@ -0,0 +1,31 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:27.402111 +## +## nco@5.1.5%gcc@11.3.0~doc build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/do7dsyi +## +## Configure options: --disable-doc +## + + +module-whatis "The NCO toolkit manipulates and analyzes data stored in netCDF-accessible formats" + +proc ModulesHelp { } { + puts stderr "Name : nco" + puts stderr "Version: 5.1.5" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "The NCO toolkit manipulates and analyzes data stored in netCDF-" + puts stderr "accessible formats" +} + +conflict nco + +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/nco-5.1.5-do7dsyiin3k3exh4hpklikie6hy2j34x/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/nco-5.1.5-do7dsyiin3k3exh4hpklikie6hy2j34x/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/nco-5.1.5-do7dsyiin3k3exh4hpklikie6hy2j34x/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/nco-5.1.5-do7dsyiin3k3exh4hpklikie6hy2j34x/share/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/nco-5.1.5-do7dsyiin3k3exh4hpklikie6hy2j34x/." +setenv NCO_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/nco-5.1.5-do7dsyiin3k3exh4hpklikie6hy2j34x" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/netcdf-c/4.9.2 b/modulefiles/hpccf/peloton/tcl/netcdf-c/4.9.2 new file mode 100644 index 00000000..01c9b94b --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/netcdf-c/4.9.2 @@ -0,0 +1,35 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:27.498074 +## +## netcdf-c@4.9.2%gcc@11.3.0+blosc~byterange~dap~fsync~hdf4~jna+mpi~nczarr_zip+optimize~parallel-netcdf+pic+shared+szip+zstd build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/zw4h5k7 +## + + +module-whatis "NetCDF (network Common Data Form) is a set of software libraries and machine-independent data formats that support the creation, access, and sharing of array-oriented scientific data. This is the C distribution." + +proc ModulesHelp { } { + puts stderr "Name : netcdf-c" + puts stderr "Version: 4.9.2" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "NetCDF (network Common Data Form) is a set of software libraries and" + puts stderr "machine-independent data formats that support the creation, access, and" + puts stderr "sharing of array-oriented scientific data. This is the C distribution." +} + +conflict netcdf-c + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-c-4.9.2-zw4h5k7el6e3x53ml3cvx46pljzppxmq/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-c-4.9.2-zw4h5k7el6e3x53ml3cvx46pljzppxmq/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-c-4.9.2-zw4h5k7el6e3x53ml3cvx46pljzppxmq/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-c-4.9.2-zw4h5k7el6e3x53ml3cvx46pljzppxmq/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-c-4.9.2-zw4h5k7el6e3x53ml3cvx46pljzppxmq/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-c-4.9.2-zw4h5k7el6e3x53ml3cvx46pljzppxmq/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-c-4.9.2-zw4h5k7el6e3x53ml3cvx46pljzppxmq/share/man" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-c-4.9.2-zw4h5k7el6e3x53ml3cvx46pljzppxmq/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-c-4.9.2-zw4h5k7el6e3x53ml3cvx46pljzppxmq/." +append-path --delim ":" HDF5_PLUGIN_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-c-4.9.2-zw4h5k7el6e3x53ml3cvx46pljzppxmq/plugins" +setenv NETCDF_C_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-c-4.9.2-zw4h5k7el6e3x53ml3cvx46pljzppxmq" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/netcdf-cxx4/4.3.1 b/modulefiles/hpccf/peloton/tcl/netcdf-cxx4/4.3.1 new file mode 100644 index 00000000..c16bd2d5 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/netcdf-cxx4/4.3.1 @@ -0,0 +1,35 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:27.548660 +## +## netcdf-cxx4@4.3.1%gcc@11.3.0~doc+pic+shared build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/b4zszl4 +## +## Configure options: --enable-shared --disable-doxygen --disable-filter-testing +## + + +module-whatis "NetCDF (network Common Data Form) is a set of software libraries and machine-independent data formats that support the creation, access, and sharing of array-oriented scientific data. This is the C++ distribution." + +proc ModulesHelp { } { + puts stderr "Name : netcdf-cxx4" + puts stderr "Version: 4.3.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "NetCDF (network Common Data Form) is a set of software libraries and" + puts stderr "machine-independent data formats that support the creation, access, and" + puts stderr "sharing of array-oriented scientific data. This is the C++ distribution." +} + +conflict netcdf-cxx4 + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-cxx4-4.3.1-b4zszl4zr4wwyanlmie2gc5ohc3czh3z/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-cxx4-4.3.1-b4zszl4zr4wwyanlmie2gc5ohc3czh3z/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-cxx4-4.3.1-b4zszl4zr4wwyanlmie2gc5ohc3czh3z/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-cxx4-4.3.1-b4zszl4zr4wwyanlmie2gc5ohc3czh3z/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-cxx4-4.3.1-b4zszl4zr4wwyanlmie2gc5ohc3czh3z/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-cxx4-4.3.1-b4zszl4zr4wwyanlmie2gc5ohc3czh3z/bin" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-cxx4-4.3.1-b4zszl4zr4wwyanlmie2gc5ohc3czh3z/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-cxx4-4.3.1-b4zszl4zr4wwyanlmie2gc5ohc3czh3z/." +setenv NETCDF_CXX4_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-cxx4-4.3.1-b4zszl4zr4wwyanlmie2gc5ohc3czh3z" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/netcdf-fortran/4.6.0 b/modulefiles/hpccf/peloton/tcl/netcdf-fortran/4.6.0 new file mode 100644 index 00000000..f9c80f31 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/netcdf-fortran/4.6.0 @@ -0,0 +1,37 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:27.648958 +## +## netcdf-fortran@4.6.0%gcc@11.3.0~doc+pic+shared build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/ch2bhyp +## +## Configure options: --enable-static --enable-shared --disable-doxygen --disable-parallel-tests +## + + +module-whatis "NetCDF (network Common Data Form) is a set of software libraries and machine-independent data formats that support the creation, access, and sharing of array-oriented scientific data. This is the Fortran distribution." + +proc ModulesHelp { } { + puts stderr "Name : netcdf-fortran" + puts stderr "Version: 4.6.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "NetCDF (network Common Data Form) is a set of software libraries and" + puts stderr "machine-independent data formats that support the creation, access, and" + puts stderr "sharing of array-oriented scientific data. This is the Fortran" + puts stderr "distribution." +} + +conflict netcdf-fortran + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-fortran-4.6.0-ch2bhypi3sjwx44ir7bwue6c65i5pc7m/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-fortran-4.6.0-ch2bhypi3sjwx44ir7bwue6c65i5pc7m/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-fortran-4.6.0-ch2bhypi3sjwx44ir7bwue6c65i5pc7m/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-fortran-4.6.0-ch2bhypi3sjwx44ir7bwue6c65i5pc7m/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-fortran-4.6.0-ch2bhypi3sjwx44ir7bwue6c65i5pc7m/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-fortran-4.6.0-ch2bhypi3sjwx44ir7bwue6c65i5pc7m/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-fortran-4.6.0-ch2bhypi3sjwx44ir7bwue6c65i5pc7m/share/man" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-fortran-4.6.0-ch2bhypi3sjwx44ir7bwue6c65i5pc7m/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-fortran-4.6.0-ch2bhypi3sjwx44ir7bwue6c65i5pc7m/." +setenv NETCDF_FORTRAN_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netcdf-fortran-4.6.0-ch2bhypi3sjwx44ir7bwue6c65i5pc7m" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/netlib-lapack/3.11.0 b/modulefiles/hpccf/peloton/tcl/netlib-lapack/3.11.0 new file mode 100644 index 00000000..1e170e56 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/netlib-lapack/3.11.0 @@ -0,0 +1,34 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:27.790559 +## +## netlib-lapack@3.11.0%gcc@11.3.0~external-blas~ipo+lapacke+shared~xblas build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v2/yakpaxt +## + + +module-whatis "LAPACK version 3.X is a comprehensive FORTRAN library that does linear algebra operations including matrix inversions, least squared solutions to linear sets of equations, eigenvector analysis, singular value decomposition, etc. It is a very comprehensive and reputable package that has found extensive use in the scientific community." + +proc ModulesHelp { } { + puts stderr "Name : netlib-lapack" + puts stderr "Version: 3.11.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "LAPACK version 3.X is a comprehensive FORTRAN library that does linear" + puts stderr "algebra operations including matrix inversions, least squared solutions" + puts stderr "to linear sets of equations, eigenvector analysis, singular value" + puts stderr "decomposition, etc. It is a very comprehensive and reputable package" + puts stderr "that has found extensive use in the scientific community." +} + +conflict netlib-lapack + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netlib-lapack-3.11.0-yakpaxt3ouw3s74wyvs2vzc3gbympxsc/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netlib-lapack-3.11.0-yakpaxt3ouw3s74wyvs2vzc3gbympxsc/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netlib-lapack-3.11.0-yakpaxt3ouw3s74wyvs2vzc3gbympxsc/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netlib-lapack-3.11.0-yakpaxt3ouw3s74wyvs2vzc3gbympxsc/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netlib-lapack-3.11.0-yakpaxt3ouw3s74wyvs2vzc3gbympxsc/lib" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netlib-lapack-3.11.0-yakpaxt3ouw3s74wyvs2vzc3gbympxsc/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netlib-lapack-3.11.0-yakpaxt3ouw3s74wyvs2vzc3gbympxsc/." +setenv NETLIB_LAPACK_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netlib-lapack-3.11.0-yakpaxt3ouw3s74wyvs2vzc3gbympxsc" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/netlib-xblas/1.0.248 b/modulefiles/hpccf/peloton/tcl/netlib-xblas/1.0.248 new file mode 100644 index 00000000..3e394b7e --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/netlib-xblas/1.0.248 @@ -0,0 +1,38 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:27.833148 +## +## netlib-xblas@1.0.248%gcc@11.3.0+fortran+plain_blas build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/ze4qqin +## + + +module-whatis "XBLAS is a reference implementation for extra precision BLAS." + +proc ModulesHelp { } { + puts stderr "Name : netlib-xblas" + puts stderr "Version: 1.0.248" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "XBLAS is a reference implementation for extra precision BLAS. XBLAS is a" + puts stderr "reference implementation for the dense and banded BLAS routines, along" + puts stderr "with extended and mixed precision version. Extended precision is only" + puts stderr "used internally; input and output arguments remain the same as in the" + puts stderr "existing BLAS. Extra precisions is implemented as double-double (i.e.," + puts stderr "128-bit total, 106-bit significand). Mixed precision permits some" + puts stderr "input/output arguments of different types (mixing real and complex) or" + puts stderr "precisions (mixing single and double). This implementation is proof of" + puts stderr "concept, and no attempt was made to optimize performance; performance" + puts stderr "should be as good as straightforward but careful code written by hand." +} + +conflict netlib-xblas + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netlib-xblas-1.0.248-ze4qqin4ygj4pprbd5zgn7tfpmasf4bc/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netlib-xblas-1.0.248-ze4qqin4ygj4pprbd5zgn7tfpmasf4bc/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netlib-xblas-1.0.248-ze4qqin4ygj4pprbd5zgn7tfpmasf4bc/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netlib-xblas-1.0.248-ze4qqin4ygj4pprbd5zgn7tfpmasf4bc/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netlib-xblas-1.0.248-ze4qqin4ygj4pprbd5zgn7tfpmasf4bc/lib" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netlib-xblas-1.0.248-ze4qqin4ygj4pprbd5zgn7tfpmasf4bc/." +setenv NETLIB_XBLAS_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/netlib-xblas-1.0.248-ze4qqin4ygj4pprbd5zgn7tfpmasf4bc" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/nextflow/22.10.4 b/modulefiles/hpccf/peloton/tcl/nextflow/22.10.4 new file mode 100644 index 00000000..c7ed7c09 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/nextflow/22.10.4 @@ -0,0 +1,25 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:27.869812 +## +## nextflow@22.10.4%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/c3yk3ux +## + + +module-whatis "Data-driven computational pipelines." + +proc ModulesHelp { } { + puts stderr "Name : nextflow" + puts stderr "Version: 22.10.4" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Data-driven computational pipelines." +} + +conflict nextflow + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/nextflow-22.10.4-c3yk3uxo5djaxnrj7bhov3p6lfndidxg/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/nextflow-22.10.4-c3yk3uxo5djaxnrj7bhov3p6lfndidxg/." +setenv NEXTFLOW_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/nextflow-22.10.4-c3yk3uxo5djaxnrj7bhov3p6lfndidxg" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/ngsadmix/2018-03-19 b/modulefiles/hpccf/peloton/tcl/ngsadmix/2018-03-19 new file mode 100644 index 00000000..64954e57 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/ngsadmix/2018-03-19 @@ -0,0 +1,25 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:27.904049 +## +## ngsadmix@2018-03-19%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/s3sy3v7 +## + + +module-whatis "Inferring admixture proportions from NGS data." + +proc ModulesHelp { } { + puts stderr "Name : ngsadmix" + puts stderr "Version: 2018-03-19" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Inferring admixture proportions from NGS data." +} + +conflict ngsadmix + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ngsadmix-2018-03-19-s3sy3v7ddvavyptunxwqtm3tnu7s4jdx/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ngsadmix-2018-03-19-s3sy3v7ddvavyptunxwqtm3tnu7s4jdx/." +setenv NGSADMIX_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ngsadmix-2018-03-19-s3sy3v7ddvavyptunxwqtm3tnu7s4jdx" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/ngstools/2023-04-05 b/modulefiles/hpccf/peloton/tcl/ngstools/2023-04-05 new file mode 100644 index 00000000..59b6a3e0 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/ngstools/2023-04-05 @@ -0,0 +1,37 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:27.928360 +## +## ngstools@2023-04-05%gcc@11.3.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v2/xjsjytw +## + + +module-whatis "ngsTools is a collection of programs for population genetics analyses from NGS data, taking into account data statistical uncertainty. The methods implemented in these programs do not rely on SNP or genotype calling, and are particularly suitable for low sequencing depth data. An application note illustrating its application has published (Fumagalli et al. 2014)." + +proc ModulesHelp { } { + puts stderr "Name : ngstools" + puts stderr "Version: 2023-04-05" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "ngsTools is a collection of programs for population genetics analyses" + puts stderr "from NGS data, taking into account data statistical uncertainty. The" + puts stderr "methods implemented in these programs do not rely on SNP or genotype" + puts stderr "calling, and are particularly suitable for low sequencing depth data. An" + puts stderr "application note illustrating its application has published (Fumagalli" + puts stderr "et al. 2014)." +} + +conflict ngstools + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ngstools-2023-04-05-xjsjytwee6nutargwn72nbsvf2tach7d/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ngstools-2023-04-05-xjsjytwee6nutargwn72nbsvf2tach7d/." +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ngstools-2023-04-05-xjsjytwee6nutargwn72nbsvf2tach7d/bin/ngsSim" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ngstools-2023-04-05-xjsjytwee6nutargwn72nbsvf2tach7d/bin/ngsPopGen" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ngstools-2023-04-05-xjsjytwee6nutargwn72nbsvf2tach7d/bin/ngsUtils" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ngstools-2023-04-05-xjsjytwee6nutargwn72nbsvf2tach7d/bin/ngsDist" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ngstools-2023-04-05-xjsjytwee6nutargwn72nbsvf2tach7d/bin/ngsLD" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ngstools-2023-04-05-xjsjytwee6nutargwn72nbsvf2tach7d/bin/ngsF" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ngstools-2023-04-05-xjsjytwee6nutargwn72nbsvf2tach7d/bin/ngsF-HMM" +setenv NGSTOOLS_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ngstools-2023-04-05-xjsjytwee6nutargwn72nbsvf2tach7d" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/nlohmann-json/3.11.2 b/modulefiles/hpccf/peloton/tcl/nlohmann-json/3.11.2 new file mode 100644 index 00000000..dc8ea2d3 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/nlohmann-json/3.11.2 @@ -0,0 +1,30 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:27.968530 +## +## nlohmann-json@3.11.2%gcc@11.3.0~ipo+multiple_headers build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v2/3w2ciab +## +## Configure options: -DJSON_MultipleHeaders:BOOL=ON -DJSON_BuildTests:BOOL=OFF +## + + +module-whatis "JSON for Modern C++" + +proc ModulesHelp { } { + puts stderr "Name : nlohmann-json" + puts stderr "Version: 3.11.2" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "JSON for Modern C++" +} + +conflict nlohmann-json + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/nlohmann-json-3.11.2-3w2ciabjsofaaaprgnvao3opwi7pe7vy/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/nlohmann-json-3.11.2-3w2ciabjsofaaaprgnvao3opwi7pe7vy/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/nlohmann-json-3.11.2-3w2ciabjsofaaaprgnvao3opwi7pe7vy/include" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/nlohmann-json-3.11.2-3w2ciabjsofaaaprgnvao3opwi7pe7vy/share/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/nlohmann-json-3.11.2-3w2ciabjsofaaaprgnvao3opwi7pe7vy/." +setenv NLOHMANN_JSON_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/nlohmann-json-3.11.2-3w2ciabjsofaaaprgnvao3opwi7pe7vy" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/nlopt/2.7.0 b/modulefiles/hpccf/peloton/tcl/nlopt/2.7.0 new file mode 100644 index 00000000..036b6c9a --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/nlopt/2.7.0 @@ -0,0 +1,39 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:28.038715 +## +## nlopt@2.7.0%gcc@11.3.0~cxx~guile~ipo~matlab~octave+python+shared build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v2/rkhmuje +## +## Configure options: -DPYTHON_EXECUTABLE=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/python-3.10.10-v5jpflnztkbw3n2odw6nx4ty6hzajvem/bin/python3.10 -DNLOPT_OCTAVE:Bool=OFF +## + + +module-whatis "NLopt is a free/open-source library for nonlinear optimization, providing a common interface for a number of different free optimization routines available online as well as original implementations of various other algorithms." + +proc ModulesHelp { } { + puts stderr "Name : nlopt" + puts stderr "Version: 2.7.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "NLopt is a free/open-source library for nonlinear optimization," + puts stderr "providing a common interface for a number of different free optimization" + puts stderr "routines available online as well as original implementations of various" + puts stderr "other algorithms." +} + +conflict nlopt + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/nlopt-2.7.0-rkhmujexhy4o3w7mgwgwidc7ysjyaseu/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/nlopt-2.7.0-rkhmujexhy4o3w7mgwgwidc7ysjyaseu/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/nlopt-2.7.0-rkhmujexhy4o3w7mgwgwidc7ysjyaseu/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/nlopt-2.7.0-rkhmujexhy4o3w7mgwgwidc7ysjyaseu/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/nlopt-2.7.0-rkhmujexhy4o3w7mgwgwidc7ysjyaseu/lib" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/nlopt-2.7.0-rkhmujexhy4o3w7mgwgwidc7ysjyaseu/share/man" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/nlopt-2.7.0-rkhmujexhy4o3w7mgwgwidc7ysjyaseu/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/nlopt-2.7.0-rkhmujexhy4o3w7mgwgwidc7ysjyaseu/." +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/nlopt-2.7.0-rkhmujexhy4o3w7mgwgwidc7ysjyaseu/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-numpy-1.24.3-weuaipxfhdzjufh7dwrjpe7mbm3xvdp7/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-setuptools-63.4.3-eipobqg37cmma4kuuguhojfyvoorlzaq/lib/python3.10/site-packages" +setenv NLOPT_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/nlopt-2.7.0-rkhmujexhy4o3w7mgwgwidc7ysjyaseu" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/ntirpc/3.2 b/modulefiles/hpccf/peloton/tcl/ntirpc/3.2 new file mode 100644 index 00000000..547addaa --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/ntirpc/3.2 @@ -0,0 +1,30 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:28.129283 +## +## ntirpc@3.2%gcc@11.3.0~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v2/cllmvtn +## + + +module-whatis "New development on tirpc" + +proc ModulesHelp { } { + puts stderr "Name : ntirpc" + puts stderr "Version: 3.2" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "New development on tirpc" +} + +conflict ntirpc + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ntirpc-3.2-cllmvtnmzqfpsqxvstkduyd5csjfmyn4/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ntirpc-3.2-cllmvtnmzqfpsqxvstkduyd5csjfmyn4/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ntirpc-3.2-cllmvtnmzqfpsqxvstkduyd5csjfmyn4/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ntirpc-3.2-cllmvtnmzqfpsqxvstkduyd5csjfmyn4/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ntirpc-3.2-cllmvtnmzqfpsqxvstkduyd5csjfmyn4/lib" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ntirpc-3.2-cllmvtnmzqfpsqxvstkduyd5csjfmyn4/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ntirpc-3.2-cllmvtnmzqfpsqxvstkduyd5csjfmyn4/." +setenv NTIRPC_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ntirpc-3.2-cllmvtnmzqfpsqxvstkduyd5csjfmyn4" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/numactl/2.0.14 b/modulefiles/hpccf/peloton/tcl/numactl/2.0.14 new file mode 100644 index 00000000..aa673378 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/numactl/2.0.14 @@ -0,0 +1,32 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-08-11 15:03:35.583323 +## +## numactl@2.0.14%gcc@11.3.0 build_system=autotools patches=4e1d78c,62fc8a8,ff37630 arch=linux-ubuntu22.04-x86_64_v2/gjrcpsv +## + + +module-whatis "NUMA support for Linux" + +proc ModulesHelp { } { + puts stderr "Name : numactl" + puts stderr "Version: 2.0.14" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "NUMA support for Linux" +} + +conflict numactl + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/numactl-2.0.14-gjrcpsvjroucnzhe3qyi7bkdvkgbusd6/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/numactl-2.0.14-gjrcpsvjroucnzhe3qyi7bkdvkgbusd6/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/numactl-2.0.14-gjrcpsvjroucnzhe3qyi7bkdvkgbusd6/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/numactl-2.0.14-gjrcpsvjroucnzhe3qyi7bkdvkgbusd6/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/numactl-2.0.14-gjrcpsvjroucnzhe3qyi7bkdvkgbusd6/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/numactl-2.0.14-gjrcpsvjroucnzhe3qyi7bkdvkgbusd6/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/numactl-2.0.14-gjrcpsvjroucnzhe3qyi7bkdvkgbusd6/share/man" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/numactl-2.0.14-gjrcpsvjroucnzhe3qyi7bkdvkgbusd6/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/numactl-2.0.14-gjrcpsvjroucnzhe3qyi7bkdvkgbusd6/." +setenv NUMACTL_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/numactl-2.0.14-gjrcpsvjroucnzhe3qyi7bkdvkgbusd6" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/nwchem/7.2.0 b/modulefiles/hpccf/peloton/tcl/nwchem/7.2.0 new file mode 100644 index 00000000..55e1840e --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/nwchem/7.2.0 @@ -0,0 +1,31 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:28.279732 +## +## nwchem@7.2.0%gcc@11.3.0~mpipr~openmp build_system=generic arch=linux-ubuntu22.04-x86_64_v2/7q4zfph +## + + +module-whatis "High-performance computational chemistry software" + +proc ModulesHelp { } { + puts stderr "Name : nwchem" + puts stderr "Version: 7.2.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "High-performance computational chemistry software" +} + +module load fftw/3.3.10 +module load openmpi/4.1.5 +prereq fftw/3.3.10 +prereq openmpi/4.1.5 +conflict nwchem + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/nwchem-7.2.0-7q4zfphri73ymwu3ni5fjbovgjgfx4wh/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/nwchem-7.2.0-7q4zfphri73ymwu3ni5fjbovgjgfx4wh/." +setenv NWCHEM_BASIS_LIBRARY "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/nwchem-7.2.0-7q4zfphri73ymwu3ni5fjbovgjgfx4wh/share/nwchem/libraries/" +setenv NWCHEM_NWPW_LIBRARY "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/nwchem-7.2.0-7q4zfphri73ymwu3ni5fjbovgjgfx4wh/share/nwchem/libraryps/" +setenv NWCHEM_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/nwchem-7.2.0-7q4zfphri73ymwu3ni5fjbovgjgfx4wh" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/octopus/7.3 b/modulefiles/hpccf/peloton/tcl/octopus/7.3 new file mode 100644 index 00000000..ed2778c9 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/octopus/7.3 @@ -0,0 +1,32 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:28.420564 +## +## octopus@7.3%gcc@11.3.0~arpack~berkeleygw~cgal~cuda~debug~elpa~etsf-io+libvdwxc~libyaml~likwid~metis+mpi~netcdf~nfft~nlopt~parmetis~pfft~python~scalapack~sparskit build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/zn6dpzq +## +## Configure options: --prefix=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/octopus-7.3-zn6dpzqoyxujmb5k2zskukimgmtqflaf --with-blas=-L/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openblas-0.3.23-hjvgpb5hmku762lpowdlqs4qoxmmizv3/lib -lopenblas --with-lapack=-L/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openblas-0.3.23-hjvgpb5hmku762lpowdlqs4qoxmmizv3/lib -lopenblas --with-gsl-prefix=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gsl-2.7.1-7z5dz5cle3byaeyf4uvq6x3biakagq2b --with-libxc-prefix=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libxc-3.0.0-lcimv2b3sbteoalqhnmv3bguyygj6ys7 --enable-openmp --enable-mpi CC=/share/apps/22.04/manual/openmpi/4.1.5/bin/mpicc FC=/share/apps/22.04/manual/openmpi/4.1.5/bin/mpif90 --with-fftw-prefix=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/fftw-3.3.10-pr4hd22yph7x5z3t2lnfc2mngunqs6sz --with-libvdwxc-prefix=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libvdwxc-0.4.0-jwyh4h46izi6pvzk73xnhzkhn4qt4yz3 FCFLAGS=-O2 -ffree-line-length-none -fallow-argument-mismatch -fallow-invalid-boz CXXFLAGS=-O2 -fallow-argument-mismatch -fallow-invalid-boz CFLAGS=-O2 -fallow-argument-mismatch -fallow-invalid-boz +## + + +module-whatis "A real-space finite-difference (time-dependent) density-functional theory code." + +proc ModulesHelp { } { + puts stderr "Name : octopus" + puts stderr "Version: 7.3" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "A real-space finite-difference (time-dependent) density-functional" + puts stderr "theory code." +} + +conflict octopus + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/octopus-7.3-zn6dpzqoyxujmb5k2zskukimgmtqflaf/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/octopus-7.3-zn6dpzqoyxujmb5k2zskukimgmtqflaf/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/octopus-7.3-zn6dpzqoyxujmb5k2zskukimgmtqflaf/include" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/octopus-7.3-zn6dpzqoyxujmb5k2zskukimgmtqflaf/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/octopus-7.3-zn6dpzqoyxujmb5k2zskukimgmtqflaf/share/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/octopus-7.3-zn6dpzqoyxujmb5k2zskukimgmtqflaf/." +setenv OCTOPUS_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/octopus-7.3-zn6dpzqoyxujmb5k2zskukimgmtqflaf" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/ont-guppy/6.1.7 b/modulefiles/hpccf/peloton/tcl/ont-guppy/6.1.7 new file mode 100644 index 00000000..f6d77ee5 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/ont-guppy/6.1.7 @@ -0,0 +1,27 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:28.484550 +## +## ont-guppy@6.1.7%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/7oxh7ni +## + + +module-whatis "Guppy: local accelerated basecalling for Nanopore data" + +proc ModulesHelp { } { + puts stderr "Name : ont-guppy" + puts stderr "Version: 6.1.7" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Guppy: local accelerated basecalling for Nanopore data" +} + +conflict ont-guppy + +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ont-guppy-6.1.7-7oxh7ni4osr4x2egh26ljqzhlfugqxf4/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ont-guppy-6.1.7-7oxh7ni4osr4x2egh26ljqzhlfugqxf4/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ont-guppy-6.1.7-7oxh7ni4osr4x2egh26ljqzhlfugqxf4/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ont-guppy-6.1.7-7oxh7ni4osr4x2egh26ljqzhlfugqxf4/." +setenv ONT_GUPPY_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ont-guppy-6.1.7-7oxh7ni4osr4x2egh26ljqzhlfugqxf4" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/openblas/0.3.23 b/modulefiles/hpccf/peloton/tcl/openblas/0.3.23 new file mode 100644 index 00000000..88c9ae18 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/openblas/0.3.23 @@ -0,0 +1,31 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:28.505695 +## +## openblas@0.3.23%gcc@11.3.0~bignuma~consistent_fpcsr+fortran~ilp64+locking+pic+shared build_system=makefile symbol_suffix=none threads=none arch=linux-ubuntu22.04-x86_64_v2/hjvgpb5 +## + + +module-whatis "OpenBLAS: An optimized BLAS library" + +proc ModulesHelp { } { + puts stderr "Name : openblas" + puts stderr "Version: 0.3.23" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "OpenBLAS: An optimized BLAS library" +} + +conflict openblas + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openblas-0.3.23-hjvgpb5hmku762lpowdlqs4qoxmmizv3/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openblas-0.3.23-hjvgpb5hmku762lpowdlqs4qoxmmizv3/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openblas-0.3.23-hjvgpb5hmku762lpowdlqs4qoxmmizv3/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openblas-0.3.23-hjvgpb5hmku762lpowdlqs4qoxmmizv3/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openblas-0.3.23-hjvgpb5hmku762lpowdlqs4qoxmmizv3/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openblas-0.3.23-hjvgpb5hmku762lpowdlqs4qoxmmizv3/bin" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openblas-0.3.23-hjvgpb5hmku762lpowdlqs4qoxmmizv3/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openblas-0.3.23-hjvgpb5hmku762lpowdlqs4qoxmmizv3/." +setenv OPENBLAS_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openblas-0.3.23-hjvgpb5hmku762lpowdlqs4qoxmmizv3" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/openjdk/11.0.17_8 b/modulefiles/hpccf/peloton/tcl/openjdk/11.0.17_8 new file mode 100644 index 00000000..2279830f --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/openjdk/11.0.17_8 @@ -0,0 +1,32 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:28.528455 +## +## openjdk@11.0.17_8%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/oucx2ae +## + + +module-whatis "The free and opensource java implementation" + +proc ModulesHelp { } { + puts stderr "Name : openjdk" + puts stderr "Version: 11.0.17_8" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "The free and opensource java implementation" +} + +conflict openjdk + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openjdk-11.0.17_8-oucx2ae437h47qbuudvuzl6yuejnpvde/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openjdk-11.0.17_8-oucx2ae437h47qbuudvuzl6yuejnpvde/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openjdk-11.0.17_8-oucx2ae437h47qbuudvuzl6yuejnpvde/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openjdk-11.0.17_8-oucx2ae437h47qbuudvuzl6yuejnpvde/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openjdk-11.0.17_8-oucx2ae437h47qbuudvuzl6yuejnpvde/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openjdk-11.0.17_8-oucx2ae437h47qbuudvuzl6yuejnpvde/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openjdk-11.0.17_8-oucx2ae437h47qbuudvuzl6yuejnpvde/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openjdk-11.0.17_8-oucx2ae437h47qbuudvuzl6yuejnpvde/." +setenv JAVA_HOME "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openjdk-11.0.17_8-oucx2ae437h47qbuudvuzl6yuejnpvde" +setenv OPENJDK_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openjdk-11.0.17_8-oucx2ae437h47qbuudvuzl6yuejnpvde" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/openjdk/16.0.2 b/modulefiles/hpccf/peloton/tcl/openjdk/16.0.2 new file mode 100644 index 00000000..bee3ee0a --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/openjdk/16.0.2 @@ -0,0 +1,31 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:28.558253 +## +## openjdk@16.0.2%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/4yopvxz +## + + +module-whatis "The free and opensource java implementation" + +proc ModulesHelp { } { + puts stderr "Name : openjdk" + puts stderr "Version: 16.0.2" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "The free and opensource java implementation" +} + +conflict openjdk + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openjdk-16.0.2-4yopvxz7hv3owcodzmzokvaq62fndvkf/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openjdk-16.0.2-4yopvxz7hv3owcodzmzokvaq62fndvkf/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openjdk-16.0.2-4yopvxz7hv3owcodzmzokvaq62fndvkf/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openjdk-16.0.2-4yopvxz7hv3owcodzmzokvaq62fndvkf/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openjdk-16.0.2-4yopvxz7hv3owcodzmzokvaq62fndvkf/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openjdk-16.0.2-4yopvxz7hv3owcodzmzokvaq62fndvkf/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openjdk-16.0.2-4yopvxz7hv3owcodzmzokvaq62fndvkf/." +setenv JAVA_HOME "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openjdk-16.0.2-4yopvxz7hv3owcodzmzokvaq62fndvkf" +setenv OPENJDK_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openjdk-16.0.2-4yopvxz7hv3owcodzmzokvaq62fndvkf" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/openmpi/4.1.5 b/modulefiles/hpccf/peloton/tcl/openmpi/4.1.5 new file mode 100644 index 00000000..00da7a0d --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/openmpi/4.1.5 @@ -0,0 +1,45 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:28.578914 +## +## openmpi@4.1.5%gcc@11.3.0~atomics+cuda~cxx~cxx_exceptions~gpfs~internal-hwloc~java~legacylaunchers~lustre~memchecker~orterunprefix~pmi~romio+rsh~singularity+static+vt+wrapper-rpath build_system=autotools cuda_arch=none fabrics=ucx schedulers=slurm arch=linux-ubuntu22.04-x86_64_v2/63v4xd2 +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis "An open source Message Passing Interface implementation." + +proc ModulesHelp { } { + puts stderr "Name : openmpi" + puts stderr "Version: 4.1.5" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "An open source Message Passing Interface implementation. The Open MPI" + puts stderr "Project is an open source Message Passing Interface implementation that" + puts stderr "is developed and maintained by a consortium of academic, research, and" + puts stderr "industry partners. Open MPI is therefore able to combine the expertise," + puts stderr "technologies, and resources from all across the High Performance" + puts stderr "Computing community in order to build the best MPI library available." + puts stderr "Open MPI offers advantages for system and software vendors, application" + puts stderr "developers and computer science researchers." +} + +conflict openmpi + +prepend-path --delim ":" CPATH "/share/apps/22.04/manual/openmpi/4.1.5/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/manual/openmpi/4.1.5/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/manual/openmpi/4.1.5/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/manual/openmpi/4.1.5/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/manual/openmpi/4.1.5/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/manual/openmpi/4.1.5/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/manual/openmpi/4.1.5/share/man" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/manual/openmpi/4.1.5/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/manual/openmpi/4.1.5/." +setenv MPICC "/share/apps/22.04/manual/openmpi/4.1.5/bin/mpicc" +setenv MPICXX "/share/apps/22.04/manual/openmpi/4.1.5/bin/mpic++" +setenv MPIF77 "/share/apps/22.04/manual/openmpi/4.1.5/bin/mpif77" +setenv MPIF90 "/share/apps/22.04/manual/openmpi/4.1.5/bin/mpif90" +setenv OPENMPI_ROOT "/share/apps/22.04/manual/openmpi/4.1.5" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/openmpi/4.1.5-mpi-io b/modulefiles/hpccf/peloton/tcl/openmpi/4.1.5-mpi-io new file mode 100644 index 00000000..eebbc737 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/openmpi/4.1.5-mpi-io @@ -0,0 +1,45 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:28.600453 +## +## openmpi@4.1.5%gcc@11.3.0~atomics+cuda~cxx~cxx_exceptions~gpfs~internal-hwloc~java~legacylaunchers~lustre~memchecker~orterunprefix~pmi+romio+rsh~singularity+static+vt+wrapper-rpath build_system=autotools cuda_arch=none fabrics=ucx schedulers=slurm arch=linux-ubuntu22.04-x86_64_v2/mi6igmv +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis "An open source Message Passing Interface implementation." + +proc ModulesHelp { } { + puts stderr "Name : openmpi" + puts stderr "Version: 4.1.5" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "An open source Message Passing Interface implementation. The Open MPI" + puts stderr "Project is an open source Message Passing Interface implementation that" + puts stderr "is developed and maintained by a consortium of academic, research, and" + puts stderr "industry partners. Open MPI is therefore able to combine the expertise," + puts stderr "technologies, and resources from all across the High Performance" + puts stderr "Computing community in order to build the best MPI library available." + puts stderr "Open MPI offers advantages for system and software vendors, application" + puts stderr "developers and computer science researchers." +} + +conflict openmpi + +prepend-path --delim ":" CPATH "/share/apps/22.04/manual/openmpi/4.1.5-mpi-io/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/manual/openmpi/4.1.5-mpi-io/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/manual/openmpi/4.1.5-mpi-io/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/manual/openmpi/4.1.5-mpi-io/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/manual/openmpi/4.1.5-mpi-io/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/manual/openmpi/4.1.5-mpi-io/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/manual/openmpi/4.1.5-mpi-io/share/man" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/manual/openmpi/4.1.5-mpi-io/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/manual/openmpi/4.1.5-mpi-io/." +setenv MPICC "/share/apps/22.04/manual/openmpi/4.1.5-mpi-io/bin/mpicc" +setenv MPICXX "/share/apps/22.04/manual/openmpi/4.1.5-mpi-io/bin/mpic++" +setenv MPIF77 "/share/apps/22.04/manual/openmpi/4.1.5-mpi-io/bin/mpif77" +setenv MPIF90 "/share/apps/22.04/manual/openmpi/4.1.5-mpi-io/bin/mpif90" +setenv OPENMPI_ROOT "/share/apps/22.04/manual/openmpi/4.1.5-mpi-io" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/openmpi/default b/modulefiles/hpccf/peloton/tcl/openmpi/default new file mode 120000 index 00000000..480df12e --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/openmpi/default @@ -0,0 +1 @@ +/share/apps/22.04/modulefiles/spack/tcl/openmpi/4.1.5 \ No newline at end of file diff --git a/modulefiles/hpccf/peloton/tcl/orthofinder/2.5.4 b/modulefiles/hpccf/peloton/tcl/orthofinder/2.5.4 new file mode 100644 index 00000000..7e58ce1e --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/orthofinder/2.5.4 @@ -0,0 +1,42 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:28.654752 +## +## orthofinder@2.5.4%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/s7rszad +## + + +module-whatis "OrthoFinder is a fast, accurate and comprehensive analysis tool for comparative genomics." + +proc ModulesHelp { } { + puts stderr "Name : orthofinder" + puts stderr "Version: 2.5.4" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "OrthoFinder is a fast, accurate and comprehensive analysis tool for" + puts stderr "comparative genomics. It finds orthologues and orthogroups infers rooted" + puts stderr "gene trees for all orthogroups and infers a rooted species tree for the" + puts stderr "species being analysed. OrthoFinder also provides comprehensive" + puts stderr "statistics for comparative genomic analyses. OrthoFinder is simple to" + puts stderr "use and all you need to run it is a set of protein sequence files (one" + puts stderr "per species) in FASTA format." +} + +module load diamond/2.0.15 +module load fastme/2.1.5.1 +module load mcl/14-137 +prereq diamond/2.0.15 +prereq fastme/2.1.5.1 +prereq mcl/14-137 +conflict orthofinder + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/orthofinder-2.5.4-s7rszad2g2lfigcxzcl3dtnlv3nqs2gq/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/orthofinder-2.5.4-s7rszad2g2lfigcxzcl3dtnlv3nqs2gq/." +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-numpy-1.24.3-weuaipxfhdzjufh7dwrjpe7mbm3xvdp7/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-setuptools-63.4.3-eipobqg37cmma4kuuguhojfyvoorlzaq/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-scipy-1.10.1-6ipglfvw2opooqn5mvnq3mihl7wpnx3c/lib/python3.10/site-packages" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/orthofinder-2.5.4-s7rszad2g2lfigcxzcl3dtnlv3nqs2gq/bin" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/orthofinder-2.5.4-s7rszad2g2lfigcxzcl3dtnlv3nqs2gq/bin/tools" +setenv ORTHOFINDER_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/orthofinder-2.5.4-s7rszad2g2lfigcxzcl3dtnlv3nqs2gq" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/orthomcl/2.0.9 b/modulefiles/hpccf/peloton/tcl/orthomcl/2.0.9 new file mode 100644 index 00000000..8029b981 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/orthomcl/2.0.9 @@ -0,0 +1,31 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:28.851766 +## +## orthomcl@2.0.9%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/pr7vrrs +## + + +module-whatis "OrthoMCL is a genome-scale algorithm for grouping orthologous protein sequences." + +proc ModulesHelp { } { + puts stderr "Name : orthomcl" + puts stderr "Version: 2.0.9" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "OrthoMCL is a genome-scale algorithm for grouping orthologous protein" + puts stderr "sequences." +} + +module load blast-plus/2.13.0 +prereq blast-plus/2.13.0 +conflict orthomcl + +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/orthomcl-2.0.9-pr7vrrslktrxmcvcwq4b2an4uhb375qg/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/orthomcl-2.0.9-pr7vrrslktrxmcvcwq4b2an4uhb375qg/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/orthomcl-2.0.9-pr7vrrslktrxmcvcwq4b2an4uhb375qg/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/orthomcl-2.0.9-pr7vrrslktrxmcvcwq4b2an4uhb375qg/." +prepend-path --delim ":" PERL5LIB "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/orthomcl-2.0.9-pr7vrrslktrxmcvcwq4b2an4uhb375qg/lib" +setenv ORTHOMCL_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/orthomcl-2.0.9-pr7vrrslktrxmcvcwq4b2an4uhb375qg" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/parallel/20220522 b/modulefiles/hpccf/peloton/tcl/parallel/20220522 new file mode 100644 index 00000000..04f7b7af --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/parallel/20220522 @@ -0,0 +1,28 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:29.016519 +## +## parallel@20220522%gcc@11.3.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/5lij72z +## + + +module-whatis "GNU parallel is a shell tool for executing jobs in parallel using one or more computers. A job can be a single command or a small script that has to be run for each of the lines in the input. " + +proc ModulesHelp { } { + puts stderr "Name : parallel" + puts stderr "Version: 20220522" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "GNU parallel is a shell tool for executing jobs in parallel using one or" + puts stderr "more computers. A job can be a single command or a small script that has" + puts stderr "to be run for each of the lines in the input." +} + +conflict parallel + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/parallel-20220522-5lij72zf3kwqorqmrbmkdjqlvfc6njbc/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/parallel-20220522-5lij72zf3kwqorqmrbmkdjqlvfc6njbc/share/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/parallel-20220522-5lij72zf3kwqorqmrbmkdjqlvfc6njbc/." +setenv PARALLEL_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/parallel-20220522-5lij72zf3kwqorqmrbmkdjqlvfc6njbc" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/paraview/5.11.1 b/modulefiles/hpccf/peloton/tcl/paraview/5.11.1 new file mode 100644 index 00000000..86a27fc5 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/paraview/5.11.1 @@ -0,0 +1,52 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:29.291316 +## +## paraview@5.11.1%gcc@11.3.0~adios2~advanced_debug~catalyst~cuda+development_files~examples~eyedomelighting~fortran~hdf5~ipo+kits~libcatalyst+mpi+opengl2~osmesa~pagosa~python~qt~raytracing~rocm+shared~visitbridge build_edition=canonical build_system=cmake build_type=Release generator=ninja patches=48b8058,acb3805 use_vtkm=default arch=linux-ubuntu22.04-x86_64_v2/jukcyow +## +## Configure options: -DVTK_OPENGL_HAS_OSMESA:BOOL=OFF -DVTK_USE_X:BOOL=ON -DPARAVIEW_INSTALL_DEVELOPMENT_FILES:BOOL=ON -DBUILD_TESTING:BOOL=OFF -DOpenGL_GL_PREFERENCE:STRING=LEGACY -DPARAVIEW_ENABLE_VISITBRIDGE:BOOL=OFF -DVISIT_BUILD_READER_Silo:BOOL=OFF -DVTK_MODULE_USE_EXTERNAL_VTK_verdict:BOOL=OFF -DVTK_MODULE_USE_EXTERNAL_ParaView_vtkcatalyst:BOOL=OFF -DVTK_MODULE_USE_EXTERNAL_VTK_ioss:BOOL=OFF -DVTK_MODULE_USE_EXTERNAL_VTK_exprtk:BOOL=OFF -DVTK_MODULE_USE_EXTERNAL_VTK_fmt:BOOL=OFF -DPARAVIEW_BUILD_EDITION:STRING=CANONICAL -DPARAVIEW_USE_QT:BOOL=OFF -DPARAVIEW_BUILD_WITH_EXTERNAL=ON -DPARAVIEW_ENABLE_EXAMPLES:BOOL=OFF -DVTK_MODULE_USE_EXTERNAL_ParaView_cgns=OFF -DVTK_MODULE_USE_EXTERNAL_VTK_gl2ps=OFF -DVTK_MODULE_USE_EXTERNAL_VTK_libharu=OFF -DVTK_MODULE_USE_EXTERNAL_VTK_utf8=OFF -DPARAVIEW_ENABLE_PYTHON:BOOL=OFF -DPARAVIEW_USE_MPI:BOOL=ON -DMPIEXEC:FILEPATH=/share/apps/22.04/manual/openmpi/4.1.5/bin/mpiexec -DMPI_CXX_COMPILER:PATH=/share/apps/22.04/manual/openmpi/4.1.5/bin/mpic++ -DMPI_C_COMPILER:PATH=/share/apps/22.04/manual/openmpi/4.1.5/bin/mpicc -DMPI_Fortran_COMPILER:PATH=/share/apps/22.04/manual/openmpi/4.1.5/bin/mpif90 -DPARAVIEW_BUILD_SHARED_LIBS:BOOL=ON -DPARAVIEW_USE_CUDA:BOOL=OFF -DPARAVIEW_BUILD_WITH_KITS:BOOL=ON -DPARAVIEW_USE_HIP:BOOL=OFF -DPARAVIEW_ENABLE_RAYTRACING:BOOL=OFF -DVTK_ENABLE_OSPRAY:BOOL=OFF -DVTKOSPRAY_ENABLE_DENOISER:BOOL=OFF +## + + +module-whatis "ParaView is an open-source, multi-platform data analysis and visualization application. This package includes the Catalyst in-situ library for versions 5.7 and greater, otherwise use the catalyst package." + +proc ModulesHelp { } { + puts stderr "Name : paraview" + puts stderr "Version: 5.11.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "ParaView is an open-source, multi-platform data analysis and" + puts stderr "visualization application. This package includes the Catalyst in-situ" + puts stderr "library for versions 5.7 and greater, otherwise use the catalyst" + puts stderr "package." +} + +module load bzip2/1.0.8 +module load eigen/3.4.0 +module load nlohmann-json/3.11.2 +module load openmpi/4.1.5 +module load zlib/1.2.13 +prereq bzip2/1.0.8 +prereq eigen/3.4.0 +prereq nlohmann-json/3.11.2 +prereq openmpi/4.1.5 +prereq zlib/1.2.13 +conflict paraview + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/paraview-5.11.1-jukcyow46tpg36ok2fqxizd2bmk63atl/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/paraview-5.11.1-jukcyow46tpg36ok2fqxizd2bmk63atl/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/paraview-5.11.1-jukcyow46tpg36ok2fqxizd2bmk63atl/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/paraview-5.11.1-jukcyow46tpg36ok2fqxizd2bmk63atl/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/paraview-5.11.1-jukcyow46tpg36ok2fqxizd2bmk63atl/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/paraview-5.11.1-jukcyow46tpg36ok2fqxizd2bmk63atl/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/paraview-5.11.1-jukcyow46tpg36ok2fqxizd2bmk63atl/." +prepend-path --delim ":" XLOCALEDIR "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libx11-1.8.4-elhqje4pmr6c4jp256hrfear2cp45szn/share/X11/locale" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/paraview-5.11.1-jukcyow46tpg36ok2fqxizd2bmk63atl/lib/python3.10/site-packages" +setenv PROJ_LIB "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/proj-8.1.0-fe5o6q7axlafb5yvp6irhoeud6sdllub/share/proj" +setenv ParaView_DIR "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/paraview-5.11.1-jukcyow46tpg36ok2fqxizd2bmk63atl" +setenv PARAVIEW_VTK_DIR "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/paraview-5.11.1-jukcyow46tpg36ok2fqxizd2bmk63atl/lib/cmake/paraview-5.11/vtk" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/paraview-5.11.1-jukcyow46tpg36ok2fqxizd2bmk63atl/lib" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/paraview-5.11.1-jukcyow46tpg36ok2fqxizd2bmk63atl/lib" +setenv PARAVIEW_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/paraview-5.11.1-jukcyow46tpg36ok2fqxizd2bmk63atl" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/parmetis/4.0.3 b/modulefiles/hpccf/peloton/tcl/parmetis/4.0.3 new file mode 100644 index 00000000..a2f02685 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/parmetis/4.0.3 @@ -0,0 +1,34 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:29.809803 +## +## parmetis@4.0.3%gcc@11.3.0~gdb~int64~ipo+shared build_system=cmake build_type=Release generator=make patches=4f89253,50ed208,704b84f arch=linux-ubuntu22.04-x86_64_v2/elizveq +## +## Configure options: -DGKLIB_PATH:PATH=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/metis-5.1.0-koewlvcthuotliz2aetim6uorzsbewj5/include/GKlib -DMETIS_PATH:PATH=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/metis-5.1.0-koewlvcthuotliz2aetim6uorzsbewj5 -DCMAKE_C_COMPILER:STRING=/share/apps/22.04/manual/openmpi/4.1.5/bin/mpicc -DCMAKE_CXX_COMPILER:STRING=/share/apps/22.04/manual/openmpi/4.1.5/bin/mpic++ -DSHARED:BOOL=ON +## + + +module-whatis "ParMETIS is an MPI-based parallel library that implements a variety of algorithms for partitioning unstructured graphs, meshes, and for computing fill-reducing orderings of sparse matrices." + +proc ModulesHelp { } { + puts stderr "Name : parmetis" + puts stderr "Version: 4.0.3" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "ParMETIS is an MPI-based parallel library that implements a variety of" + puts stderr "algorithms for partitioning unstructured graphs, meshes, and for" + puts stderr "computing fill-reducing orderings of sparse matrices." +} + +conflict parmetis + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/parmetis-4.0.3-elizveqoyrpy5es2uj2hbknzp4lr3z3f/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/parmetis-4.0.3-elizveqoyrpy5es2uj2hbknzp4lr3z3f/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/parmetis-4.0.3-elizveqoyrpy5es2uj2hbknzp4lr3z3f/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/parmetis-4.0.3-elizveqoyrpy5es2uj2hbknzp4lr3z3f/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/parmetis-4.0.3-elizveqoyrpy5es2uj2hbknzp4lr3z3f/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/parmetis-4.0.3-elizveqoyrpy5es2uj2hbknzp4lr3z3f/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/parmetis-4.0.3-elizveqoyrpy5es2uj2hbknzp4lr3z3f/." +setenv PARMETIS_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/parmetis-4.0.3-elizveqoyrpy5es2uj2hbknzp4lr3z3f" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/phylip/3.697 b/modulefiles/hpccf/peloton/tcl/phylip/3.697 new file mode 100644 index 00000000..d2808807 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/phylip/3.697 @@ -0,0 +1,26 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:29.844731 +## +## phylip@3.697%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/yotuc44 +## + + +module-whatis "PHYLIP (the PHYLogeny Inference Package) is a package of programs for inferring phylogenies (evolutionary trees)." + +proc ModulesHelp { } { + puts stderr "Name : phylip" + puts stderr "Version: 3.697" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "PHYLIP (the PHYLogeny Inference Package) is a package of programs for" + puts stderr "inferring phylogenies (evolutionary trees)." +} + +conflict phylip + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/phylip-3.697-yotuc442w73q3stzcfuemxp5ppkcxpbc/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/phylip-3.697-yotuc442w73q3stzcfuemxp5ppkcxpbc/." +setenv PHYLIP_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/phylip-3.697-yotuc442w73q3stzcfuemxp5ppkcxpbc" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/phyluce/1.6.7 b/modulefiles/hpccf/peloton/tcl/phyluce/1.6.7 new file mode 100644 index 00000000..6d833fbf --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/phyluce/1.6.7 @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:30.222375 +## +## phyluce@1.6.7%gcc@11.3.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v2/saenf3w +## + + +module-whatis "phyluce (phy-loo-chee) is a software package that was initially developed for analyzing data collected from ultraconserved elements in organismal genomes" + +proc ModulesHelp { } { + puts stderr "Name : phyluce" + puts stderr "Version: 1.6.7" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "phyluce (phy-loo-chee) is a software package that was initially" + puts stderr "developed for analyzing data collected from ultraconserved elements in" + puts stderr "organismal genomes" +} + +module load bwa/0.7.17 +module load mafft/7.505 +module load muscle/3.8.1551 +module load seqtk/1.3 +module load velvet/1.2.10 +prereq bwa/0.7.17 +prereq mafft/7.505 +prereq muscle/3.8.1551 +prereq seqtk/1.3 +prereq velvet/1.2.10 +conflict phyluce + +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/phyluce-1.6.7-saenf3wgeaub3tnh5m5mlyty27poaqvn/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/phyluce-1.6.7-saenf3wgeaub3tnh5m5mlyty27poaqvn/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/phyluce-1.6.7-saenf3wgeaub3tnh5m5mlyty27poaqvn/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/phyluce-1.6.7-saenf3wgeaub3tnh5m5mlyty27poaqvn/." +prepend-path --delim ":" PERL5LIB "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-db-file-1.858-k7rxlfvzjzkepskmo4udsyjw2yjallda/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-uri-5.08-zlzdyl42tjgezd6shdnwzjzyhaosh3dy/lib/perl5" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/phyluce-1.6.7-saenf3wgeaub3tnh5m5mlyty27poaqvn/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-matplotlib-3.7.1-2tbk6ofewjs2ybz3pf5mnedmar4a3qtj/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-contourpy-1.0.5-w5ubnirw2a54xylbe5mtg3od4qy2hkcj/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-numpy-1.24.3-smq5zjvzvwacabs3urczo6cw6wax4jxd/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-setuptools-63.4.3-cncjqik3yxqj7xpxmpsxyad6nq56vfad/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-cycler-0.11.0-3pcs6rvaryxcc32lgmki3hrsgwiun76l/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-fonttools-4.37.3-ls4qcvdflnskoeebaad7v353ie7czzqb/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-kiwisolver-1.4.4-2sokfv2gk344zoqnme3fqwo7sfaomakh/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-packaging-23.0-uoxuqqcyacdnyxnlblqih3qoaam6josk/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-pillow-9.5.0-zmjpx4etvtpfuar4ib545n2akod5iaqa/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-pyparsing-3.0.9-s3rsocwi3wxdanyh3oe3sehonrzeeujv/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH 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+prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-pyyaml-6.0-y2grw7lwk4zmg4yxlnx5f57fewrnkzz4/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-reportlab-3.6.12-w3tco3mltgd3eduez5tv7vnf6kgvhsqn/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-smartypants-2.0.1-hlcpgridvijgewwq6fwyikd43p4fojil/lib/python3.10/site-packages" +prepend-path --delim ":" XLOCALEDIR "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libx11-1.8.4-elhqje4pmr6c4jp256hrfear2cp45szn/share/X11/locale" +prepend-path --delim ":" XDG_DATA_DIRS "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gobject-introspection-1.72.1-xch6onwdf5vxxc2xfg36w2hf5zqoly5o/share" +prepend-path --delim ":" GI_TYPELIB_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gobject-introspection-1.72.1-xch6onwdf5vxxc2xfg36w2hf5zqoly5o/lib/girepository-1.0" +prepend-path --delim ":" XDG_DATA_DIRS "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/harfbuzz-5.3.1-aqhg7eqqbpdgoemjir33tj7cxgiij6ht/share" +prepend-path --delim ":" GI_TYPELIB_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/harfbuzz-5.3.1-aqhg7eqqbpdgoemjir33tj7cxgiij6ht/lib/girepository-1.0" +prepend-path --delim ":" XDG_DATA_DIRS "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/pango-1.50.13-6slmqt2zkeh47bupnm5irsqids2gnvjo/share" +prepend-path --delim ":" GI_TYPELIB_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/pango-1.50.13-6slmqt2zkeh47bupnm5irsqids2gnvjo/lib/girepository-1.0" +prepend-path --delim " " TCLLIBPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/tk-8.6.11-rchs4c5rcxfu6budszyg467or7mccqub/lib" +setenv R_HOME "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/r-4.2.2-qquqjjeqlfvg7roteta4pg5egn5lanes/rlib/R" +setenv PHYLUCE_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/phyluce-1.6.7-saenf3wgeaub3tnh5m5mlyty27poaqvn" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/picard/2.26.2 b/modulefiles/hpccf/peloton/tcl/picard/2.26.2 new file mode 100644 index 00000000..4d787c36 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/picard/2.26.2 @@ -0,0 +1,27 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:32.589560 +## +## picard@2.26.2%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/3knxjvu +## + + +module-whatis "Picard is a set of command line tools for manipulating high-throughput sequencing (HTS) data and formats such as SAM/BAM/CRAM and VCF. " + +proc ModulesHelp { } { + puts stderr "Name : picard" + puts stderr "Version: 2.26.2" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Picard is a set of command line tools for manipulating high-throughput" + puts stderr "sequencing (HTS) data and formats such as SAM/BAM/CRAM and VCF." +} + +conflict picard + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/picard-2.26.2-3knxjvul5kjy2omq5egpeibyaele5ghk/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/picard-2.26.2-3knxjvul5kjy2omq5egpeibyaele5ghk/." +prepend-path --delim ":" PICARD "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/picard-2.26.2-3knxjvul5kjy2omq5egpeibyaele5ghk/bin/picard.jar" +setenv PICARD_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/picard-2.26.2-3knxjvul5kjy2omq5egpeibyaele5ghk" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/pigz/2.7 b/modulefiles/hpccf/peloton/tcl/pigz/2.7 new file mode 100644 index 00000000..63814474 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/pigz/2.7 @@ -0,0 +1,27 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:32.622944 +## +## pigz@2.7%gcc@11.3.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v2/hmwbpnc +## + + +module-whatis "A parallel implementation of gzip for modern multi-processor, multi-core machines." + +proc ModulesHelp { } { + puts stderr "Name : pigz" + puts stderr "Version: 2.7" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "A parallel implementation of gzip for modern multi-processor, multi-core" + puts stderr "machines." +} + +conflict pigz + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/pigz-2.7-hmwbpnc6rmjcauvzztfoijacbiojpszn/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/pigz-2.7-hmwbpnc6rmjcauvzztfoijacbiojpszn/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/pigz-2.7-hmwbpnc6rmjcauvzztfoijacbiojpszn/." +setenv PIGZ_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/pigz-2.7-hmwbpnc6rmjcauvzztfoijacbiojpszn" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/pilon/1.22 b/modulefiles/hpccf/peloton/tcl/pilon/1.22 new file mode 100644 index 00000000..a838c4db --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/pilon/1.22 @@ -0,0 +1,26 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:32.653786 +## +## pilon@1.22%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/nyxbiz4 +## + + +module-whatis "Pilon is an automated genome assembly improvement and variant detection tool." + +proc ModulesHelp { } { + puts stderr "Name : pilon" + puts stderr "Version: 1.22" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Pilon is an automated genome assembly improvement and variant detection" + puts stderr "tool." +} + +conflict pilon + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/pilon-1.22-nyxbiz4bgdwalkjhuykfzarxuroq6uj7/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/pilon-1.22-nyxbiz4bgdwalkjhuykfzarxuroq6uj7/." +setenv PILON_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/pilon-1.22-nyxbiz4bgdwalkjhuykfzarxuroq6uj7" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/planck-likelihood/2.00 b/modulefiles/hpccf/peloton/tcl/planck-likelihood/2.00 new file mode 100644 index 00000000..ef260163 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/planck-likelihood/2.00 @@ -0,0 +1,33 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:32.734139 +## +## planck-likelihood@2.00%gcc@11.3.0~lensing-ext~plik-DS~plik-HM-ext~plik-unbinned build_system=generic patches=933b877,c4719d3 arch=linux-ubuntu22.04-x86_64_v2/ajlwnfs +## + + +module-whatis "2015 Cosmic Microwave Background (CMB) spectra and likelihood code" + +proc ModulesHelp { } { + puts stderr "Name : planck-likelihood" + puts stderr "Version: 2.00" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "2015 Cosmic Microwave Background (CMB) spectra and likelihood code" +} + +conflict planck-likelihood + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/planck-likelihood-2.00-ajlwnfs4lx74zsl3pzw5k4fsjxao3nf2/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/planck-likelihood-2.00-ajlwnfs4lx74zsl3pzw5k4fsjxao3nf2/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/planck-likelihood-2.00-ajlwnfs4lx74zsl3pzw5k4fsjxao3nf2/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/planck-likelihood-2.00-ajlwnfs4lx74zsl3pzw5k4fsjxao3nf2/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/planck-likelihood-2.00-ajlwnfs4lx74zsl3pzw5k4fsjxao3nf2/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/planck-likelihood-2.00-ajlwnfs4lx74zsl3pzw5k4fsjxao3nf2/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/planck-likelihood-2.00-ajlwnfs4lx74zsl3pzw5k4fsjxao3nf2/." +setenv CLIK_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/planck-likelihood-2.00-ajlwnfs4lx74zsl3pzw5k4fsjxao3nf2" +setenv CLIK_DATA "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/planck-likelihood-2.00-ajlwnfs4lx74zsl3pzw5k4fsjxao3nf2/share/clik" +setenv CLIK_PLUGIN "rel2015" +setenv PLANCK_LIKELIHOOD_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/planck-likelihood-2.00-ajlwnfs4lx74zsl3pzw5k4fsjxao3nf2" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/plink/1.07 b/modulefiles/hpccf/peloton/tcl/plink/1.07 new file mode 100644 index 00000000..3c204708 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/plink/1.07 @@ -0,0 +1,27 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:32.782184 +## +## plink@1.07%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/3a7fmio +## + + +module-whatis "PLINK is a free, open-source whole genome association analysis toolset, designed to perform a range of basic, large-scale analyses in a computationally efficient manner." + +proc ModulesHelp { } { + puts stderr "Name : plink" + puts stderr "Version: 1.07" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "PLINK is a free, open-source whole genome association analysis toolset," + puts stderr "designed to perform a range of basic, large-scale analyses in a" + puts stderr "computationally efficient manner." +} + +conflict plink + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/plink-1.07-3a7fmioq3lg3w3ext63ee53rja7rp43u/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/plink-1.07-3a7fmioq3lg3w3ext63ee53rja7rp43u/." +setenv PLINK_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/plink-1.07-3a7fmioq3lg3w3ext63ee53rja7rp43u" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/plumed/2.8.2 b/modulefiles/hpccf/peloton/tcl/plumed/2.8.2 new file mode 100644 index 00000000..0f090f6c --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/plumed/2.8.2 @@ -0,0 +1,48 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:32.863308 +## +## plumed@2.8.2%gcc@11.3.0+gsl+mpi+shared arrayfire=none build_system=autotools optional_modules=all arch=linux-ubuntu22.04-x86_64_v2/erb2jdh +## +## Configure options: --disable-ld-r --enable-mpi CXX=/share/apps/22.04/manual/openmpi/4.1.5/bin/mpic++ LDFLAGS=-L/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gsl-2.7.1-7z5dz5cle3byaeyf4uvq6x3biakagq2b/lib -L/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openblas-0.3.23-hjvgpb5hmku762lpowdlqs4qoxmmizv3/lib -lgsl -lopenblas --enable-shared=yes --enable-gsl=yes --enable-af_cpu=no --enable-af_cuda=no --enable-af_ocl=no --enable-modules=all +## + + +module-whatis "PLUMED is an open source library for free energy calculations in molecular systems which works together with some of the most popular molecular dynamics engines." + +proc ModulesHelp { } { + puts stderr "Name : plumed" + puts stderr "Version: 2.8.2" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "PLUMED is an open source library for free energy calculations in" + puts stderr "molecular systems which works together with some of the most popular" + puts stderr "molecular dynamics engines. Free energy calculations can be performed as" + puts stderr "a function of many order parameters with a particular focus on" + puts stderr "biological problems, using state of the art methods such as" + puts stderr "metadynamics, umbrella sampling and Jarzynski-equation based steered MD." + puts stderr "The software, written in C++, can be easily interfaced with both fortran" + puts stderr "and C/C++ codes." +} + +module load gsl/2.7.1 +module load openblas/0.3.23 +module load openmpi/4.1.5 +module load zlib/1.2.13 +prereq gsl/2.7.1 +prereq openblas/0.3.23 +prereq openmpi/4.1.5 +prereq zlib/1.2.13 +conflict plumed + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/plumed-2.8.2-erb2jdhcjv4m6mfrh4hl4omof2k2mfh6/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/plumed-2.8.2-erb2jdhcjv4m6mfrh4hl4omof2k2mfh6/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/plumed-2.8.2-erb2jdhcjv4m6mfrh4hl4omof2k2mfh6/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/plumed-2.8.2-erb2jdhcjv4m6mfrh4hl4omof2k2mfh6/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/plumed-2.8.2-erb2jdhcjv4m6mfrh4hl4omof2k2mfh6/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/plumed-2.8.2-erb2jdhcjv4m6mfrh4hl4omof2k2mfh6/bin" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/plumed-2.8.2-erb2jdhcjv4m6mfrh4hl4omof2k2mfh6/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/plumed-2.8.2-erb2jdhcjv4m6mfrh4hl4omof2k2mfh6/." +setenv PLUMED_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/plumed-2.8.2-erb2jdhcjv4m6mfrh4hl4omof2k2mfh6" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/pmix/4.1.1 b/modulefiles/hpccf/peloton/tcl/pmix/4.1.1 new file mode 100644 index 00000000..4b8d7a51 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/pmix/4.1.1 @@ -0,0 +1,50 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:33.072251 +## +## pmix@4.1.1%gcc@11.3.0~docs+pmi_backwards_compatibility~restful build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/zzte3r2 +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis "The Process Management Interface (PMI) has been used for quite some time as a means of exchanging wireup information needed for interprocess communication. However, meeting the significant orchestration challenges presented by exascale systems requires that the process-to-system interface evolve to permit a tighter integration between the different components of the parallel application and existing and future SMS solutions." + +proc ModulesHelp { } { + puts stderr "Name : pmix" + puts stderr "Version: 4.1.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "The Process Management Interface (PMI) has been used for quite some time" + puts stderr "as a means of exchanging wireup information needed for interprocess" + puts stderr "communication. However, meeting the significant orchestration challenges" + puts stderr "presented by exascale systems requires that the process-to-system" + puts stderr "interface evolve to permit a tighter integration between the different" + puts stderr "components of the parallel application and existing and future SMS" + puts stderr "solutions. PMI Exascale (PMIx) addresses these needs by providing an" + puts stderr "extended version of the PMI definitions specifically designed to support" + puts stderr "exascale and beyond environments by: (a) adding flexibility to the" + puts stderr "functionality expressed in the existing APIs, (b) augmenting the" + puts stderr "interfaces with new APIs that provide extended capabilities, (c) forging" + puts stderr "a collaboration between subsystem providers including resource manager," + puts stderr "fabric, file system, and programming library developers, (d)" + puts stderr "establishing a standards-like body for maintaining the definitions, and" + puts stderr "(e) providing a reference implementation of the PMIx standard that" + puts stderr "demonstrates the desired level of scalability while maintaining strict" + puts stderr "separation between it and the standard itself." +} + +conflict pmix + +prepend-path --delim ":" CPATH "/share/apps/22.04/manual/pmix/4.1.1/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/manual/pmix/4.1.1/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/manual/pmix/4.1.1/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/manual/pmix/4.1.1/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/manual/pmix/4.1.1/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/manual/pmix/4.1.1/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/manual/pmix/4.1.1/share/man" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/manual/pmix/4.1.1/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/manual/pmix/4.1.1/." +setenv PMIX_ROOT "/share/apps/22.04/manual/pmix/4.1.1" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/pmix/4.2.6 b/modulefiles/hpccf/peloton/tcl/pmix/4.2.6 new file mode 100644 index 00000000..6839a737 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/pmix/4.2.6 @@ -0,0 +1,50 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-09-14 16:05:40.035093 +## +## pmix@4.2.6%gcc@11.3.0~docs+pmi_backwards_compatibility~python~restful build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/huqcfkt +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis "The Process Management Interface (PMI) has been used for quite some time as a means of exchanging wireup information needed for interprocess communication. However, meeting the significant orchestration challenges presented by exascale systems requires that the process-to-system interface evolve to permit a tighter integration between the different components of the parallel application and existing and future SMS solutions." + +proc ModulesHelp { } { + puts stderr "Name : pmix" + puts stderr "Version: 4.2.6" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "The Process Management Interface (PMI) has been used for quite some time" + puts stderr "as a means of exchanging wireup information needed for interprocess" + puts stderr "communication. However, meeting the significant orchestration challenges" + puts stderr "presented by exascale systems requires that the process-to-system" + puts stderr "interface evolve to permit a tighter integration between the different" + puts stderr "components of the parallel application and existing and future SMS" + puts stderr "solutions. PMI Exascale (PMIx) addresses these needs by providing an" + puts stderr "extended version of the PMI definitions specifically designed to support" + puts stderr "exascale and beyond environments by: (a) adding flexibility to the" + puts stderr "functionality expressed in the existing APIs, (b) augmenting the" + puts stderr "interfaces with new APIs that provide extended capabilities, (c) forging" + puts stderr "a collaboration between subsystem providers including resource manager," + puts stderr "fabric, file system, and programming library developers, (d)" + puts stderr "establishing a standards-like body for maintaining the definitions, and" + puts stderr "(e) providing a reference implementation of the PMIx standard that" + puts stderr "demonstrates the desired level of scalability while maintaining strict" + puts stderr "separation between it and the standard itself." +} + +conflict pmix + +prepend-path --delim ":" CPATH "/share/apps/22.04/manual/pmix/4.2.6/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/manual/pmix/4.2.6/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/manual/pmix/4.2.6/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/manual/pmix/4.2.6/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/manual/pmix/4.2.6/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/manual/pmix/4.2.6/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/manual/pmix/4.2.6/share/man" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/manual/pmix/4.2.6/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/manual/pmix/4.2.6/." +setenv PMIX_ROOT "/share/apps/22.04/manual/pmix/4.2.6" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/pplacer/1.1.alpha19 b/modulefiles/hpccf/peloton/tcl/pplacer/1.1.alpha19 new file mode 100644 index 00000000..07f25e3a --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/pplacer/1.1.alpha19 @@ -0,0 +1,29 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:33.193384 +## +## pplacer@1.1.alpha19%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/5tz6ssq +## + + +module-whatis "Pplacer places query sequences on a fixed reference phylogenetic tree to maximize phylogenetic likelihood or posterior probability according to a reference alignment. Pplacer is designed to be fast, to give useful information about uncertainty, and to offer advanced visualization and downstream analysis. " + +proc ModulesHelp { } { + puts stderr "Name : pplacer" + puts stderr "Version: 1.1.alpha19" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Pplacer places query sequences on a fixed reference phylogenetic tree to" + puts stderr "maximize phylogenetic likelihood or posterior probability according to a" + puts stderr "reference alignment. Pplacer is designed to be fast, to give useful" + puts stderr "information about uncertainty, and to offer advanced visualization and" + puts stderr "downstream analysis." +} + +conflict pplacer + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/pplacer-1.1.alpha19-5tz6ssq4nshpphso5ztvuxpb6z73asxy/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/pplacer-1.1.alpha19-5tz6ssq4nshpphso5ztvuxpb6z73asxy/." +setenv PPLACER_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/pplacer-1.1.alpha19-5tz6ssq4nshpphso5ztvuxpb6z73asxy" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/prodigal/2.6.3 b/modulefiles/hpccf/peloton/tcl/prodigal/2.6.3 new file mode 100644 index 00000000..0fb369fd --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/prodigal/2.6.3 @@ -0,0 +1,25 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:33.234778 +## +## prodigal@2.6.3%gcc@11.3.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v2/ffbskzz +## + + +module-whatis "Fast, reliable protein-coding gene prediction for prokaryotic genomes." + +proc ModulesHelp { } { + puts stderr "Name : prodigal" + puts stderr "Version: 2.6.3" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Fast, reliable protein-coding gene prediction for prokaryotic genomes." +} + +conflict prodigal + +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/prodigal-2.6.3-ffbskzzj2jkrjamlw77gedqobgyair63/." +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/prodigal-2.6.3-ffbskzzj2jkrjamlw77gedqobgyair63" +setenv PRODIGAL_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/prodigal-2.6.3-ffbskzzj2jkrjamlw77gedqobgyair63" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/prokka/1.14.6 b/modulefiles/hpccf/peloton/tcl/prokka/1.14.6 new file mode 100644 index 00000000..40b0e4cd --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/prokka/1.14.6 @@ -0,0 +1,33 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:33.340051 +## +## prokka@1.14.6%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/cs5fmoc +## + + +module-whatis "Prokka is a software tool to annotate bacterial, archaeal and viral genomes quickly and produce standards-compliant output files." + +proc ModulesHelp { } { + puts stderr "Name : prokka" + puts stderr "Version: 1.14.6" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Prokka is a software tool to annotate bacterial, archaeal and viral" + puts stderr "genomes quickly and produce standards-compliant output files." +} + +module load blast-plus/2.13.0 +module load hmmer/3.3.2 +module load prodigal/2.6.3 +prereq blast-plus/2.13.0 +prereq hmmer/3.3.2 +prereq prodigal/2.6.3 +conflict prokka + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/prokka-1.14.6-cs5fmocurebwggm22z2y4nz3gx4dduov/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/prokka-1.14.6-cs5fmocurebwggm22z2y4nz3gx4dduov/." +prepend-path --delim ":" PERL5LIB "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-bio-searchio-hmmer-1.7.3-rdnrjnwh7n477isgpxfqylpfdrk4uham/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-bioperl-1.7.6-lpnix2lf6nqg3iyrubxvnyk7t6cdhvt5/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-data-stag-0.14-qxa6ljpcfhied37o27ivbi7hjpgpqfac/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-io-string-1.08-lnknpiwgwbkk7nr7flyp5gllj6dkra5p/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-error-0.17029-b3fqppdcqfk473uk47lh5ieplbi2megs/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-graph-0.20105-uxpeq5uz3a3rpl6obadpcmxgf3jxn47d/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-http-message-6.44-ixxtnswgikoyk3kydcnvsu6qbcqoliu5/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-encode-locale-1.05-dusheff2zsdlsfacrxlh6qjggdp2gbmn/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-http-date-6.02-kaodnrbugleadkj2d6dmmpunqdeg74ho/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-io-html-1.004-ajvzukijazeq33mnar45d66uebcowesk/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-lwp-mediatypes-6.02-qw37ifctnvoerqv5266eyqnbon5oqu6z/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-try-tiny-0.31-kxe4fyatmf7rikvngyyqnlzjv2rgo5dq/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-uri-5.08-c7vatj7qwhicdqwematinnifeqmtiade/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-io-stringy-2.111-6xvxisedltkftzxhoi6f56wcugzwxj2l/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-ipc-run-20220807.0-ixfwzdqt2dbsqxk42n7edqc2fnac5p2m/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-io-tty-1.17-d6znwuah4nletarmwu42udfxjjwq7m7q/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-libwww-perl-6.68-54fbge7bahfikslhtcqvfzgl3ytkxup3/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-file-listing-6.04-mmfxbcbh6r4qdwxsw7rccrte3oevfdjq/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-html-parser-3.72-ogevb2dna3xrshhw2zm4k5beow6bqkpc/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-html-tagset-3.20-h6qhgjgl2rvmjziyberfurdnkc7hmtsp/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-http-cookies-6.10-6vdz54hj5l4is75s36gqicpdc5fjr6ni/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-http-daemon-6.01-ahan4a7pulhhahldioy4ojhuuzb5z32i/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-http-negotiate-6.01-k4hzwnp3igjws43ktbmhq2nnrjsktce7/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-net-http-6.22-vcbgjb3d5i6xctdli5med2mnsr63t7aa/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-www-robotrules-6.02-jxb5st6holvuezsz6b3sra26f4evpcst/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-libxml-perl-0.08-ha7uurcr5f4xg3vhe7q4in34iafutqlx/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-list-moreutils-0.430-3xzhqky7wh5yyr3egqkf6vikdjlyyqyk/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-exporter-tiny-1.006002-g3ofamwbighmr4ma4kaslrt7hfciklms/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-list-moreutils-xs-0.430-guiuzgtnftgmevegno7dkyqcvlizrsut/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-module-build-0.4232-wdn6u353uuool4hu46ohv7ujnha76r6w/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-set-scalar-1.29-l7msjzrcbhrlzbs4usmdze6nkqkozbn6/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-test-most-0.38-nxahf4b6mpnpgwhcdrsikiu6hfmn5xx5/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-exception-class-1.45-t5yy5qlayz2vbztdih23dlbajclnwhpn/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-class-data-inheritable-0.08-amjadsuhj75r25hjlra7l3snp6ggac73/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-devel-stacktrace-2.04-ailnskgbtgaedrnkjuxnbomlfvsemlla/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-test-deep-1.204-eg5s6qmrihxfamb5oswv34dppdfkc3bd/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-test-differences-0.69-xsgxqueoq6syq6n3nexh7qj7kpsuvmah/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-capture-tiny-0.48-il3jaqf2upunnzkzlotqopvqx2s3iz3i/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-text-diff-1.45-6yjxv4zdcupi5ek5rtbonudqwoota2ag/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-algorithm-diff-1.1903-66djhhbopf42ojrt54s2tpbulicbmxoo/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-test-exception-0.43-4nwuxhcxzhhn2yk3aj3ynjswvpyvhjy7/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-sub-uplevel-0.2800-jss357ct2ifo6fobdh4ec3su33mixbh7/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-test-warn-0.30-oop3kmff3gq72spktyek6xyx7vbm2omi/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-test-requiresinternet-0.05-j6viqrpa5bxgc4mnokx6duw6jwoo3jcb/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-dom-1.46-zr3vz62vh3kykubqs4v7zxr4emkea4hc/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-parser-2.46-cecp7xpe4wv3iqp3wtv25ytinzrgkay5/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-regexp-0.04-zb6nmbelftis6gx7crhejhqve45ka4wu/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-dom-xpath-0.14-gglkthdq2jnt5clpupbdbbnd7sklfo7m/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-xpathengine-0.14-njmd7kmm4i5j5cutagt2sv5ljvx5b75k/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-libxml-2.0201-3ea6roftkcilqlf25qk7av3k2ykx6q2l/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-namespacesupport-1.12_9-vz42efugx2pyx4wytuqm5xhnzre376kt/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-sax-1.02-kd3mvqlczikkc3bc5eib2ed24jsdfqph/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-sax-base-1.09-z4abcifhwmhh3fbnudv3nhcvawe2kv7m/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-sax-writer-0.57-rjw754swirs3to7ucbq45mtjg57xpdfr/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-filter-buffertext-1.01-l6gexlgy62irprrlmcrhpir6tsfe3doe/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-twig-3.52-y76nvxztr6rrd7dqb3quao2shvvpicic/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-writer-0.900-kgjhcfpmxqlhrolc6advoag7zmzcqe2p/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-yaml-1.30-qdvonqngv35aakaerkfxhaeitg7wwfjt/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-simple-2.25-hkgfq3u63vgyhk5wsmattxsyi3l2owuu/lib/perl5" +setenv PROKKA_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/prokka-1.14.6-cs5fmocurebwggm22z2y4nz3gx4dduov" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/py-biopython/1.81 b/modulefiles/hpccf/peloton/tcl/py-biopython/1.81 new file mode 100644 index 00000000..46844194 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/py-biopython/1.81 @@ -0,0 +1,30 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-04 10:34:08.722326 +## +## py-biopython@1.81%gcc@11.3.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v2/cj6auol +## + + +module-whatis "A distributed collaborative effort to develop Python libraries and applications which address the needs of current and future work in bioinformatics. " + +proc ModulesHelp { } { + puts stderr "Name : py-biopython" + puts stderr "Version: 1.81" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "A distributed collaborative effort to develop Python libraries and" + puts stderr "applications which address the needs of current and future work in" + puts stderr "bioinformatics." +} + +conflict py-biopython + +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-biopython-1.81-cj6auolz5yfeuzghg3t3u6fwusd2h2tv/lib" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-biopython-1.81-cj6auolz5yfeuzghg3t3u6fwusd2h2tv/." +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-biopython-1.81-cj6auolz5yfeuzghg3t3u6fwusd2h2tv/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-numpy-1.24.3-ncgncvgk3wg73eqiitkkumoniwwv5fnv/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-setuptools-63.4.3-lbj7d45k7odyhqivr4lk5oqyfeymtkux/lib/python3.10/site-packages" +setenv PY_BIOPYTHON_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-biopython-1.81-cj6auolz5yfeuzghg3t3u6fwusd2h2tv" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/py-checkm-genome/1.2.1 b/modulefiles/hpccf/peloton/tcl/py-checkm-genome/1.2.1 new file mode 100644 index 00000000..44f92be0 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/py-checkm-genome/1.2.1 @@ -0,0 +1,50 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:33.913477 +## +## py-checkm-genome@1.2.1%gcc@11.3.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v2/wqthq32 +## + + +module-whatis "Assess the quality of microbial genomes recovered from isolates, single cells, and metagenomes" + +proc ModulesHelp { } { + puts stderr "Name : py-checkm-genome" + puts stderr "Version: 1.2.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Assess the quality of microbial genomes recovered from isolates, single" + puts stderr "cells, and metagenomes" +} + +module load hmmer/3.3.2 +module load pplacer/1.1.alpha19 +module load prodigal/2.6.3 +prereq hmmer/3.3.2 +prereq pplacer/1.1.alpha19 +prereq prodigal/2.6.3 +conflict py-checkm-genome + +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-checkm-genome-1.2.1-wqthq32zwxtj3yhtry2nbst6zhox7dwc/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-checkm-genome-1.2.1-wqthq32zwxtj3yhtry2nbst6zhox7dwc/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-checkm-genome-1.2.1-wqthq32zwxtj3yhtry2nbst6zhox7dwc/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-checkm-genome-1.2.1-wqthq32zwxtj3yhtry2nbst6zhox7dwc/." +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-checkm-genome-1.2.1-wqthq32zwxtj3yhtry2nbst6zhox7dwc/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-dendropy-4.5.2-rra43v5c6efgai2r2q2aenfqwuz47kl2/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-setuptools-63.4.3-eipobqg37cmma4kuuguhojfyvoorlzaq/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-matplotlib-3.7.1-cyrgunsmm5sa2miprlfsnmu7bt2fb44x/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-contourpy-1.0.5-6dxtfbfw3ve43wanlk22jgiou5rowykj/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-numpy-1.24.3-weuaipxfhdzjufh7dwrjpe7mbm3xvdp7/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-cycler-0.11.0-dkdmrp3guekzj3odws3igj56j6wc7ewe/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-fonttools-4.37.3-dlch3w4sqv7nvjvv5rgxvhenxf3srmzj/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-kiwisolver-1.4.4-h76zdpd4jyd5j4qcr7tjldaxs3hkzzlu/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-packaging-23.0-kbmyij43godwvbh6ejqjscvetxsb3knu/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-pillow-9.5.0-mr45t2na2wtfajjt36jb7fk4jran7edu/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-pyparsing-3.0.9-ovxusrztmw6miiu6ddkjit3cofnf44pq/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-python-dateutil-2.8.2-ogz73eijxvwx4gidwjxknsdkvebktphd/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-six-1.16.0-ytzy3xh5ac3gndxg6nofrb4ocx7hv3ry/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-pysam-0.21.0-pbkm3vl4ukfe2wjvvezqkqehowuwqgmb/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-scipy-1.10.1-6ipglfvw2opooqn5mvnq3mihl7wpnx3c/lib/python3.10/site-packages" +setenv PY_CHECKM_GENOME_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-checkm-genome-1.2.1-wqthq32zwxtj3yhtry2nbst6zhox7dwc" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/py-cutadapt/4.1 b/modulefiles/hpccf/peloton/tcl/py-cutadapt/4.1 new file mode 100644 index 00000000..d08d13cf --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/py-cutadapt/4.1 @@ -0,0 +1,35 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:34.066224 +## +## py-cutadapt@4.1%gcc@11.3.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v2/splikzv +## + + +module-whatis "Cutadapt finds and removes adapter sequences, primers, poly-A tails and other types of unwanted sequence from your high-throughput sequencing reads." + +proc ModulesHelp { } { + puts stderr "Name : py-cutadapt" + puts stderr "Version: 4.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Cutadapt finds and removes adapter sequences, primers, poly-A tails and" + puts stderr "other types of unwanted sequence from your high-throughput sequencing" + puts stderr "reads." +} + +conflict py-cutadapt + +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-cutadapt-4.1-splikzvmapaiqatyjo3c3xqse4oqu6bd/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-cutadapt-4.1-splikzvmapaiqatyjo3c3xqse4oqu6bd/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-cutadapt-4.1-splikzvmapaiqatyjo3c3xqse4oqu6bd/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-cutadapt-4.1-splikzvmapaiqatyjo3c3xqse4oqu6bd/." +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-cutadapt-4.1-splikzvmapaiqatyjo3c3xqse4oqu6bd/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-cython-0.29.33-j7dz4z74r3ikjtz6pxss2xvrd4pvrmgb/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-setuptools-67.6.0-73pqhmiv63aez67x7bfchimen7vyv77c/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-dnaio-0.9.1-b5ov4u2th2ayhv3spaiqgauacpu3kdkp/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-xopen-1.6.0-bleewvezlrctkoureikfv6t4h3lg46pd/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-isal-1.1.0-yiyr3ikrqtenfgmvckbt6cs3n6crtkrf/lib/python3.10/site-packages" +setenv PY_CUTADAPT_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-cutadapt-4.1-splikzvmapaiqatyjo3c3xqse4oqu6bd" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/py-deeptools/3.3.0 b/modulefiles/hpccf/peloton/tcl/py-deeptools/3.3.0 new file mode 100644 index 00000000..80855dc2 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/py-deeptools/3.3.0 @@ -0,0 +1,63 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:34.261448 +## +## py-deeptools@3.3.0%gcc@11.3.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v2/m4udtcr +## + + +module-whatis "deepTools addresses the challenge of handling the large amounts of data that are now routinely generated from DNA sequencing centers." + +proc ModulesHelp { } { + puts stderr "Name : py-deeptools" + puts stderr "Version: 3.3.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "deepTools addresses the challenge of handling the large amounts of data" + puts stderr "that are now routinely generated from DNA sequencing centers." +} + +conflict py-deeptools + +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-deeptools-3.3.0-m4udtcrpg2ahzcmr4sv36s7ouk5dwbqy/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-deeptools-3.3.0-m4udtcrpg2ahzcmr4sv36s7ouk5dwbqy/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-deeptools-3.3.0-m4udtcrpg2ahzcmr4sv36s7ouk5dwbqy/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-deeptools-3.3.0-m4udtcrpg2ahzcmr4sv36s7ouk5dwbqy/." +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-deeptools-3.3.0-m4udtcrpg2ahzcmr4sv36s7ouk5dwbqy/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-deeptoolsintervals-0.1.9-scpnpm6vkgoyreu56p32al634qlqkn45/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-matplotlib-3.7.1-cyrgunsmm5sa2miprlfsnmu7bt2fb44x/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-contourpy-1.0.5-6dxtfbfw3ve43wanlk22jgiou5rowykj/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-numpy-1.24.3-weuaipxfhdzjufh7dwrjpe7mbm3xvdp7/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-setuptools-63.4.3-eipobqg37cmma4kuuguhojfyvoorlzaq/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-cycler-0.11.0-dkdmrp3guekzj3odws3igj56j6wc7ewe/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-fonttools-4.37.3-dlch3w4sqv7nvjvv5rgxvhenxf3srmzj/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-kiwisolver-1.4.4-h76zdpd4jyd5j4qcr7tjldaxs3hkzzlu/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-packaging-23.0-kbmyij43godwvbh6ejqjscvetxsb3knu/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-pillow-9.5.0-mr45t2na2wtfajjt36jb7fk4jran7edu/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-pyparsing-3.0.9-ovxusrztmw6miiu6ddkjit3cofnf44pq/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-python-dateutil-2.8.2-ogz73eijxvwx4gidwjxknsdkvebktphd/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-six-1.16.0-ytzy3xh5ac3gndxg6nofrb4ocx7hv3ry/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-numpydoc-1.1.0-g6k7xvxyptrxe7c7zgo4oshk47k7g3il/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-plotly-2.2.0-q2epsiiffrja75jtpvvmpyzkv7suh3s4/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-decorator-5.1.1-ahmodeivuclcb2flwkl66vsjtocqky3r/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-nbformat-5.8.0-5vz7k6cdmfbkdvltblsqswzmjp5fjbdf/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-fastjsonschema-2.16.3-wqhi6s5mrwn3767s7qre75zn33fiflcb/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-jsonschema-4.17.3-dksjuyo27lxw7ydz7krnzc47wh4twyql/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-attrs-22.2.0-wkkatl4jt6fbgxdjwam6axac4o6g3les/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-pyrsistent-0.19.3-rxnnredyaqssm34qjgp72smtl7kj5vdi/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-jupyter-core-5.3.0-j3rnvete6rf5unn2qx2idrmkrhmtoets/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-platformdirs-3.5.0-5og5k4m5mq7x74capxojuma3tdwvmpiu/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-traitlets-5.9.0-lxdrusj5pz7dqlcgyvdvmes3iery7u54/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-pytz-2022.2.1-sampgcpgrdg7owhdgtjyjnkivub36sgy/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-requests-2.28.2-la2nhz7anuuh6qfsqiuymizpoujalj4f/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-certifi-2022.12.7-5vanfhiwnu4ctscbjflpl4sb6xuj5xzz/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-charset-normalizer-2.0.12-xgiaoepbfrjrtcjjurcowuyccf2uicsw/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-idna-3.4-nhkgupzw7kg6ehbfi4o7aokn56jighxc/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-urllib3-1.26.12-axt5bs5guiahnrhsvhxfh4t35yaha43u/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-py2bit-0.2.1-kkkj6i4uu7mw3sao7g2xtweo3ih3amna/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-pybigwig-0.3.12-2ctzisatkgtqxzvxniijxn2th63wb6he/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-pysam-0.21.0-pn45l4m6u4hbmhv7mxsy6itm4olklvje/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-scipy-1.10.1-6ipglfvw2opooqn5mvnq3mihl7wpnx3c/lib/python3.10/site-packages" +setenv PY_DEEPTOOLS_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-deeptools-3.3.0-m4udtcrpg2ahzcmr4sv36s7ouk5dwbqy" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/py-htseq/0.11.2 b/modulefiles/hpccf/peloton/tcl/py-htseq/0.11.2 new file mode 100644 index 00000000..62a1e820 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/py-htseq/0.11.2 @@ -0,0 +1,43 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:34.679971 +## +## py-htseq@0.11.2%gcc@11.3.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v2/spf6mjq +## + + +module-whatis "HTSeq is a Python package that provides infrastructure to process data from high-throughput sequencing assays." + +proc ModulesHelp { } { + puts stderr "Name : py-htseq" + puts stderr "Version: 0.11.2" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "HTSeq is a Python package that provides infrastructure to process data" + puts stderr "from high-throughput sequencing assays." +} + +conflict py-htseq + +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-htseq-0.11.2-spf6mjq3tv7mkxujncluybz7boloyxar/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-htseq-0.11.2-spf6mjq3tv7mkxujncluybz7boloyxar/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-htseq-0.11.2-spf6mjq3tv7mkxujncluybz7boloyxar/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-htseq-0.11.2-spf6mjq3tv7mkxujncluybz7boloyxar/." +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-htseq-0.11.2-spf6mjq3tv7mkxujncluybz7boloyxar/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-cython-0.29.33-xivhd7iqgiacrfxjhvudpgak2vht25m2/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-setuptools-63.4.3-lbj7d45k7odyhqivr4lk5oqyfeymtkux/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-matplotlib-3.7.1-o26yn5bpu2eupgk6jarnbariwexq5aye/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-contourpy-1.0.5-pbksj6frfrastamgk2jttz2rbx6xzayt/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-numpy-1.24.3-ncgncvgk3wg73eqiitkkumoniwwv5fnv/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-cycler-0.11.0-jb4275pnm7hbn7hthddnlwpzatbecpaw/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-fonttools-4.37.3-hk43we6pasaw4lmenav75vnz2gcusid4/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-kiwisolver-1.4.4-2hrb757fm255ofquczrzy6hq4xg5o6gz/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-packaging-23.0-guzysrx46md3mjvnsetxoui22uce5vwm/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-pillow-9.5.0-fvsebbblokzqdhycxej32hz5mdnfrv7o/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-pyparsing-3.0.9-udtuyywx67y6fhejp35vjiezfaff6pu3/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-python-dateutil-2.8.2-3npk57crmmsp3ms6sc346qcs5a7pgu5v/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-six-1.16.0-n5ow3krhvn3dl7zwzvmfwpa7wpmbfepd/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-pysam-0.21.0-c7tma2ktunehzyysfzmwpylvqievpqlx/lib/python3.10/site-packages" +setenv PY_HTSEQ_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-htseq-0.11.2-spf6mjq3tv7mkxujncluybz7boloyxar" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/py-ipython/8.11.0 b/modulefiles/hpccf/peloton/tcl/py-ipython/8.11.0 new file mode 100644 index 00000000..96ef47f0 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/py-ipython/8.11.0 @@ -0,0 +1,48 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:34.854238 +## +## py-ipython@8.11.0%gcc@11.3.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v2/4pcirtq +## + + +module-whatis "IPython provides a rich toolkit to help you make the most out of using Python interactively." + +proc ModulesHelp { } { + puts stderr "Name : py-ipython" + puts stderr "Version: 8.11.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "IPython provides a rich toolkit to help you make the most out of using" + puts stderr "Python interactively." +} + +conflict py-ipython + +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-ipython-8.11.0-4pcirtqh4fxmboia3wnenqgn27zuutgi/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-ipython-8.11.0-4pcirtqh4fxmboia3wnenqgn27zuutgi/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-ipython-8.11.0-4pcirtqh4fxmboia3wnenqgn27zuutgi/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-ipython-8.11.0-4pcirtqh4fxmboia3wnenqgn27zuutgi/share/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-ipython-8.11.0-4pcirtqh4fxmboia3wnenqgn27zuutgi/." +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-ipython-8.11.0-4pcirtqh4fxmboia3wnenqgn27zuutgi/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-backcall-0.2.0-f4zjsvoxihy5gn4qm5qvhs7fgizzmuhf/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-decorator-5.1.1-zapuwg5hk52mc2f6hlkbw3rlwxvo73rh/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-jedi-0.18.1-htl3isvoyjvweqamx4xqwkwizs3jx2ol/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-parso-0.8.3-73nfmfmkrajwanojhfpk2yvfidjjjurj/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-setuptools-67.6.0-6zptasw65hqd5nybxil3qyqli5tcvvrm/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-matplotlib-inline-0.1.6-5na5vuybkq7c5yakkjsos6k4qe2x43pd/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-traitlets-5.9.0-3zzoiqyf3dppb23qocjwqbm7jyycl5nn/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-pexpect-4.8.0-scosptrdmvr2czdp3fy3zdc6frc7dddt/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-ptyprocess-0.7.0-b5bh5xkiyibixjs7s5o3qnlif5z7uyy3/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-pickleshare-0.7.5-tdflqybxogtgf5d4eimcnevk4tcybcdf/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-prompt-toolkit-3.0.31-fjrair7itbwei5kyc565egk4q5y5tnpx/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-wcwidth-0.2.5-damsrqpsjjbhaydviquwclgwi37nftln/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-pygments-2.13.0-gg3ti7m3zl27yi2cx2bjkhmck6lukaxx/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-stack-data-0.5.0-ure6wlgofolacxz7dtntfz3nbujhyexf/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-asttokens-2.0.8-4vgl3abkqkkavpmrnkvtbim3kfxf5p72/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-six-1.16.0-3gezqelwrpxlnssexhglquiiucclgbhz/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-executing-1.1.0-uclum6nftvoq4mn5tc6n47etktsfq36t/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-pure-eval-0.2.2-rj6e65cqwxsc6jqo26oxggo7fquaosf5/lib/python3.10/site-packages" +setenv PY_IPYTHON_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-ipython-8.11.0-4pcirtqh4fxmboia3wnenqgn27zuutgi" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/py-metaphlan/4.0.2 b/modulefiles/hpccf/peloton/tcl/py-metaphlan/4.0.2 new file mode 100644 index 00000000..fe4e3a52 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/py-metaphlan/4.0.2 @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:35.171079 +## +## py-metaphlan@4.0.2%gcc@11.3.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v2/l4li3jc +## + + +module-whatis "MetaPhlAn is a computational tool for profiling the composition of microbial communities (Bacteria, Archaea and Eukaryotes) from metagenomic shotgun sequencing data (i.e. not 16S) with species-level." + +proc ModulesHelp { } { + puts stderr "Name : py-metaphlan" + puts stderr "Version: 4.0.2" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "MetaPhlAn is a computational tool for profiling the composition of" + puts stderr "microbial communities (Bacteria, Archaea and Eukaryotes) from" + puts stderr "metagenomic shotgun sequencing data (i.e. not 16S) with species-level." +} + +module load muscle/3.8.1551 +module load raxml/8.2.12 +prereq muscle/3.8.1551 +prereq raxml/8.2.12 +conflict py-metaphlan + +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-metaphlan-4.0.2-l4li3jczbboprrkqbdtg67bgbi73nywz/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-metaphlan-4.0.2-l4li3jczbboprrkqbdtg67bgbi73nywz/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-metaphlan-4.0.2-l4li3jczbboprrkqbdtg67bgbi73nywz/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-metaphlan-4.0.2-l4li3jczbboprrkqbdtg67bgbi73nywz/." +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-metaphlan-4.0.2-l4li3jczbboprrkqbdtg67bgbi73nywz/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-biom-format-2.1.10-hsrzrhp3rqceofqrum6bcmsp7qwnswy2/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-click-8.1.3-pwsshmu2a6fcwiqzznoqoxwmrssdnr7p/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-future-0.18.2-v5zlpjhw4exk2ogim3idphwttivvesud/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-h5py-3.7.0-s44a7ifulgq4i373ldoewbfpxgxulhdc/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-mpi4py-3.1.4-is7ofdnwam4obpvdjcmlkvp7iv7xksml/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-numpy-1.24.3-z2ks46kjih2ssjgliexdz7t72risaz5u/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-setuptools-57.4.0-da5qwqncvlea4shymvtwrrw7tkyvjsuj/lib/python3.10/site-packages" +prepend-path --delim ":" 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PY_METAPHLAN_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-metaphlan-4.0.2-l4li3jczbboprrkqbdtg67bgbi73nywz" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/py-multiqc/1.13 b/modulefiles/hpccf/peloton/tcl/py-multiqc/1.13 new file mode 100644 index 00000000..f88b4d31 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/py-multiqc/1.13 @@ -0,0 +1,64 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:35.757815 +## +## py-multiqc@1.13%gcc@11.3.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v2/zamjepc +## + + +module-whatis "MultiQC is a tool to aggregate bioinformatics results across many samples into a single report. It is written in Python and contains modules for a large number of common bioinformatics tools." + +proc ModulesHelp { } { + puts stderr "Name : py-multiqc" + puts stderr "Version: 1.13" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "MultiQC is a tool to aggregate bioinformatics results across many" + puts stderr "samples into a single report. It is written in Python and contains" + puts stderr "modules for a large number of common bioinformatics tools." +} + +conflict py-multiqc + +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-multiqc-1.13-zamjepcds5njcscnqi4xoh5jsflgqn6v/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-multiqc-1.13-zamjepcds5njcscnqi4xoh5jsflgqn6v/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-multiqc-1.13-zamjepcds5njcscnqi4xoh5jsflgqn6v/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-multiqc-1.13-zamjepcds5njcscnqi4xoh5jsflgqn6v/." +prepend-path --delim ":" PYTHONPATH 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+prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-certifi-2022.12.7-sau7o3xww6hsi7mqssvfi4c6w5ivwczm/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-charset-normalizer-2.0.12-g7wsf5zrorhmcjk7idaccand2rj6ft7x/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-idna-3.4-swwai53tdrzuhua3763iutvnqpvmuu6d/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-urllib3-1.26.12-mtbxcs6qyhnnzca5efe4vneeq3vn6no5/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-rich-12.5.1-hioqpeag4o6i5kdbvxoqse75beokygjn/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-commonmark-0.9.1-xljr434yjia6dflfw7c57jfd5cyqgdgo/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-pygments-2.13.0-rdir7axjhdt3nta3ibdppvcffav7z45g/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-rich-click-1.5.2-7o73zqyactywutcjmps5swx6yyq7xlxe/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-simplejson-3.18.0-tc7ynh6c67ida3ile5m42hmu64q3p354/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-spectra-0.0.11-wbeau3qm6pz5mlrmx55gu647wbgndjby/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-colormath-3.0.0-xwxmkjiw2ugsusbcsv2dgotang5gwhrk/lib/python3.10/site-packages" +setenv PY_MULTIQC_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-multiqc-1.13-zamjepcds5njcscnqi4xoh5jsflgqn6v" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/py-quast/4.6.3 b/modulefiles/hpccf/peloton/tcl/py-quast/4.6.3 new file mode 100644 index 00000000..091512c4 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/py-quast/4.6.3 @@ -0,0 +1,58 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:36.223410 +## +## py-quast@4.6.3%gcc@11.3.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v2/ldeaxv4 +## + + +module-whatis "Quality Assessment Tool for Genome Assemblies" + +proc ModulesHelp { } { + puts stderr "Name : py-quast" + puts stderr "Version: 4.6.3" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Quality Assessment Tool for Genome Assemblies" +} + +module load bwa/0.7.17 +module load glimmer/3.02b +module load gnuplot/5.4.3 +module load mummer/3.23 +module load openjdk/16.0.2 +prereq bwa/0.7.17 +prereq glimmer/3.02b +prereq gnuplot/5.4.3 +prereq mummer/3.23 +prereq openjdk/16.0.2 +conflict py-quast + +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-quast-4.6.3-ldeaxv4gjzlvxmegau5lkxfecdfdvc7i/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-quast-4.6.3-ldeaxv4gjzlvxmegau5lkxfecdfdvc7i/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-quast-4.6.3-ldeaxv4gjzlvxmegau5lkxfecdfdvc7i/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-quast-4.6.3-ldeaxv4gjzlvxmegau5lkxfecdfdvc7i/." +prepend-path --delim ":" PERL5LIB "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-time-hires-1.9758-cssxnpvrdtgm7cylv3f4qfmzhxm2ec67/lib/perl5" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-quast-4.6.3-ldeaxv4gjzlvxmegau5lkxfecdfdvc7i/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-matplotlib-3.7.1-dl47oo2rbeq4gtantzayq6key7zmeun5/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-contourpy-1.0.5-w5ubnirw2a54xylbe5mtg3od4qy2hkcj/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-numpy-1.24.3-smq5zjvzvwacabs3urczo6cw6wax4jxd/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-setuptools-63.4.3-cncjqik3yxqj7xpxmpsxyad6nq56vfad/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-cycler-0.11.0-3pcs6rvaryxcc32lgmki3hrsgwiun76l/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-fonttools-4.37.3-ls4qcvdflnskoeebaad7v353ie7czzqb/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-kiwisolver-1.4.4-2sokfv2gk344zoqnme3fqwo7sfaomakh/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-packaging-23.0-uoxuqqcyacdnyxnlblqih3qoaam6josk/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-pillow-9.5.0-zmjpx4etvtpfuar4ib545n2akod5iaqa/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-pyparsing-3.0.9-s3rsocwi3wxdanyh3oe3sehonrzeeujv/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-python-dateutil-2.8.2-s2vsdln43zak4b7oju5xtrtem2xybg67/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-six-1.16.0-poo24ax5hz5sc365dmcijs5har7ucu4y/lib/python3.10/site-packages" +prepend-path --delim ":" XLOCALEDIR "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libx11-1.8.4-elhqje4pmr6c4jp256hrfear2cp45szn/share/X11/locale" +prepend-path --delim ":" XDG_DATA_DIRS "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gobject-introspection-1.72.1-nu356my5vhotbyf4w2nfliyqilhq7edi/share" +prepend-path --delim ":" GI_TYPELIB_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gobject-introspection-1.72.1-nu356my5vhotbyf4w2nfliyqilhq7edi/lib/girepository-1.0" +prepend-path --delim ":" XDG_DATA_DIRS "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/harfbuzz-5.3.1-qyvpfb7knng7m4hxr5id3jvtluoqxeoj/share" +prepend-path --delim ":" GI_TYPELIB_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/harfbuzz-5.3.1-qyvpfb7knng7m4hxr5id3jvtluoqxeoj/lib/girepository-1.0" +prepend-path --delim ":" XDG_DATA_DIRS "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/pango-1.50.13-xyculs47or3ygkdcemaibdyrmvkab3gf/share" +prepend-path --delim ":" GI_TYPELIB_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/pango-1.50.13-xyculs47or3ygkdcemaibdyrmvkab3gf/lib/girepository-1.0" +setenv PY_QUAST_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-quast-4.6.3-ldeaxv4gjzlvxmegau5lkxfecdfdvc7i" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/pythia6/6.4.28 b/modulefiles/hpccf/peloton/tcl/pythia6/6.4.28 new file mode 100644 index 00000000..4046064d --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/pythia6/6.4.28 @@ -0,0 +1,36 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:36.496130 +## +## pythia6@6.4.28%gcc@11.3.0~ipo~root build_system=cmake build_type=Release generator=make nmxhep=4000 patches=d081752 arch=linux-ubuntu22.04-x86_64_v2/bgl24qd +## +## Configure options: -DPYTHIA6_VERSION=6.4.28 +## + + +module-whatis "PYTHIA is a program for the generation of high-energy physics events, i.e. for the description of collisions at high energies between elementary particles such as e+, e-, p and pbar in various combinations." + +proc ModulesHelp { } { + puts stderr "Name : pythia6" + puts stderr "Version: 6.4.28" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "PYTHIA is a program for the generation of high-energy physics events," + puts stderr "i.e. for the description of collisions at high energies between" + puts stderr "elementary particles such as e+, e-, p and pbar in various combinations." + puts stderr "PYTHIA6 is a Fortran package which is no longer maintained: new" + puts stderr "prospective users should use Pythia8 instead. This recipe includes" + puts stderr "patches required to interoperate with Root." +} + +conflict pythia6 + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/pythia6-6.4.28-bgl24qdi2fejhn4ne26txx7avxssrsrt/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/pythia6-6.4.28-bgl24qdi2fejhn4ne26txx7avxssrsrt/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/pythia6-6.4.28-bgl24qdi2fejhn4ne26txx7avxssrsrt/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/pythia6-6.4.28-bgl24qdi2fejhn4ne26txx7avxssrsrt/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/pythia6-6.4.28-bgl24qdi2fejhn4ne26txx7avxssrsrt/lib" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/pythia6-6.4.28-bgl24qdi2fejhn4ne26txx7avxssrsrt/." +setenv PYTHIA6_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/pythia6-6.4.28-bgl24qdi2fejhn4ne26txx7avxssrsrt" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/pythia8/8.309 b/modulefiles/hpccf/peloton/tcl/pythia8/8.309 new file mode 100644 index 00000000..def8ce14 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/pythia8/8.309 @@ -0,0 +1,35 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:36.551315 +## +## pythia8@8.309%gcc@11.3.0~evtgen~fastjet~hdf5+hepmc+hepmc3~lhapdf~madgraph5amc~mpich~openmpi~python~rivet~root+shared build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/vma4h73 +## +## Configure options: --with-hepmc2=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/hepmc-2.06.11-j6xkgns4ruam34fsaxmxbkdttwvknguu - - w i t h o u t - m g 5 m e s --with-hepmc3=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/hepmc3-3.2.6-exs4bu4qysb5otizwxzajlcekkcvjfr5 - - w i t h o u t - f a s t j e t 3 --without-evtgen --without-root --without-rivet --without-python --without-openmp --without-mpich --without-hdf5 +## + + +module-whatis "The Pythia program is a standard tool for the generation of events in high-energy collisions, comprising a coherent set of physics models for the evolution from a few-body hard process to a complex multiparticle final state." + +proc ModulesHelp { } { + puts stderr "Name : pythia8" + puts stderr "Version: 8.309" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "The Pythia program is a standard tool for the generation of events in" + puts stderr "high-energy collisions, comprising a coherent set of physics models for" + puts stderr "the evolution from a few-body hard process to a complex multiparticle" + puts stderr "final state." +} + +conflict pythia8 + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/pythia8-8.309-vma4h737hgsp67bknpzabx6m6rqomr46/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/pythia8-8.309-vma4h737hgsp67bknpzabx6m6rqomr46/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/pythia8-8.309-vma4h737hgsp67bknpzabx6m6rqomr46/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/pythia8-8.309-vma4h737hgsp67bknpzabx6m6rqomr46/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/pythia8-8.309-vma4h737hgsp67bknpzabx6m6rqomr46/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/pythia8-8.309-vma4h737hgsp67bknpzabx6m6rqomr46/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/pythia8-8.309-vma4h737hgsp67bknpzabx6m6rqomr46/." +setenv PYTHIA8_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/pythia8-8.309-vma4h737hgsp67bknpzabx6m6rqomr46" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/qualimap/2.2.1 b/modulefiles/hpccf/peloton/tcl/qualimap/2.2.1 new file mode 100644 index 00000000..3b1e8217 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/qualimap/2.2.1 @@ -0,0 +1,30 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:36.724858 +## +## qualimap@2.2.1%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/hocagdi +## + + +module-whatis "Qualimap 2 is a platform-independent application written in Java and R that provides both a Graphical User Inteface (GUI) and a command-line interface to facilitate the quality control of alignment sequencing data and its derivatives like feature counts." + +proc ModulesHelp { } { + puts stderr "Name : qualimap" + puts stderr "Version: 2.2.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Qualimap 2 is a platform-independent application written in Java and R" + puts stderr "that provides both a Graphical User Inteface (GUI) and a command-line" + puts stderr "interface to facilitate the quality control of alignment sequencing data" + puts stderr "and its derivatives like feature counts." +} + +conflict qualimap + +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/qualimap-2.2.1-hocagdi5arl5o6sgidtibkgrd5kinfhn/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/qualimap-2.2.1-hocagdi5arl5o6sgidtibkgrd5kinfhn/lib" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/qualimap-2.2.1-hocagdi5arl5o6sgidtibkgrd5kinfhn/." +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/qualimap-2.2.1-hocagdi5arl5o6sgidtibkgrd5kinfhn" +setenv QUALIMAP_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/qualimap-2.2.1-hocagdi5arl5o6sgidtibkgrd5kinfhn" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/quantum-espresso/7.1 b/modulefiles/hpccf/peloton/tcl/quantum-espresso/7.1 new file mode 100644 index 00000000..d4df84fb --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/quantum-espresso/7.1 @@ -0,0 +1,34 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:36.809003 +## +## quantum-espresso@7.1%gcc@11.3.0~elpa+epw~ipo~libxc+mpi~nvtx+openmp+patch~qmcpack+scalapack build_system=cmake build_type=Release generator=make hdf5=none patches=5075f2d,e54d33e arch=linux-ubuntu22.04-x86_64_v2/ae5z7ml +## + + +module-whatis "Quantum ESPRESSO is an integrated suite of Open-Source computer codes for electronic-structure calculations and materials modeling at the nanoscale. It is based on density-functional theory, plane waves, and pseudopotentials. " + +proc ModulesHelp { } { + puts stderr "Name : quantum-espresso" + puts stderr "Version: 7.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Quantum ESPRESSO is an integrated suite of Open-Source computer codes" + puts stderr "for electronic-structure calculations and materials modeling at the" + puts stderr "nanoscale. It is based on density-functional theory, plane waves, and" + puts stderr "pseudopotentials." +} + +conflict quantum-espresso + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/quantum-espresso-7.1-ae5z7mlkuhc74oonsebc56kv6rdvuctd/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/quantum-espresso-7.1-ae5z7mlkuhc74oonsebc56kv6rdvuctd/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/quantum-espresso-7.1-ae5z7mlkuhc74oonsebc56kv6rdvuctd/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/quantum-espresso-7.1-ae5z7mlkuhc74oonsebc56kv6rdvuctd/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/quantum-espresso-7.1-ae5z7mlkuhc74oonsebc56kv6rdvuctd/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/quantum-espresso-7.1-ae5z7mlkuhc74oonsebc56kv6rdvuctd/bin" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/quantum-espresso-7.1-ae5z7mlkuhc74oonsebc56kv6rdvuctd/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/quantum-espresso-7.1-ae5z7mlkuhc74oonsebc56kv6rdvuctd/." +setenv QUANTUM_ESPRESSO_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/quantum-espresso-7.1-ae5z7mlkuhc74oonsebc56kv6rdvuctd" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/raxml-ng/1.1.0 b/modulefiles/hpccf/peloton/tcl/raxml-ng/1.1.0 new file mode 100644 index 00000000..9750d694 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/raxml-ng/1.1.0 @@ -0,0 +1,33 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:36.923164 +## +## raxml-ng@1.1.0%gcc@11.3.0~ipo+mpi build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v2/bw5jd2c +## +## Configure options: -DUSE_MPI:BOOL=ON +## + + +module-whatis "RAxML-NG is a phylogenetic tree inference tool which uses maximum-likelihood (ML) optimality criterion." + +proc ModulesHelp { } { + puts stderr "Name : raxml-ng" + puts stderr "Version: 1.1.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "RAxML-NG is a phylogenetic tree inference tool which uses maximum-" + puts stderr "likelihood (ML) optimality criterion. Its search heuristic is based on" + puts stderr "iteratively performing a series of Subtree Pruning and Regrafting (SPR)" + puts stderr "moves, which allows to quickly navigate to the best-known ML tree." + puts stderr "RAxML-NG is a successor of RAxML (Stamatakis 2014) and leverages the" + puts stderr "highly optimized likelihood computation implemented in libpll (Flouri et" + puts stderr "al. 2014)." +} + +conflict raxml-ng + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/raxml-ng-1.1.0-bw5jd2cgh3p47ehq7eb5kl5eyn6roezj/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/raxml-ng-1.1.0-bw5jd2cgh3p47ehq7eb5kl5eyn6roezj/." +setenv RAXML_NG_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/raxml-ng-1.1.0-bw5jd2cgh3p47ehq7eb5kl5eyn6roezj" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/raxml/8.2.12 b/modulefiles/hpccf/peloton/tcl/raxml/8.2.12 new file mode 100644 index 00000000..67d52afe --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/raxml/8.2.12 @@ -0,0 +1,27 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:36.883021 +## +## raxml@8.2.12%gcc@11.3.0+mpi~pthreads build_system=generic patches=8ba0510 arch=linux-ubuntu22.04-x86_64_v2/chqijm7 +## + + +module-whatis "RAxML (Randomized Axelerated Maximum Likelihood) is a program for sequential and parallel Maximum Likelihood based inference of large phylogenetic trees. " + +proc ModulesHelp { } { + puts stderr "Name : raxml" + puts stderr "Version: 8.2.12" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "RAxML (Randomized Axelerated Maximum Likelihood) is a program for" + puts stderr "sequential and parallel Maximum Likelihood based inference of large" + puts stderr "phylogenetic trees." +} + +conflict raxml + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/raxml-8.2.12-chqijm7juybytklq7tz3in2natfs25jd/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/raxml-8.2.12-chqijm7juybytklq7tz3in2natfs25jd/." +setenv RAXML_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/raxml-8.2.12-chqijm7juybytklq7tz3in2natfs25jd" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/ray/2.3.1 b/modulefiles/hpccf/peloton/tcl/ray/2.3.1 new file mode 100644 index 00000000..76c54200 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/ray/2.3.1 @@ -0,0 +1,25 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:37.000140 +## +## ray@2.3.1%gcc@11.3.0~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v2/sypkrcd +## + + +module-whatis "Parallel genome assemblies for parallel DNA sequencing" + +proc ModulesHelp { } { + puts stderr "Name : ray" + puts stderr "Version: 2.3.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Parallel genome assemblies for parallel DNA sequencing" +} + +conflict ray + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ray-2.3.1-sypkrcdsnldhcnwagcu6n5dxsawkmn27/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ray-2.3.1-sypkrcdsnldhcnwagcu6n5dxsawkmn27/." +setenv RAY_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/ray-2.3.1-sypkrcdsnldhcnwagcu6n5dxsawkmn27" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/rclone/1.62.2 b/modulefiles/hpccf/peloton/tcl/rclone/1.62.2 new file mode 100644 index 00000000..c28fcf55 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/rclone/1.62.2 @@ -0,0 +1,26 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:37.042925 +## +## rclone@1.62.2%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/g6aaiy6 +## + + +module-whatis "Rclone is a command line program to sync files and directories to and from various cloud storage providers" + +proc ModulesHelp { } { + puts stderr "Name : rclone" + puts stderr "Version: 1.62.2" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Rclone is a command line program to sync files and directories to and" + puts stderr "from various cloud storage providers" +} + +conflict rclone + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/rclone-1.62.2-g6aaiy66darhswj7gc26kezqjqt6svb4/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/rclone-1.62.2-g6aaiy66darhswj7gc26kezqjqt6svb4/." +setenv RCLONE_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/rclone-1.62.2-g6aaiy66darhswj7gc26kezqjqt6svb4" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/recon/1.05 b/modulefiles/hpccf/peloton/tcl/recon/1.05 new file mode 100644 index 00000000..c0d6063f --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/recon/1.05 @@ -0,0 +1,26 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:37.085689 +## +## recon@1.05%gcc@11.3.0~repeatmasker build_system=makefile arch=linux-ubuntu22.04-x86_64_v2/ul6oxpz +## + + +module-whatis "RECON: a package for automated de novo identification of repeat families from genomic sequences." + +proc ModulesHelp { } { + puts stderr "Name : recon" + puts stderr "Version: 1.05" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "RECON: a package for automated de novo identification of repeat families" + puts stderr "from genomic sequences." +} + +conflict recon + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/recon-1.05-ul6oxpzej6nynrmyi7fp6pvdx46koyhs/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/recon-1.05-ul6oxpzej6nynrmyi7fp6pvdx46koyhs/." +setenv RECON_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/recon-1.05-ul6oxpzej6nynrmyi7fp6pvdx46koyhs" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/repeatmasker/4.1.2-p1 b/modulefiles/hpccf/peloton/tcl/repeatmasker/4.1.2-p1 new file mode 100644 index 00000000..fcb81ec0 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/repeatmasker/4.1.2-p1 @@ -0,0 +1,35 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:37.147696 +## +## repeatmasker@4.1.2-p1%gcc@11.3.0~crossmatch build_system=generic arch=linux-ubuntu22.04-x86_64_v2/vrq4xu7 +## + + +module-whatis "RepeatMasker is a program that screens DNA sequences for interspersed repeats and low complexity DNA sequences." + +proc ModulesHelp { } { + puts stderr "Name : repeatmasker" + puts stderr "Version: 4.1.2-p1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "RepeatMasker is a program that screens DNA sequences for interspersed" + puts stderr "repeats and low complexity DNA sequences." +} + +module load hmmer/3.3.2 +module load ncbi-rmblastn/2.11.0 +prereq hmmer/3.3.2 +prereq ncbi-rmblastn/2.11.0 +conflict repeatmasker + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/repeatmasker-4.1.2-p1-vrq4xu7fvpof25ai5jgup5fk2fuulxqc/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/repeatmasker-4.1.2-p1-vrq4xu7fvpof25ai5jgup5fk2fuulxqc/." +prepend-path --delim ":" PERL5LIB "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-text-soundex-3.05-5s4ul4r7zw2pidsz7ufypymp224v6djq/lib/perl5" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-h5py-3.8.0-hwizrbgvssmcsmtdbdeu2wabixg2fsne/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-mpi4py-3.1.4-5zr4s275vsanokoxxmn36xww5i6roex6/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-numpy-1.24.3-weuaipxfhdzjufh7dwrjpe7mbm3xvdp7/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-setuptools-63.4.3-eipobqg37cmma4kuuguhojfyvoorlzaq/lib/python3.10/site-packages" +setenv REPEATMASKER_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/repeatmasker-4.1.2-p1-vrq4xu7fvpof25ai5jgup5fk2fuulxqc" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/repeatmodeler/1.0.11 b/modulefiles/hpccf/peloton/tcl/repeatmodeler/1.0.11 new file mode 100644 index 00000000..6f1bdb59 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/repeatmodeler/1.0.11 @@ -0,0 +1,27 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:37.539570 +## +## repeatmodeler@1.0.11%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/zyqpgaq +## + + +module-whatis "RepeatModeler is a de-novo repeat family identification and modeling package." + +proc ModulesHelp { } { + puts stderr "Name : repeatmodeler" + puts stderr "Version: 1.0.11" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "RepeatModeler is a de-novo repeat family identification and modeling" + puts stderr "package." +} + +conflict repeatmodeler + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/repeatmodeler-1.0.11-zyqpgaqei66ki52elekz2g6mfv3e7aoy/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/repeatmodeler-1.0.11-zyqpgaqei66ki52elekz2g6mfv3e7aoy/." +prepend-path --delim ":" PERL5LIB "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-json-4.10-4g7mnhpftzh75gqm3uyqnefhmawnt76a/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-libwww-perl-6.68-cxsga2h74zm4a5idjp7zdvkzoh6lycud/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-encode-locale-1.05-mxiobwxfd5xvcdri3e7rfbmx7z7k4k5z/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-file-listing-6.04-3nvsbodmuptrelw6pl43laj6ehbgv63w/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-http-date-6.02-wltb47srrbo6r5uxfel5mkgc7sdauypv/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-html-parser-3.72-5iwkgb7f4iqq5sw3kbbcxj4jz4pizrvw/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-html-tagset-3.20-3dflz3kwiysncjmaf5stokozbku4hb4y/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-http-cookies-6.10-5jl6lpkjnytfflks274vvjhhacvb55vd/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-http-message-6.44-qvxsc3v24pjxs6vvwcy3u2jb6fscttke/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-io-html-1.004-cqqsjjhzzds5igmu5tqha4fgkch45jnj/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-lwp-mediatypes-6.02-m5jzn3jnbips3cwcdkxfnym3xfxwnlle/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-try-tiny-0.31-432e3zpsxdhmrfcx4avstmyhdofr4wgo/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-uri-5.08-zlzdyl42tjgezd6shdnwzjzyhaosh3dy/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-http-daemon-6.01-lvbvmoalpkd5uyo4vwwqfk3ikztkaun3/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-http-negotiate-6.01-o2fa7ty2oqjfoilnb24cf4fhnsnulunk/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-net-http-6.22-cepw4mdkypylj5hxvapyd33b4fq6mhii/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-www-robotrules-6.02-k4csvpikgonelbs5grhekqlqb77wq3fb/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-text-soundex-3.05-5s4ul4r7zw2pidsz7ufypymp224v6djq/lib/perl5" +setenv REPEATMODELER_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/repeatmodeler-1.0.11-zyqpgaqei66ki52elekz2g6mfv3e7aoy" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/rsem/1.3.3 b/modulefiles/hpccf/peloton/tcl/rsem/1.3.3 new file mode 100644 index 00000000..0a5ea2e6 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/rsem/1.3.3 @@ -0,0 +1,31 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:37.687154 +## +## rsem@1.3.3%gcc@11.3.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v2/xroc2xk +## + + +module-whatis "RSEM is a software package for estimating gene and isoform expression levels from RNA-Seq data." + +proc ModulesHelp { } { + puts stderr "Name : rsem" + puts stderr "Version: 1.3.3" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "RSEM is a software package for estimating gene and isoform expression" + puts stderr "levels from RNA-Seq data." +} + +module load bowtie/1.3.1 +module load star/2.7.6a +prereq bowtie/1.3.1 +prereq star/2.7.6a +conflict rsem + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/rsem-1.3.3-xroc2xkvapphlpehpoqwhkjknkfbuuj7/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/rsem-1.3.3-xroc2xkvapphlpehpoqwhkjknkfbuuj7/." +setenv R_HOME "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/r-4.2.2-io5abfyg43yx6wc7b6liuxm6bh4kyon7/rlib/R" +setenv RSEM_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/rsem-1.3.3-xroc2xkvapphlpehpoqwhkjknkfbuuj7" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/sabre/2013-09-27 b/modulefiles/hpccf/peloton/tcl/sabre/2013-09-27 new file mode 100644 index 00000000..b2cc0ea3 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/sabre/2013-09-27 @@ -0,0 +1,31 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:37.837602 +## +## sabre@2013-09-27%gcc@11.3.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v2/w2vrsww +## + + +module-whatis "Sabre is a tool that will demultiplex barcoded reads into separate files. It will work on both single-end and paired-end data in fastq format. It simply compares the provided barcodes with each read and separates the read into its appropriate barcode file, after stripping the barcode from the read (and also stripping the quality values of the barcode bases). If a read does not have a recognized barcode, then it is put into the unknown file. " + +proc ModulesHelp { } { + puts stderr "Name : sabre" + puts stderr "Version: 2013-09-27" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Sabre is a tool that will demultiplex barcoded reads into separate" + puts stderr "files. It will work on both single-end and paired-end data in fastq" + puts stderr "format. It simply compares the provided barcodes with each read and" + puts stderr "separates the read into its appropriate barcode file, after stripping" + puts stderr "the barcode from the read (and also stripping the quality values of the" + puts stderr "barcode bases). If a read does not have a recognized barcode, then it is" + puts stderr "put into the unknown file." +} + +conflict sabre + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/sabre-2013-09-27-w2vrswwue5cmokyzwnnzsbfksjexrkv3/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/sabre-2013-09-27-w2vrswwue5cmokyzwnnzsbfksjexrkv3/." +setenv SABRE_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/sabre-2013-09-27-w2vrswwue5cmokyzwnnzsbfksjexrkv3" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/salmon/1.10.1 b/modulefiles/hpccf/peloton/tcl/salmon/1.10.1 new file mode 100644 index 00000000..0d02c024 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/salmon/1.10.1 @@ -0,0 +1,30 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:37.933362 +## +## salmon@1.10.1%gcc@11.3.0~ipo build_system=cmake build_type=RELEASE generator=make arch=linux-ubuntu22.04-x86_64_v2/gj3wg5h +## +## Configure options: -DBOOST_ROOT=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/boost-1.82.0-vokdyuhtoxwyzutrcarbiq5ucg2rb3iw +## + + +module-whatis "Salmon is a tool for quantifying the expression of transcripts using RNA-seq data." + +proc ModulesHelp { } { + puts stderr "Name : salmon" + puts stderr "Version: 1.10.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Salmon is a tool for quantifying the expression of transcripts using" + puts stderr "RNA-seq data." +} + +conflict salmon + +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/salmon-1.10.1-gj3wg5houzvu7a3pdwuspcwjr5ak4n6l/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/salmon-1.10.1-gj3wg5houzvu7a3pdwuspcwjr5ak4n6l/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/salmon-1.10.1-gj3wg5houzvu7a3pdwuspcwjr5ak4n6l/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/salmon-1.10.1-gj3wg5houzvu7a3pdwuspcwjr5ak4n6l/." +setenv SALMON_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/salmon-1.10.1-gj3wg5houzvu7a3pdwuspcwjr5ak4n6l" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/salmon/1.9.0 b/modulefiles/hpccf/peloton/tcl/salmon/1.9.0 new file mode 100644 index 00000000..e6c7f49c --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/salmon/1.9.0 @@ -0,0 +1,30 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:37.874990 +## +## salmon@1.9.0%gcc@11.3.0~ipo build_system=cmake build_type=RELEASE generator=make arch=linux-ubuntu22.04-x86_64_v2/kw5ehpr +## +## Configure options: -DBOOST_ROOT=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/boost-1.82.0-vokdyuhtoxwyzutrcarbiq5ucg2rb3iw +## + + +module-whatis "Salmon is a tool for quantifying the expression of transcripts using RNA-seq data." + +proc ModulesHelp { } { + puts stderr "Name : salmon" + puts stderr "Version: 1.9.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Salmon is a tool for quantifying the expression of transcripts using" + puts stderr "RNA-seq data." +} + +conflict salmon + +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/salmon-1.9.0-kw5ehprc7tnyrdpanmfhyhliejho5y7o/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/salmon-1.9.0-kw5ehprc7tnyrdpanmfhyhliejho5y7o/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/salmon-1.9.0-kw5ehprc7tnyrdpanmfhyhliejho5y7o/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/salmon-1.9.0-kw5ehprc7tnyrdpanmfhyhliejho5y7o/." +setenv SALMON_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/salmon-1.9.0-kw5ehprc7tnyrdpanmfhyhliejho5y7o" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/samtools/1.16.1 b/modulefiles/hpccf/peloton/tcl/samtools/1.16.1 new file mode 100644 index 00000000..a9660eb6 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/samtools/1.16.1 @@ -0,0 +1,30 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:38.010040 +## +## samtools@1.16.1%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/lnn4vjr +## + + +module-whatis "SAM Tools provide various utilities for manipulating alignments in the SAM format, including sorting, merging, indexing and generating alignments in a per-position format" + +proc ModulesHelp { } { + puts stderr "Name : samtools" + puts stderr "Version: 1.16.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "SAM Tools provide various utilities for manipulating alignments in the" + puts stderr "SAM format, including sorting, merging, indexing and generating" + puts stderr "alignments in a per-position format" +} + +module load zlib/1.2.13 +prereq zlib/1.2.13 +conflict samtools + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/samtools-1.16.1-lnn4vjrhnbbdgni5kzliy3xulc2cbxe5/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/samtools-1.16.1-lnn4vjrhnbbdgni5kzliy3xulc2cbxe5/share/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/samtools-1.16.1-lnn4vjrhnbbdgni5kzliy3xulc2cbxe5/." +setenv SAMTOOLS_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/samtools-1.16.1-lnn4vjrhnbbdgni5kzliy3xulc2cbxe5" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/satsuma2/2021-03-04 b/modulefiles/hpccf/peloton/tcl/satsuma2/2021-03-04 new file mode 100644 index 00000000..9e136158 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/satsuma2/2021-03-04 @@ -0,0 +1,28 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:38.091124 +## +## satsuma2@2021-03-04%gcc@11.3.0~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v2/fbmmcsp +## + + +module-whatis "Satsuma2 is an optimsed version of Satsuma, a tool to reliably align large and complex DNA sequences providing maximum sensitivity (to find all there is to find), specificity (to only find real homology) and speed (to accomodate the billions of base pairs in vertebrate genomes). " + +proc ModulesHelp { } { + puts stderr "Name : satsuma2" + puts stderr "Version: 2021-03-04" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Satsuma2 is an optimsed version of Satsuma, a tool to reliably align" + puts stderr "large and complex DNA sequences providing maximum sensitivity (to find" + puts stderr "all there is to find), specificity (to only find real homology) and" + puts stderr "speed (to accomodate the billions of base pairs in vertebrate genomes)." +} + +conflict satsuma2 + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/satsuma2-2021-03-04-fbmmcspwjfkgfab2nw2tk7ltwp23iaec/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/satsuma2-2021-03-04-fbmmcspwjfkgfab2nw2tk7ltwp23iaec/." +setenv SATSUMA2_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/satsuma2-2021-03-04-fbmmcspwjfkgfab2nw2tk7ltwp23iaec" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/scallop/0.10.5 b/modulefiles/hpccf/peloton/tcl/scallop/0.10.5 new file mode 100644 index 00000000..1768191f --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/scallop/0.10.5 @@ -0,0 +1,27 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:38.138380 +## +## scallop@0.10.5%gcc@11.3.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/a7tbn7y +## +## Configure options: --with-clp=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/clp-1.17.7-q6yka3pi267nt7xu67onnpr4izozjfmr --with-htslib=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/htslib-1.17-yao7ak3ikb7apsvonm32vopdrauoy4r7 --with-boost=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/boost-1.82.0-wgxpvwq4sg4k3qxzyq2xinnvxqm2rkli +## + + +module-whatis "Scallop is a reference-based transcriptome assembler for RNA-seq" + +proc ModulesHelp { } { + puts stderr "Name : scallop" + puts stderr "Version: 0.10.5" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Scallop is a reference-based transcriptome assembler for RNA-seq" +} + +conflict scallop + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/scallop-0.10.5-a7tbn7ylqcd6n53b2wnasdf4rvopa2d3/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/scallop-0.10.5-a7tbn7ylqcd6n53b2wnasdf4rvopa2d3/." +setenv SCALLOP_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/scallop-0.10.5-a7tbn7ylqcd6n53b2wnasdf4rvopa2d3" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/seqprep/1.3.2 b/modulefiles/hpccf/peloton/tcl/seqprep/1.3.2 new file mode 100644 index 00000000..a7ef2e09 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/seqprep/1.3.2 @@ -0,0 +1,26 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:38.228435 +## +## seqprep@1.3.2%gcc@11.3.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v2/d3lx5f4 +## + + +module-whatis "SeqPrep is a program to merge paired end Illumina reads that are overlapping into a single longer read." + +proc ModulesHelp { } { + puts stderr "Name : seqprep" + puts stderr "Version: 1.3.2" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "SeqPrep is a program to merge paired end Illumina reads that are" + puts stderr "overlapping into a single longer read." +} + +conflict seqprep + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/seqprep-1.3.2-d3lx5f4dyevw3hbeskewnb3kivvuxxhw/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/seqprep-1.3.2-d3lx5f4dyevw3hbeskewnb3kivvuxxhw/." +setenv SEQPREP_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/seqprep-1.3.2-d3lx5f4dyevw3hbeskewnb3kivvuxxhw" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/seqtk/1.3 b/modulefiles/hpccf/peloton/tcl/seqtk/1.3 new file mode 100644 index 00000000..a0ad0175 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/seqtk/1.3 @@ -0,0 +1,25 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:38.268366 +## +## seqtk@1.3%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/cvauxij +## + + +module-whatis "Toolkit for processing sequences in FASTA/Q formats." + +proc ModulesHelp { } { + puts stderr "Name : seqtk" + puts stderr "Version: 1.3" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Toolkit for processing sequences in FASTA/Q formats." +} + +conflict seqtk + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/seqtk-1.3-cvauxijhuiwejycfrxhjmclhigiqk6kp/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/seqtk-1.3-cvauxijhuiwejycfrxhjmclhigiqk6kp/." +setenv SEQTK_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/seqtk-1.3-cvauxijhuiwejycfrxhjmclhigiqk6kp" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/sickle/1.33 b/modulefiles/hpccf/peloton/tcl/sickle/1.33 new file mode 100644 index 00000000..6768dbab --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/sickle/1.33 @@ -0,0 +1,28 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:38.298414 +## +## sickle@1.33%gcc@11.3.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v2/scyxets +## + + +module-whatis "Sickle is a tool that uses sliding windows along with quality and length thresholds to determine when quality is sufficiently low to trim the 3'-end of reads and also determines when the quality is sufficiently high enough to trim the 5'-end of reads." + +proc ModulesHelp { } { + puts stderr "Name : sickle" + puts stderr "Version: 1.33" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Sickle is a tool that uses sliding windows along with quality and length" + puts stderr "thresholds to determine when quality is sufficiently low to trim the" + puts stderr "3'-end of reads and also determines when the quality is sufficiently" + puts stderr "high enough to trim the 5'-end of reads." +} + +conflict sickle + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/sickle-1.33-scyxetszvhy647otcwlmtlz643lgfyha/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/sickle-1.33-scyxetszvhy647otcwlmtlz643lgfyha/." +setenv SICKLE_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/sickle-1.33-scyxetszvhy647otcwlmtlz643lgfyha" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/slim/4.0.1 b/modulefiles/hpccf/peloton/tcl/slim/4.0.1 new file mode 100644 index 00000000..63ee68ad --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/slim/4.0.1 @@ -0,0 +1,27 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:38.322869 +## +## slim@4.0.1%gcc@11.3.0~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v2/wndvvjw +## + + +module-whatis "SLiM is an evolutionary simulation framework that combines a powerful engine for population genetic simulations with the capability of modeling arbitrarily complex evolutionary scenarios." + +proc ModulesHelp { } { + puts stderr "Name : slim" + puts stderr "Version: 4.0.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "SLiM is an evolutionary simulation framework that combines a powerful" + puts stderr "engine for population genetic simulations with the capability of" + puts stderr "modeling arbitrarily complex evolutionary scenarios." +} + +conflict slim + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/slim-4.0.1-wndvvjwa23w57sjit2zqhzmyqfqcsuvk/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/slim-4.0.1-wndvvjwa23w57sjit2zqhzmyqfqcsuvk/." +setenv SLIM_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/slim-4.0.1-wndvvjwa23w57sjit2zqhzmyqfqcsuvk" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/slurm/22.05.9 b/modulefiles/hpccf/peloton/tcl/slurm/22.05.9 new file mode 100644 index 00000000..4c501b92 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/slurm/22.05.9 @@ -0,0 +1,44 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:38.401652 +## +## slurm@22-05-9%gcc@11.3.0~gtk~hdf5+hwloc+mariadb+pmix+readline+restd build_system=autotools sysconfdir=PREFIX/etc arch=linux-ubuntu22.04-x86_64_v2/nfnt6yv +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis "Slurm is an open source, fault-tolerant, and highly scalable cluster management and job scheduling system for large and small Linux clusters." + +proc ModulesHelp { } { + puts stderr "Name : slurm" + puts stderr "Version: 22-05-9" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Slurm is an open source, fault-tolerant, and highly scalable cluster" + puts stderr "management and job scheduling system for large and small Linux clusters." + puts stderr "Slurm requires no kernel modifications for its operation and is" + puts stderr "relatively self-contained. As a cluster workload manager, Slurm has" + puts stderr "three key functions. First, it allocates exclusive and/or non-exclusive" + puts stderr "access to resources (compute nodes) to users for some duration of time" + puts stderr "so they can perform work. Second, it provides a framework for starting," + puts stderr "executing, and monitoring work (normally a parallel job) on the set of" + puts stderr "allocated nodes. Finally, it arbitrates contention for resources by" + puts stderr "managing a queue of pending work." +} + +conflict slurm + +prepend-path --delim ":" CPATH "/share/apps/22.04/manual/slurm/22.05.9/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/manual/slurm/22.05.9/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/manual/slurm/22.05.9/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/manual/slurm/22.05.9/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/manual/slurm/22.05.9/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/manual/slurm/22.05.9/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/manual/slurm/22.05.9/share/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/manual/slurm/22.05.9/." +setenv SLURM_ROOT "/share/apps/22.04/manual/slurm/22.05.9" + +if [module-info mode load] { +} + +setenv SQUEUE_FORMAT "%.20i %.9P %.8j %.8u %.8a %.2t %.11M %.11L %.5D %3C %6m %R" diff --git a/modulefiles/hpccf/peloton/tcl/slurm/22.05.9.p1 b/modulefiles/hpccf/peloton/tcl/slurm/22.05.9.p1 new file mode 100644 index 00000000..bf4e84b6 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/slurm/22.05.9.p1 @@ -0,0 +1,44 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-08-29 09:37:43.349739 +## +## slurm@22-05-9-p1%gcc@11.3.0~gtk~hdf5+hwloc+mariadb+pmix+readline+restd build_system=autotools sysconfdir=PREFIX/etc arch=linux-ubuntu22.04-x86_64_v2/gfi4obl +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis "Slurm is an open source, fault-tolerant, and highly scalable cluster management and job scheduling system for large and small Linux clusters." + +proc ModulesHelp { } { + puts stderr "Name : slurm" + puts stderr "Version: 22-05-9-p1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Slurm is an open source, fault-tolerant, and highly scalable cluster" + puts stderr "management and job scheduling system for large and small Linux clusters." + puts stderr "Slurm requires no kernel modifications for its operation and is" + puts stderr "relatively self-contained. As a cluster workload manager, Slurm has" + puts stderr "three key functions. First, it allocates exclusive and/or non-exclusive" + puts stderr "access to resources (compute nodes) to users for some duration of time" + puts stderr "so they can perform work. Second, it provides a framework for starting," + puts stderr "executing, and monitoring work (normally a parallel job) on the set of" + puts stderr "allocated nodes. Finally, it arbitrates contention for resources by" + puts stderr "managing a queue of pending work." +} + +conflict slurm + +prepend-path --delim ":" CPATH "/share/apps/22.04/manual/slurm/22.05.9.p1/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/manual/slurm/22.05.9.p1/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/manual/slurm/22.05.9.p1/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/manual/slurm/22.05.9.p1/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/manual/slurm/22.05.9.p1/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/manual/slurm/22.05.9.p1/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/manual/slurm/22.05.9.p1/share/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/manual/slurm/22.05.9.p1/." +setenv SLURM_ROOT "/share/apps/22.04/manual/slurm/22.05.9.p1" + +if [module-info mode load] { +} + +setenv SQUEUE_FORMAT "%.20i %.9P %.8j %.8u %.8a %.2t %.11M %.11L %.5D %3C %6m %R" diff --git a/modulefiles/hpccf/peloton/tcl/slurm/22.05.9.p2 b/modulefiles/hpccf/peloton/tcl/slurm/22.05.9.p2 new file mode 100644 index 00000000..580e5ad5 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/slurm/22.05.9.p2 @@ -0,0 +1,44 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-09-14 16:05:39.658384 +## +## slurm@22-05-9-p2%gcc@11.3.0~gtk~hdf5+hwloc+mariadb+pmix+readline+restd build_system=autotools sysconfdir=PREFIX/etc arch=linux-ubuntu22.04-x86_64_v2/a3fuwc3 +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis "Slurm is an open source, fault-tolerant, and highly scalable cluster management and job scheduling system for large and small Linux clusters." + +proc ModulesHelp { } { + puts stderr "Name : slurm" + puts stderr "Version: 22-05-9-p2" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Slurm is an open source, fault-tolerant, and highly scalable cluster" + puts stderr "management and job scheduling system for large and small Linux clusters." + puts stderr "Slurm requires no kernel modifications for its operation and is" + puts stderr "relatively self-contained. As a cluster workload manager, Slurm has" + puts stderr "three key functions. First, it allocates exclusive and/or non-exclusive" + puts stderr "access to resources (compute nodes) to users for some duration of time" + puts stderr "so they can perform work. Second, it provides a framework for starting," + puts stderr "executing, and monitoring work (normally a parallel job) on the set of" + puts stderr "allocated nodes. Finally, it arbitrates contention for resources by" + puts stderr "managing a queue of pending work." +} + +conflict slurm + +prepend-path --delim ":" CPATH "/share/apps/22.04/manual/slurm/22.05.9.p2/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/manual/slurm/22.05.9.p2/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/manual/slurm/22.05.9.p2/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/manual/slurm/22.05.9.p2/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/manual/slurm/22.05.9.p2/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/manual/slurm/22.05.9.p2/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/manual/slurm/22.05.9.p2/share/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/manual/slurm/22.05.9.p2/." +setenv SLURM_ROOT "/share/apps/22.04/manual/slurm/22.05.9.p2" + +if [module-info mode load] { +} + +setenv SQUEUE_FORMAT "%.20i %.9P %.8j %.8u %.8a %.2t %.11M %.11L %.5D %3C %6m %R" diff --git a/modulefiles/hpccf/peloton/tcl/slurm/23.02.5 b/modulefiles/hpccf/peloton/tcl/slurm/23.02.5 new file mode 100644 index 00000000..95d58192 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/slurm/23.02.5 @@ -0,0 +1,44 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-06 10:14:03.003572 +## +## slurm@23-02-5%gcc@11.3.0~gtk~hdf5+hwloc+mariadb+pmix+readline+restd build_system=autotools sysconfdir=PREFIX/etc arch=linux-ubuntu22.04-x86_64_v2/2raizu2 +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis "Slurm is an open source, fault-tolerant, and highly scalable cluster management and job scheduling system for large and small Linux clusters." + +proc ModulesHelp { } { + puts stderr "Name : slurm" + puts stderr "Version: 23-02-5" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Slurm is an open source, fault-tolerant, and highly scalable cluster" + puts stderr "management and job scheduling system for large and small Linux clusters." + puts stderr "Slurm requires no kernel modifications for its operation and is" + puts stderr "relatively self-contained. As a cluster workload manager, Slurm has" + puts stderr "three key functions. First, it allocates exclusive and/or non-exclusive" + puts stderr "access to resources (compute nodes) to users for some duration of time" + puts stderr "so they can perform work. Second, it provides a framework for starting," + puts stderr "executing, and monitoring work (normally a parallel job) on the set of" + puts stderr "allocated nodes. Finally, it arbitrates contention for resources by" + puts stderr "managing a queue of pending work." +} + +conflict slurm + +prepend-path --delim ":" CPATH "/share/apps/22.04/manual/slurm/23.02.5/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/manual/slurm/23.02.5/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/manual/slurm/23.02.5/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/manual/slurm/23.02.5/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/manual/slurm/23.02.5/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/manual/slurm/23.02.5/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/manual/slurm/23.02.5/share/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/manual/slurm/23.02.5/." +setenv SLURM_ROOT "/share/apps/22.04/manual/slurm/23.02.5" + +if [module-info mode load] { +} + +setenv SQUEUE_FORMAT "%.20i %.9P %.8j %.8u %.8a %.2t %.11M %.11L %.5D %3C %6m %R" diff --git a/modulefiles/hpccf/peloton/tcl/slurm/23.02.6 b/modulefiles/hpccf/peloton/tcl/slurm/23.02.6 new file mode 100644 index 00000000..90b91453 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/slurm/23.02.6 @@ -0,0 +1,44 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-10-17 09:57:57.237995 +## +## slurm@23-02-6%gcc@11.3.0~gtk~hdf5+hwloc+mariadb+pmix+readline+restd build_system=autotools sysconfdir=PREFIX/etc arch=linux-ubuntu22.04-x86_64_v2/ppxjotn +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis "Slurm is an open source, fault-tolerant, and highly scalable cluster management and job scheduling system for large and small Linux clusters." + +proc ModulesHelp { } { + puts stderr "Name : slurm" + puts stderr "Version: 23-02-6" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Slurm is an open source, fault-tolerant, and highly scalable cluster" + puts stderr "management and job scheduling system for large and small Linux clusters." + puts stderr "Slurm requires no kernel modifications for its operation and is" + puts stderr "relatively self-contained. As a cluster workload manager, Slurm has" + puts stderr "three key functions. First, it allocates exclusive and/or non-exclusive" + puts stderr "access to resources (compute nodes) to users for some duration of time" + puts stderr "so they can perform work. Second, it provides a framework for starting," + puts stderr "executing, and monitoring work (normally a parallel job) on the set of" + puts stderr "allocated nodes. Finally, it arbitrates contention for resources by" + puts stderr "managing a queue of pending work." +} + +conflict slurm + +prepend-path --delim ":" CPATH "/share/apps/22.04/manual/slurm/23.02.6/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/manual/slurm/23.02.6/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/manual/slurm/23.02.6/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/manual/slurm/23.02.6/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/manual/slurm/23.02.6/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/manual/slurm/23.02.6/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/manual/slurm/23.02.6/share/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/manual/slurm/23.02.6/." +setenv SLURM_ROOT "/share/apps/22.04/manual/slurm/23.02.6" + +if [module-info mode load] { +} + +setenv SQUEUE_FORMAT "%.20i %.9P %.8j %.8u %.8a %.2t %.11M %.11L %.5D %3C %6m %R" diff --git a/modulefiles/hpccf/peloton/tcl/smartdenovo/master b/modulefiles/hpccf/peloton/tcl/smartdenovo/master new file mode 100644 index 00000000..b5ce84ac --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/smartdenovo/master @@ -0,0 +1,26 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:38.443863 +## +## smartdenovo@master%gcc@11.3.0 build_system=makefile patches=9f514ed arch=linux-ubuntu22.04-x86_64_v2/6rzfl3x +## + + +module-whatis "SMARTdenovo is a de novo assembler for PacBio and Oxford Nanopore (ONT) data." + +proc ModulesHelp { } { + puts stderr "Name : smartdenovo" + puts stderr "Version: master" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "SMARTdenovo is a de novo assembler for PacBio and Oxford Nanopore (ONT)" + puts stderr "data." +} + +conflict smartdenovo + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/smartdenovo-master-6rzfl3xfsa6lzzv2qvl6xoa4bxpqi36r/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/smartdenovo-master-6rzfl3xfsa6lzzv2qvl6xoa4bxpqi36r/." +setenv SMARTDENOVO_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/smartdenovo-master-6rzfl3xfsa6lzzv2qvl6xoa4bxpqi36r" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/snap-korf/2021-11-04 b/modulefiles/hpccf/peloton/tcl/snap-korf/2021-11-04 new file mode 100644 index 00000000..8b9f525e --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/snap-korf/2021-11-04 @@ -0,0 +1,28 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:38.486605 +## +## snap-korf@2021-11-04%gcc@11.3.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v2/5q3fiw5 +## + + +module-whatis "SNAP is a general purpose gene finding program suitable for both eukaryotic and prokaryotic genomes." + +proc ModulesHelp { } { + puts stderr "Name : snap-korf" + puts stderr "Version: 2021-11-04" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "SNAP is a general purpose gene finding program suitable for both" + puts stderr "eukaryotic and prokaryotic genomes." +} + +conflict snap-korf + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/snap-korf-2021-11-04-5q3fiw5fevxqkh4oce36jeapkk7t74l2/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/snap-korf-2021-11-04-5q3fiw5fevxqkh4oce36jeapkk7t74l2/." +setenv ZOE "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/snap-korf-2021-11-04-5q3fiw5fevxqkh4oce36jeapkk7t74l2" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/snap-korf-2021-11-04-5q3fiw5fevxqkh4oce36jeapkk7t74l2" +setenv SNAP_KORF_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/snap-korf-2021-11-04-5q3fiw5fevxqkh4oce36jeapkk7t74l2" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/sortmerna/2017-07-13 b/modulefiles/hpccf/peloton/tcl/sortmerna/2017-07-13 new file mode 100644 index 00000000..04c81468 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/sortmerna/2017-07-13 @@ -0,0 +1,26 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:38.546886 +## +## sortmerna@2017-07-13%gcc@11.3.0~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v2/xaxho6u +## + + +module-whatis "SortMeRNA is a program tool for filtering, mapping and OTU-picking NGS reads in metatranscriptomic and metagenomic data" + +proc ModulesHelp { } { + puts stderr "Name : sortmerna" + puts stderr "Version: 2017-07-13" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "SortMeRNA is a program tool for filtering, mapping and OTU-picking NGS" + puts stderr "reads in metatranscriptomic and metagenomic data" +} + +conflict sortmerna + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/sortmerna-2017-07-13-xaxho6uamfharp5wvnpcxx4bc3rce5cl/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/sortmerna-2017-07-13-xaxho6uamfharp5wvnpcxx4bc3rce5cl/." +setenv SORTMERNA_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/sortmerna-2017-07-13-xaxho6uamfharp5wvnpcxx4bc3rce5cl" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/spades/3.15.5 b/modulefiles/hpccf/peloton/tcl/spades/3.15.5 new file mode 100644 index 00000000..ab1aed02 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/spades/3.15.5 @@ -0,0 +1,30 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:38.612140 +## +## spades@3.15.5%gcc@11.3.0~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v2/fstskwk +## + + +module-whatis "SPAdes - St. Petersburg genome assembler - is intended for both standard isolates and single-cell MDA bacteria assemblies." + +proc ModulesHelp { } { + puts stderr "Name : spades" + puts stderr "Version: 3.15.5" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "SPAdes - St. Petersburg genome assembler - is intended for both standard" + puts stderr "isolates and single-cell MDA bacteria assemblies." +} + +module load bzip2/1.0.8 +module load zlib/1.2.13 +prereq bzip2/1.0.8 +prereq zlib/1.2.13 +conflict spades + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/spades-3.15.5-fstskwkc3ghbgp4oyqyqzamy3naxxev3/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/spades-3.15.5-fstskwkc3ghbgp4oyqyqzamy3naxxev3/." +setenv SPADES_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/spades-3.15.5-fstskwkc3ghbgp4oyqyqzamy3naxxev3" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/spglib/2.0.2 b/modulefiles/hpccf/peloton/tcl/spglib/2.0.2 new file mode 100644 index 00000000..2bd0838e --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/spglib/2.0.2 @@ -0,0 +1,32 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:38.688523 +## +## spglib@2.0.2%gcc@11.3.0~ipo+openmp build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v2/rb7loq6 +## +## Configure options: -DUSE_OMP:BOOL=ON +## + + +module-whatis "C library for finding and handling crystal symmetries." + +proc ModulesHelp { } { + puts stderr "Name : spglib" + puts stderr "Version: 2.0.2" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "C library for finding and handling crystal symmetries." +} + +conflict spglib + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/spglib-2.0.2-rb7loq6a5up3b27n7fidpizgkevq6632/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/spglib-2.0.2-rb7loq6a5up3b27n7fidpizgkevq6632/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/spglib-2.0.2-rb7loq6a5up3b27n7fidpizgkevq6632/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/spglib-2.0.2-rb7loq6a5up3b27n7fidpizgkevq6632/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/spglib-2.0.2-rb7loq6a5up3b27n7fidpizgkevq6632/lib" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/spglib-2.0.2-rb7loq6a5up3b27n7fidpizgkevq6632/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/spglib-2.0.2-rb7loq6a5up3b27n7fidpizgkevq6632/." +setenv SPGLIB_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/spglib-2.0.2-rb7loq6a5up3b27n7fidpizgkevq6632" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/sratoolkit/3.0.0 b/modulefiles/hpccf/peloton/tcl/sratoolkit/3.0.0 new file mode 100644 index 00000000..9d4ff424 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/sratoolkit/3.0.0 @@ -0,0 +1,27 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:38.753095 +## +## sratoolkit@3.0.0%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/o55xapj +## + + +module-whatis "The NCBI SRA Toolkit enables reading ('dumping') of sequencing files from the SRA database and writing ('loading') files into the .sra format." + +proc ModulesHelp { } { + puts stderr "Name : sratoolkit" + puts stderr "Version: 3.0.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "The NCBI SRA Toolkit enables reading ("dumping") of sequencing files" + puts stderr "from the SRA database and writing ("loading") files into the .sra" + puts stderr "format." +} + +conflict sratoolkit + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/sratoolkit-3.0.0-o55xapjjuu32622l7zlz4swspeje43yv/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/sratoolkit-3.0.0-o55xapjjuu32622l7zlz4swspeje43yv/." +setenv SRATOOLKIT_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/sratoolkit-3.0.0-o55xapjjuu32622l7zlz4swspeje43yv" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/star/2.7.6a b/modulefiles/hpccf/peloton/tcl/star/2.7.6a new file mode 100644 index 00000000..68429a54 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/star/2.7.6a @@ -0,0 +1,25 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:38.788623 +## +## star@2.7.6a%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/r2cavaz +## + + +module-whatis "STAR is an ultrafast universal RNA-seq aligner." + +proc ModulesHelp { } { + puts stderr "Name : star" + puts stderr "Version: 2.7.6a" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "STAR is an ultrafast universal RNA-seq aligner." +} + +conflict star + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/star-2.7.6a-r2cavazkyn23pzo2nqlmwtsr2pe4n7sv/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/star-2.7.6a-r2cavazkyn23pzo2nqlmwtsr2pe4n7sv/." +setenv STAR_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/star-2.7.6a-r2cavazkyn23pzo2nqlmwtsr2pe4n7sv" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/stringtie/2.2.1 b/modulefiles/hpccf/peloton/tcl/stringtie/2.2.1 new file mode 100644 index 00000000..9e0cb677 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/stringtie/2.2.1 @@ -0,0 +1,26 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:38.836145 +## +## stringtie@2.2.1%gcc@11.3.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v2/z4ecccg +## + + +module-whatis "StringTie is a fast and highly efficient assembler of RNA-Seq alignments into potential transcripts." + +proc ModulesHelp { } { + puts stderr "Name : stringtie" + puts stderr "Version: 2.2.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "StringTie is a fast and highly efficient assembler of RNA-Seq alignments" + puts stderr "into potential transcripts." +} + +conflict stringtie + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/stringtie-2.2.1-z4ecccgeqfwusuo4ypj6wfygdxntyyf2/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/stringtie-2.2.1-z4ecccgeqfwusuo4ypj6wfygdxntyyf2/." +setenv STRINGTIE_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/stringtie-2.2.1-z4ecccgeqfwusuo4ypj6wfygdxntyyf2" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/subread/2.0.2 b/modulefiles/hpccf/peloton/tcl/subread/2.0.2 new file mode 100644 index 00000000..e43725d6 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/subread/2.0.2 @@ -0,0 +1,26 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:38.897268 +## +## subread@2.0.2%gcc@11.3.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v2/zr7fmu2 +## + + +module-whatis "The Subread software package is a tool kit for processing next-gen sequencing data." + +proc ModulesHelp { } { + puts stderr "Name : subread" + puts stderr "Version: 2.0.2" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "The Subread software package is a tool kit for processing next-gen" + puts stderr "sequencing data." +} + +conflict subread + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/subread-2.0.2-zr7fmu2d5g45c65ukbixd6q5okdhg3th/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/subread-2.0.2-zr7fmu2d5g45c65ukbixd6q5okdhg3th/." +setenv SUBREAD_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/subread-2.0.2-zr7fmu2d5g45c65ukbixd6q5okdhg3th" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/tabix/2013-12-16 b/modulefiles/hpccf/peloton/tcl/tabix/2013-12-16 new file mode 100644 index 00000000..584d546b --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/tabix/2013-12-16 @@ -0,0 +1,28 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:38.954886 +## +## tabix@2013-12-16%gcc@11.3.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v2/ejkizfx +## + + +module-whatis "Generic indexer for TAB-delimited genome position files" + +proc ModulesHelp { } { + puts stderr "Name : tabix" + puts stderr "Version: 2013-12-16" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Generic indexer for TAB-delimited genome position files" +} + +module load zlib/1.2.13 +prereq zlib/1.2.13 +conflict tabix + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/tabix-2013-12-16-ejkizfxnhroyw3d7wl6p2h4rgns342gs/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/tabix-2013-12-16-ejkizfxnhroyw3d7wl6p2h4rgns342gs/share/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/tabix-2013-12-16-ejkizfxnhroyw3d7wl6p2h4rgns342gs/." +setenv TABIX_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/tabix-2013-12-16-ejkizfxnhroyw3d7wl6p2h4rgns342gs" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/tassel/5.2.86 b/modulefiles/hpccf/peloton/tcl/tassel/5.2.86 new file mode 100644 index 00000000..a1e56a1d --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/tassel/5.2.86 @@ -0,0 +1,27 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:39.045131 +## +## tassel@5.2.86%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/2cccbpq +## + + +module-whatis "TASSEL is a software package to evaluate traits associations, evolutionary patterns, and linkage disequilibrium." + +proc ModulesHelp { } { + puts stderr "Name : tassel" + puts stderr "Version: 5.2.86" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "TASSEL is a software package to evaluate traits associations," + puts stderr "evolutionary patterns, and linkage disequilibrium." +} + +conflict tassel + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/tassel-5.2.86-2cccbpqywhfjz6uino245oj6unbxjjla/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/tassel-5.2.86-2cccbpqywhfjz6uino245oj6unbxjjla/." +prepend-path --delim ":" CLASSPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/tassel-5.2.86-2cccbpqywhfjz6uino245oj6unbxjjla/bin/lib" +setenv TASSEL_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/tassel-5.2.86-2cccbpqywhfjz6uino245oj6unbxjjla" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/tophat/2.1.2 b/modulefiles/hpccf/peloton/tcl/tophat/2.1.2 new file mode 100644 index 00000000..fdda2492 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/tophat/2.1.2 @@ -0,0 +1,31 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:39.102685 +## +## tophat@2.1.2%gcc@11.3.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/rdvxgcp +## +## Configure options: --with-boost=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/boost-1.82.0-cxrpgjacxeqbrrkf6ho4x5hz6ldrndkr +## + + +module-whatis "Spliced read mapper for RNA-Seq." + +proc ModulesHelp { } { + puts stderr "Name : tophat" + puts stderr "Version: 2.1.2" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Spliced read mapper for RNA-Seq." +} + +module load bowtie2/2.4.2 +prereq bowtie2/2.4.2 +conflict tophat + +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/tophat-2.1.2-rdvxgcpo5seunv4lodola5lzpurqkegb/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/tophat-2.1.2-rdvxgcpo5seunv4lodola5lzpurqkegb/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/tophat-2.1.2-rdvxgcpo5seunv4lodola5lzpurqkegb/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/tophat-2.1.2-rdvxgcpo5seunv4lodola5lzpurqkegb/." +setenv TOPHAT_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/tophat-2.1.2-rdvxgcpo5seunv4lodola5lzpurqkegb" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/trilinos/13.0.1 b/modulefiles/hpccf/peloton/tcl/trilinos/13.0.1 new file mode 100644 index 00000000..4cacdfd8 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/trilinos/13.0.1 @@ -0,0 +1,36 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:39.206551 +## +## trilinos@13.0.1%gcc@11.3.0~adelus~adios2+amesos+amesos2+anasazi+aztec~basker+belos~boost~chaco~complex~cuda~cuda_rdc~debug~dtk+epetra+epetraext~epetraextbtf~epetraextexperimental~epetraextgraphreorderings~exodus+explicit_template_instantiation~float+fortran~gtest~hdf5~hypre+ifpack+ifpack2~intrepid~intrepid2~ipo~isorropia+kokkos~mesquite~minitensor+ml+mpi+muelu~mumps~nox~openmp~panzer~phalanx~piro~python~rocm~rocm_rdc~rol~rythmos+sacado~scorec~shards+shared~shylu~stk~stokhos~stratimikos~strumpack~suite-sparse~superlu~superlu-dist~teko~tempus~thyra+tpetra~trilinoscouplings~wrapper~x11~zoltan~zoltan2 build_system=cmake build_type=Release cxxstd=14 generator=make gotype=long_long arch=linux-ubuntu22.04-x86_64_v2/swnurw2 +## +## Configure options: -DTrilinos_VERBOSE_CONFIGURE:BOOL=OFF -DBUILD_SHARED_LIBS:BOOL=ON -DTrilinos_ENABLE_ALL_OPTIONAL_PACKAGES:BOOL=OFF -DTrilinos_ENABLE_ALL_PACKAGES:BOOL=OFF -DTrilinos_ENABLE_CXX11:BOOL=ON -DTrilinos_ENABLE_DEBUG:BOOL=OFF -DTrilinos_ENABLE_EXAMPLES:BOOL=OFF -DTrilinos_ENABLE_SECONDARY_TESTED_CODE:BOOL=ON -DTrilinos_ENABLE_TESTS:BOOL=OFF -DTrilinos_ENABLE_Fortran:BOOL=ON -DTrilinos_ENABLE_OpenMP:BOOL=OFF -DTrilinos_ENABLE_EXPLICIT_INSTANTIATION:BOOL=ON -DCMAKE_CXX_STANDARD:STRING=14 -DTrilinos_ENABLE_Adelus:BOOL=OFF -DTrilinos_ENABLE_Amesos:BOOL=ON -DTrilinos_ENABLE_Amesos2:BOOL=ON -DTrilinos_ENABLE_Anasazi:BOOL=ON -DTrilinos_ENABLE_AztecOO:BOOL=ON -DTrilinos_ENABLE_Belos:BOOL=ON -DTrilinos_ENABLE_Epetra:BOOL=ON -DTrilinos_ENABLE_EpetraExt:BOOL=ON -DTrilinos_ENABLE_FEI:BOOL=OFF -DTrilinos_ENABLE_Gtest:BOOL=OFF -DTrilinos_ENABLE_Ifpack:BOOL=ON -DTrilinos_ENABLE_Ifpack2:BOOL=ON -DTrilinos_ENABLE_Intrepid:BOOL=OFF -DTrilinos_ENABLE_Intrepid2:BOOL=OFF -DTrilinos_ENABLE_Isorropia:BOOL=OFF -DTrilinos_ENABLE_Kokkos:BOOL=ON -DTrilinos_ENABLE_MiniTensor:BOOL=OFF -DTrilinos_ENABLE_Mesquite:BOOL=OFF -DTrilinos_ENABLE_ML:BOOL=ON -DTrilinos_ENABLE_MueLu:BOOL=ON -DTrilinos_ENABLE_NOX:BOOL=OFF -DTrilinos_ENABLE_Pamgen:BOOL=OFF -DTrilinos_ENABLE_Panzer:BOOL=OFF -DTrilinos_ENABLE_Pike:BOOL=OFF -DTrilinos_ENABLE_Piro:BOOL=OFF -DTrilinos_ENABLE_Phalanx:BOOL=OFF -DTrilinos_ENABLE_PyTrilinos:BOOL=OFF -DTrilinos_ENABLE_ROL:BOOL=OFF -DTrilinos_ENABLE_Rythmos:BOOL=OFF -DTrilinos_ENABLE_Sacado:BOOL=ON -DTrilinos_ENABLE_SCOREC:BOOL=OFF -DTrilinos_ENABLE_Shards:BOOL=OFF -DTrilinos_ENABLE_ShyLU:BOOL=OFF -DTrilinos_ENABLE_STK:BOOL=OFF -DTrilinos_ENABLE_Stokhos:BOOL=OFF -DTrilinos_ENABLE_Stratimikos:BOOL=OFF -DTrilinos_ENABLE_Teko:BOOL=OFF -DTrilinos_ENABLE_Tempus:BOOL=OFF -DTrilinos_ENABLE_Thyra:BOOL=OFF -DTrilinos_ENABLE_Tpetra:BOOL=ON -DTrilinos_ENABLE_TrilinosCouplings:BOOL=OFF -DTrilinos_ENABLE_Triutils:BOOL=ON -DTrilinos_ENABLE_Zoltan:BOOL=OFF -DTrilinos_ENABLE_Zoltan2:BOOL=OFF -DEpetraExt_BUILD_BTF:BOOL=OFF -DEpetraExt_BUILD_EXPERIMENTAL:BOOL=OFF -DEpetraExt_BUILD_GRAPH_REORDERINGS:BOOL=OFF -DAmesos2_ENABLE_Basker:BOOL=OFF -DAmesos2_ENABLE_LAPACK:BOOL=ON -DAmesos2_ENABLE_MUMPS:BOOL=OFF -DTrilinos_ENABLE_SEACASExodus:BOOL=OFF -DTrilinos_ENABLE_SEACASIoss:BOOL=OFF -DTrilinos_ENABLE_SEACASChaco:BOOL=OFF -DTrilinos_ENABLE_SEACASNemslice:BOOL=OFF -DTPL_ENABLE_ADIOS2:BOOL=OFF -DTPL_ENABLE_Boost:BOOL=OFF -DTPL_ENABLE_CUDA:BOOL=OFF -DTPL_ENABLE_HDF5:BOOL=OFF -DTPL_ENABLE_HYPRE:BOOL=OFF -DTPL_ENABLE_MUMPS:BOOL=OFF -DTPL_ENABLE_UMFPACK:BOOL=OFF -DTPL_ENABLE_SuperLU:BOOL=OFF -DTPL_ENABLE_SuperLUDist:BOOL=OFF -DTPL_ENABLE_X11:BOOL=OFF -DTPL_ENABLE_BLAS:BOOL=ON -DBLAS_INCLUDE_DIRS:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openblas-0.3.23-vfu3m2svnjvpeoxiskmm43gm7dm7sf6b/include -DBLAS_ROOT:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openblas-0.3.23-vfu3m2svnjvpeoxiskmm43gm7dm7sf6b -DBLAS_LIBRARY_NAMES:STRING=openblas -DBLAS_LIBRARY_DIRS:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openblas-0.3.23-vfu3m2svnjvpeoxiskmm43gm7dm7sf6b/lib -DTPL_ENABLE_CGNS:BOOL=OFF -DTPL_ENABLE_LAPACK:BOOL=ON -DLAPACK_INCLUDE_DIRS:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openblas-0.3.23-vfu3m2svnjvpeoxiskmm43gm7dm7sf6b/include -DLAPACK_ROOT:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openblas-0.3.23-vfu3m2svnjvpeoxiskmm43gm7dm7sf6b -DLAPACK_LIBRARY_NAMES:STRING=openblas -DLAPACK_LIBRARY_DIRS:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/openblas-0.3.23-vfu3m2svnjvpeoxiskmm43gm7dm7sf6b/lib -DTPL_ENABLE_Matio:BOOL=OFF -DTPL_ENABLE_METIS:BOOL=OFF -DTPL_ENABLE_Netcdf:BOOL=OFF -DTPL_ENABLE_SCALAPACK:BOOL=OFF -DTPL_ENABLE_Zlib:BOOL=ON -DZlib_INCLUDE_DIRS:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/zlib-1.2.13-77qi6rvrwc4iwqziogd6vdxucahcm5qe/include -DZlib_ROOT:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/zlib-1.2.13-77qi6rvrwc4iwqziogd6vdxucahcm5qe -DZlib_LIBRARY_NAMES:STRING=z -DZlib_LIBRARY_DIRS:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/zlib-1.2.13-77qi6rvrwc4iwqziogd6vdxucahcm5qe/lib -DTPL_ENABLE_Pnetcdf:BOOL=OFF -DTPL_ENABLE_HWLOC:BOOL=ON -DHWLOC_INCLUDE_DIRS:STRING=/share/apps/22.04/manual/hwloc/2.9.0/include -DHWLOC_ROOT:STRING=/share/apps/22.04/manual/hwloc/2.9.0 -DHWLOC_LIBRARY_NAMES:STRING=hwloc -DHWLOC_LIBRARY_DIRS:STRING=/share/apps/22.04/manual/hwloc/2.9.0/lib -DTPL_ENABLE_MPI:BOOL=ON -DCMAKE_C_COMPILER:STRING=/share/apps/22.04/manual/openmpi/4.1.5-mpi-io/bin/mpicc -DCMAKE_CXX_COMPILER:STRING=/share/apps/22.04/manual/openmpi/4.1.5-mpi-io/bin/mpic++ -DCMAKE_Fortran_COMPILER:STRING=/share/apps/22.04/manual/openmpi/4.1.5-mpi-io/bin/mpif90 -DMPI_BASE_DIR:STRING=/share/apps/22.04/manual/openmpi/4.1.5-mpi-io -DTPL_ENABLE_ParMETIS:BOOL=OFF -DTPL_ENABLE_Cholmod:BOOL=OFF -DTeuchos_ENABLE_COMPLEX:BOOL=OFF -DTeuchos_ENABLE_FLOAT:BOOL=OFF -DTpetra_INST_OPENMP:BOOL=OFF -DTpetra_INST_DOUBLE:BOOL=ON -DTpetra_INST_COMPLEX_DOUBLE:BOOL=OFF -DTpetra_INST_COMPLEX_FLOAT:BOOL=OFF -DTpetra_INST_FLOAT:BOOL=OFF -DTpetra_INST_SERIAL:BOOL=ON -DTpetra_INST_INT_INT:BOOL=OFF -DTpetra_INST_INT_LONG:BOOL=OFF -DTpetra_INST_INT_LONG_LONG:BOOL=ON -DKokkos_ENABLE_CUDA:BOOL=OFF -DKokkos_ENABLE_OPENMP:BOOL=OFF -DCMAKE_INSTALL_NAME_DIR:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/trilinos-13.0.1-swnurw2n7sycaoxx5oejym2gh6oicdy6/lib +## + + +module-whatis "The Trilinos Project is an effort to develop algorithms and enabling technologies within an object-oriented software framework for the solution of large-scale, complex multi-physics engineering and scientific problems. A unique design feature of Trilinos is its focus on packages. " + +proc ModulesHelp { } { + puts stderr "Name : trilinos" + puts stderr "Version: 13.0.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "The Trilinos Project is an effort to develop algorithms and enabling" + puts stderr "technologies within an object-oriented software framework for the" + puts stderr "solution of large-scale, complex multi-physics engineering and" + puts stderr "scientific problems. A unique design feature of Trilinos is its focus on" + puts stderr "packages." +} + +conflict trilinos + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/trilinos-13.0.1-swnurw2n7sycaoxx5oejym2gh6oicdy6/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/trilinos-13.0.1-swnurw2n7sycaoxx5oejym2gh6oicdy6/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/trilinos-13.0.1-swnurw2n7sycaoxx5oejym2gh6oicdy6/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/trilinos-13.0.1-swnurw2n7sycaoxx5oejym2gh6oicdy6/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/trilinos-13.0.1-swnurw2n7sycaoxx5oejym2gh6oicdy6/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/trilinos-13.0.1-swnurw2n7sycaoxx5oejym2gh6oicdy6/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/trilinos-13.0.1-swnurw2n7sycaoxx5oejym2gh6oicdy6/." +setenv TRILINOS_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/trilinos-13.0.1-swnurw2n7sycaoxx5oejym2gh6oicdy6" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/trimgalore/0.6.6 b/modulefiles/hpccf/peloton/tcl/trimgalore/0.6.6 new file mode 100644 index 00000000..9a383add --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/trimgalore/0.6.6 @@ -0,0 +1,35 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:39.268730 +## +## trimgalore@0.6.6%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/p5swvkg +## + + +module-whatis "Trim Galore! is a wrapper around Cutadapt and FastQC to consistently apply adapter and quality trimming to FastQ files, with extra functionality for RRBS data." + +proc ModulesHelp { } { + puts stderr "Name : trimgalore" + puts stderr "Version: 0.6.6" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Trim Galore! is a wrapper around Cutadapt and FastQC to consistently" + puts stderr "apply adapter and quality trimming to FastQ files, with extra" + puts stderr "functionality for RRBS data." +} + +module load py-cutadapt/4.1 +prereq py-cutadapt/4.1 +conflict trimgalore + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/trimgalore-0.6.6-p5swvkgg43lyymbjlm5dyipalwd6w6yc/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/trimgalore-0.6.6-p5swvkgg43lyymbjlm5dyipalwd6w6yc/." +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-cutadapt-4.1-splikzvmapaiqatyjo3c3xqse4oqu6bd/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-cython-0.29.33-j7dz4z74r3ikjtz6pxss2xvrd4pvrmgb/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-setuptools-67.6.0-73pqhmiv63aez67x7bfchimen7vyv77c/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-dnaio-0.9.1-b5ov4u2th2ayhv3spaiqgauacpu3kdkp/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-xopen-1.6.0-bleewvezlrctkoureikfv6t4h3lg46pd/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-isal-1.1.0-yiyr3ikrqtenfgmvckbt6cs3n6crtkrf/lib/python3.10/site-packages" +setenv TRIMGALORE_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/trimgalore-0.6.6-p5swvkgg43lyymbjlm5dyipalwd6w6yc" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/trimmomatic/0.39 b/modulefiles/hpccf/peloton/tcl/trimmomatic/0.39 new file mode 100644 index 00000000..1551c8e2 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/trimmomatic/0.39 @@ -0,0 +1,25 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:39.351851 +## +## trimmomatic@0.39%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/lpnddj3 +## + + +module-whatis "A flexible read trimming tool for Illumina NGS data." + +proc ModulesHelp { } { + puts stderr "Name : trimmomatic" + puts stderr "Version: 0.39" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "A flexible read trimming tool for Illumina NGS data." +} + +conflict trimmomatic + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/trimmomatic-0.39-lpnddj3bjdcf43tb7zrhmfphtfwmrzro/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/trimmomatic-0.39-lpnddj3bjdcf43tb7zrhmfphtfwmrzro/." +setenv TRIMMOMATIC_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/trimmomatic-0.39-lpnddj3bjdcf43tb7zrhmfphtfwmrzro" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/trinity/2.15.1.FULL b/modulefiles/hpccf/peloton/tcl/trinity/2.15.1.FULL new file mode 100644 index 00000000..f3af4f1e --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/trinity/2.15.1.FULL @@ -0,0 +1,66 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:39.530231 +## +## trinity@2.15.1.FULL%gcc@11.3.0 build_system=makefile patches=44d8c9e arch=linux-ubuntu22.04-x86_64_v2/66gny6t +## + + +module-whatis "Trinity, developed at the Broad Institute and the Hebrew University of Jerusalem, represents a novel method for the efficient and robust de novo reconstruction of transcriptomes from RNA-seq data. Trinity combines three independent software modules: Inchworm, Chrysalis, and Butterfly, applied sequentially to process large volumes of RNA-seq reads. Trinity partitions the sequence data into many individual de Bruijn graphs, each representing the transcriptional complexity at a given gene or locus, and then processes each graph independently to extract full-length splicing isoforms and to tease apart transcripts derived from paralogous genes. " + +proc ModulesHelp { } { + puts stderr "Name : trinity" + puts stderr "Version: 2.15.1.FULL" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Trinity, developed at the Broad Institute and the Hebrew University of" + puts stderr "Jerusalem, represents a novel method for the efficient and robust de" + puts stderr "novo reconstruction of transcriptomes from RNA-seq data. Trinity" + puts stderr "combines three independent software modules: Inchworm, Chrysalis, and" + puts stderr "Butterfly, applied sequentially to process large volumes of RNA-seq" + puts stderr "reads. Trinity partitions the sequence data into many individual de" + puts stderr "Bruijn graphs, each representing the transcriptional complexity at a" + puts stderr "given gene or locus, and then processes each graph independently to" + puts stderr "extract full-length splicing isoforms and to tease apart transcripts" + puts stderr "derived from paralogous genes." +} + +module load bowtie/1.3.1 +module load jellyfish/2.3.0 +module load openjdk/11.0.17_8 +prereq bowtie/1.3.1 +prereq jellyfish/2.3.0 +prereq openjdk/11.0.17_8 +conflict trinity + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/trinity-2.15.1.FULL-66gny6tfdrxt2gmxhgy5lgraqqciedrz/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/trinity-2.15.1.FULL-66gny6tfdrxt2gmxhgy5lgraqqciedrz/." +prepend-path --delim ":" PERL5LIB "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-db-file-1.858-k7rxlfvzjzkepskmo4udsyjw2yjallda/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-uri-5.08-zlzdyl42tjgezd6shdnwzjzyhaosh3dy/lib/perl5" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-numpy-1.24.3-smq5zjvzvwacabs3urczo6cw6wax4jxd/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-setuptools-63.4.3-cncjqik3yxqj7xpxmpsxyad6nq56vfad/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-rst2pdf-0.99-fkmdg7dl6pjtkmswwzekcteil3qfarq3/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-docutils-0.19-azg24bmqr3eg7kzn22i46lvb3snbnjvj/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-importlib-metadata-6.6.0-krof2llerkjh7zt34lixj6nk4n7vkfd6/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-zipp-3.8.1-gwoktsego3wvo3jgpzytza4qc3hfrner/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-jinja2-3.1.2-64xcjocuriouunpoqtuj2d2k4wnnvwin/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-markupsafe-2.1.1-gu5wf7ssiurnusmyqmdk64puyqq3j2dd/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-packaging-23.0-uoxuqqcyacdnyxnlblqih3qoaam6josk/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-pygments-2.13.0-fbuuipt4czlj4gw6345yolcofuvlx3gk/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-pyyaml-6.0-y2grw7lwk4zmg4yxlnx5f57fewrnkzz4/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-reportlab-3.6.12-w3tco3mltgd3eduez5tv7vnf6kgvhsqn/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-pillow-9.5.0-zmjpx4etvtpfuar4ib545n2akod5iaqa/lib/python3.10/site-packages" +prepend-path --delim ":" PYTHONPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/py-smartypants-2.0.1-hlcpgridvijgewwq6fwyikd43p4fojil/lib/python3.10/site-packages" +prepend-path --delim ":" XLOCALEDIR "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libx11-1.8.4-elhqje4pmr6c4jp256hrfear2cp45szn/share/X11/locale" +prepend-path --delim ":" XDG_DATA_DIRS "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gobject-introspection-1.72.1-xch6onwdf5vxxc2xfg36w2hf5zqoly5o/share" +prepend-path --delim ":" GI_TYPELIB_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/gobject-introspection-1.72.1-xch6onwdf5vxxc2xfg36w2hf5zqoly5o/lib/girepository-1.0" +prepend-path --delim ":" XDG_DATA_DIRS "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/harfbuzz-5.3.1-aqhg7eqqbpdgoemjir33tj7cxgiij6ht/share" +prepend-path --delim ":" GI_TYPELIB_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/harfbuzz-5.3.1-aqhg7eqqbpdgoemjir33tj7cxgiij6ht/lib/girepository-1.0" +prepend-path --delim ":" XDG_DATA_DIRS "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/pango-1.50.13-6slmqt2zkeh47bupnm5irsqids2gnvjo/share" +prepend-path --delim ":" GI_TYPELIB_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/pango-1.50.13-6slmqt2zkeh47bupnm5irsqids2gnvjo/lib/girepository-1.0" +prepend-path --delim " " TCLLIBPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/tk-8.6.11-rchs4c5rcxfu6budszyg467or7mccqub/lib" +setenv R_HOME "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/r-4.2.2-qquqjjeqlfvg7roteta4pg5egn5lanes/rlib/R" +setenv TRINITY_HOME "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/trinity-2.15.1.FULL-66gny6tfdrxt2gmxhgy5lgraqqciedrz/bin" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/trinity-2.15.1.FULL-66gny6tfdrxt2gmxhgy5lgraqqciedrz/bin/util" +setenv TRINITY_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/trinity-2.15.1.FULL-66gny6tfdrxt2gmxhgy5lgraqqciedrz" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/turbovnc/3.0.3 b/modulefiles/hpccf/peloton/tcl/turbovnc/3.0.3 new file mode 100644 index 00000000..d18ef900 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/turbovnc/3.0.3 @@ -0,0 +1,29 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:40.390653 +## +## turbovnc@3.0.3%gcc@11.3.0~ipo+libjpeg-turbo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v2/vdwblxl +## +## Configure options: -DG:STRING=NMake Makefiles -DCMAKE_BUILD_TYPE:STRING=Release -DTJPEG_INCLUDE_DIR:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libjpeg-turbo-2.1.5-2ov4shd6myycxsfbzzebxepvxig4ei2p/include -DTJPEG_LIBRARY:STRING=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/libjpeg-turbo-2.1.5-2ov4shd6myycxsfbzzebxepvxig4ei2p/lib/libturbojpeg.so +## + + +module-whatis "TurboVNC is a derivative of VNC (Virtual Network Computing) that is tuned to provide peak performance for 3D and video workloads." + +proc ModulesHelp { } { + puts stderr "Name : turbovnc" + puts stderr "Version: 3.0.3" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "TurboVNC is a derivative of VNC (Virtual Network Computing) that is" + puts stderr "tuned to provide peak performance for 3D and video workloads." +} + +conflict turbovnc + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/turbovnc-3.0.3-vdwblxlkfhjdsfbo3xnmfacyczc2hjij/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/turbovnc-3.0.3-vdwblxlkfhjdsfbo3xnmfacyczc2hjij/share/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/turbovnc-3.0.3-vdwblxlkfhjdsfbo3xnmfacyczc2hjij/." +setenv TURBOVNC_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/turbovnc-3.0.3-vdwblxlkfhjdsfbo3xnmfacyczc2hjij" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/ucx/1.13.1 b/modulefiles/hpccf/peloton/tcl/ucx/1.13.1 new file mode 100644 index 00000000..65fb3306 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/ucx/1.13.1 @@ -0,0 +1,34 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:40.463966 +## +## ucx@1.13.1%gcc@11.3.0~assertions~backtrace_detail~cma~cuda~dc~debug~dm+examples~gdrcopy~gtest~ib_hw_tm~java~knem~logging~mlx5_dv+openmp+optimizations~parameter_checking+pic~rc~rdmacm~rocm+thread_multiple~ucg~ud~verbs~vfs~xpmem build_system=autotools libs=shared,static opt=3 patches=32fce32 simd=auto arch=linux-ubuntu22.04-x86_64_v2/sghekdq +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis "a communication library implementing high-performance messaging for MPI/PGAS frameworks" + +proc ModulesHelp { } { + puts stderr "Name : ucx" + puts stderr "Version: 1.13.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "a communication library implementing high-performance messaging for" + puts stderr "MPI/PGAS frameworks" +} + +conflict ucx + +prepend-path --delim ":" CPATH "/share/apps/22.04/manual/ucx/1.13.1/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/manual/ucx/1.13.1/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/manual/ucx/1.13.1/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/manual/ucx/1.13.1/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/manual/ucx/1.13.1/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/manual/ucx/1.13.1/bin" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/manual/ucx/1.13.1/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/manual/ucx/1.13.1/." +setenv UCX_ROOT "/share/apps/22.04/manual/ucx/1.13.1" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/ucx/1.14.1 b/modulefiles/hpccf/peloton/tcl/ucx/1.14.1 new file mode 100644 index 00000000..5ec84741 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/ucx/1.14.1 @@ -0,0 +1,34 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-09-14 16:05:40.164162 +## +## ucx@1.14.1%gcc@11.3.0~assertions~backtrace_detail~cma~cuda~dc~debug~dm+examples~gdrcopy~gtest~ib_hw_tm~java~knem~logging~mlx5_dv+openmp+optimizations~parameter_checking+pic~rc~rdmacm~rocm+thread_multiple~ucg~ud~verbs~vfs~xpmem build_system=autotools libs=shared,static opt=3 simd=auto arch=linux-ubuntu22.04-x86_64_v2/bhj5drb +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis "a communication library implementing high-performance messaging for MPI/PGAS frameworks" + +proc ModulesHelp { } { + puts stderr "Name : ucx" + puts stderr "Version: 1.14.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "a communication library implementing high-performance messaging for" + puts stderr "MPI/PGAS frameworks" +} + +conflict ucx + +prepend-path --delim ":" CPATH "/share/apps/22.04/manual/ucx/1.14.1/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/manual/ucx/1.14.1/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/manual/ucx/1.14.1/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/manual/ucx/1.14.1/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/manual/ucx/1.14.1/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/manual/ucx/1.14.1/bin" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/manual/ucx/1.14.1/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/manual/ucx/1.14.1/." +setenv UCX_ROOT "/share/apps/22.04/manual/ucx/1.14.1" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/usearch/11.0.667 b/modulefiles/hpccf/peloton/tcl/usearch/11.0.667 new file mode 100644 index 00000000..46ce2ae5 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/usearch/11.0.667 @@ -0,0 +1,30 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:40.532825 +## +## usearch@11.0.667%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/4bepd6f +## + + +module-whatis "USEARCH is a unique sequence analysis tool with thousands of users world-wide." + +proc ModulesHelp { } { + puts stderr "Name : usearch" + puts stderr "Version: 11.0.667" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "USEARCH is a unique sequence analysis tool with thousands of users" + puts stderr "world-wide. Note: A manual download is required for USEARCH. Spack will" + puts stderr "search your current directory for the download file. Alternatively, add" + puts stderr "this file to a mirror so that Spack can find it. For instructions on how" + puts stderr "to set up a mirror, see" + puts stderr "https://spack.readthedocs.io/en/latest/mirrors.html" +} + +conflict usearch + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/usearch-11.0.667-4bepd6fa7djga4mp5j5oz3wk45zr3m6l/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/usearch-11.0.667-4bepd6fa7djga4mp5j5oz3wk45zr3m6l/." +setenv USEARCH_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/usearch-11.0.667-4bepd6fa7djga4mp5j5oz3wk45zr3m6l" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/valgrind/3.20.0 b/modulefiles/hpccf/peloton/tcl/valgrind/3.20.0 new file mode 100644 index 00000000..fa5a1506 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/valgrind/3.20.0 @@ -0,0 +1,38 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:40.554559 +## +## valgrind@3.20.0%gcc@11.3.0+boost+mpi+only64bit~ubsan build_system=autotools libs=shared,static arch=linux-ubuntu22.04-x86_64_v2/tzngtnx +## +## Configure options: --enable-shared --enable-static --enable-only64bit +## + + +module-whatis "An instrumentation framework for building dynamic analysis." + +proc ModulesHelp { } { + puts stderr "Name : valgrind" + puts stderr "Version: 3.20.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "An instrumentation framework for building dynamic analysis. There are" + puts stderr "Valgrind tools that can automatically detect many memory management and" + puts stderr "threading bugs, and profile your programs in detail. You can also use" + puts stderr "Valgrind to build new tools. Valgrind is Open Source / Free Software," + puts stderr "and is freely available under the GNU General Public License, version 2." +} + +conflict valgrind + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/valgrind-3.20.0-tzngtnx57hfgxebp2zjamm4rwhn6tkqc/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/valgrind-3.20.0-tzngtnx57hfgxebp2zjamm4rwhn6tkqc/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/valgrind-3.20.0-tzngtnx57hfgxebp2zjamm4rwhn6tkqc/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/valgrind-3.20.0-tzngtnx57hfgxebp2zjamm4rwhn6tkqc/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/valgrind-3.20.0-tzngtnx57hfgxebp2zjamm4rwhn6tkqc/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/valgrind-3.20.0-tzngtnx57hfgxebp2zjamm4rwhn6tkqc/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/valgrind-3.20.0-tzngtnx57hfgxebp2zjamm4rwhn6tkqc/share/man" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/valgrind-3.20.0-tzngtnx57hfgxebp2zjamm4rwhn6tkqc/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/valgrind-3.20.0-tzngtnx57hfgxebp2zjamm4rwhn6tkqc/." +setenv VALGRIND_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/valgrind-3.20.0-tzngtnx57hfgxebp2zjamm4rwhn6tkqc" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/vcftools/0.1.14 b/modulefiles/hpccf/peloton/tcl/vcftools/0.1.14 new file mode 100644 index 00000000..6e3f85b7 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/vcftools/0.1.14 @@ -0,0 +1,34 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:40.604919 +## +## vcftools@0.1.14%gcc@11.3.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/kmjvbos +## +## Configure options: --with-pmdir=/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/vcftools-0.1.14-kmjvboscycmd2uq5mbbt6ik2mz72ulzy/lib +## + + +module-whatis "VCFtools is a program package designed for working with VCF files, such as those generated by the 1000 Genomes Project. The aim of VCFtools is to provide easily accessible methods for working with complex genetic variation data in the form of VCF files. " + +proc ModulesHelp { } { + puts stderr "Name : vcftools" + puts stderr "Version: 0.1.14" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "VCFtools is a program package designed for working with VCF files, such" + puts stderr "as those generated by the 1000 Genomes Project. The aim of VCFtools is" + puts stderr "to provide easily accessible methods for working with complex genetic" + puts stderr "variation data in the form of VCF files." +} + +conflict vcftools + +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/vcftools-0.1.14-kmjvboscycmd2uq5mbbt6ik2mz72ulzy/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/vcftools-0.1.14-kmjvboscycmd2uq5mbbt6ik2mz72ulzy/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/vcftools-0.1.14-kmjvboscycmd2uq5mbbt6ik2mz72ulzy/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/vcftools-0.1.14-kmjvboscycmd2uq5mbbt6ik2mz72ulzy/share/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/vcftools-0.1.14-kmjvboscycmd2uq5mbbt6ik2mz72ulzy/." +prepend-path --delim ":" PERL5LIB "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/vcftools-0.1.14-kmjvboscycmd2uq5mbbt6ik2mz72ulzy/lib" +setenv VCFTOOLS_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/vcftools-0.1.14-kmjvboscycmd2uq5mbbt6ik2mz72ulzy" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/velvet/1.2.10 b/modulefiles/hpccf/peloton/tcl/velvet/1.2.10 new file mode 100644 index 00000000..464fda9f --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/velvet/1.2.10 @@ -0,0 +1,26 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:40.626547 +## +## velvet@1.2.10%gcc@11.3.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v2/an7b3iz +## + + +module-whatis "Velvet is a de novo genomic assembler specially designed for short read sequencing technologies." + +proc ModulesHelp { } { + puts stderr "Name : velvet" + puts stderr "Version: 1.2.10" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Velvet is a de novo genomic assembler specially designed for short read" + puts stderr "sequencing technologies." +} + +conflict velvet + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/velvet-1.2.10-an7b3izs2evnafd44r5cc7kerozpuvm2/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/velvet-1.2.10-an7b3izs2evnafd44r5cc7kerozpuvm2/." +setenv VELVET_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/velvet-1.2.10-an7b3izs2evnafd44r5cc7kerozpuvm2" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/velvetoptimiser/2.2.6 b/modulefiles/hpccf/peloton/tcl/velvetoptimiser/2.2.6 new file mode 100644 index 00000000..d94afb54 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/velvetoptimiser/2.2.6 @@ -0,0 +1,28 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:40.662837 +## +## velvetoptimiser@2.2.6%gcc@11.3.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v2/fikg4xg +## + + +module-whatis "Automatically optimise three of Velvet's assembly parameters." + +proc ModulesHelp { } { + puts stderr "Name : velvetoptimiser" + puts stderr "Version: 2.2.6" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Automatically optimise three of Velvet's assembly parameters." +} + +module load velvet/1.2.10 +prereq velvet/1.2.10 +conflict velvetoptimiser + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/velvetoptimiser-2.2.6-fikg4xgud5g2g4hkiwdnrbslrsnq4set/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/velvetoptimiser-2.2.6-fikg4xgud5g2g4hkiwdnrbslrsnq4set/." +prepend-path --delim ":" PERL5LIB "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-bioperl-1.7.6-lpnix2lf6nqg3iyrubxvnyk7t6cdhvt5/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-data-stag-0.14-qxa6ljpcfhied37o27ivbi7hjpgpqfac/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-io-string-1.08-lnknpiwgwbkk7nr7flyp5gllj6dkra5p/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-error-0.17029-b3fqppdcqfk473uk47lh5ieplbi2megs/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-graph-0.20105-uxpeq5uz3a3rpl6obadpcmxgf3jxn47d/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-http-message-6.44-ixxtnswgikoyk3kydcnvsu6qbcqoliu5/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-encode-locale-1.05-dusheff2zsdlsfacrxlh6qjggdp2gbmn/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-http-date-6.02-kaodnrbugleadkj2d6dmmpunqdeg74ho/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-io-html-1.004-ajvzukijazeq33mnar45d66uebcowesk/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-lwp-mediatypes-6.02-qw37ifctnvoerqv5266eyqnbon5oqu6z/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-try-tiny-0.31-kxe4fyatmf7rikvngyyqnlzjv2rgo5dq/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-uri-5.08-c7vatj7qwhicdqwematinnifeqmtiade/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-io-stringy-2.111-6xvxisedltkftzxhoi6f56wcugzwxj2l/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-ipc-run-20220807.0-ixfwzdqt2dbsqxk42n7edqc2fnac5p2m/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-io-tty-1.17-d6znwuah4nletarmwu42udfxjjwq7m7q/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-libwww-perl-6.68-54fbge7bahfikslhtcqvfzgl3ytkxup3/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-file-listing-6.04-mmfxbcbh6r4qdwxsw7rccrte3oevfdjq/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-html-parser-3.72-ogevb2dna3xrshhw2zm4k5beow6bqkpc/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-html-tagset-3.20-h6qhgjgl2rvmjziyberfurdnkc7hmtsp/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-http-cookies-6.10-6vdz54hj5l4is75s36gqicpdc5fjr6ni/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-http-daemon-6.01-ahan4a7pulhhahldioy4ojhuuzb5z32i/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-http-negotiate-6.01-k4hzwnp3igjws43ktbmhq2nnrjsktce7/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-net-http-6.22-vcbgjb3d5i6xctdli5med2mnsr63t7aa/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-www-robotrules-6.02-jxb5st6holvuezsz6b3sra26f4evpcst/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-libxml-perl-0.08-ha7uurcr5f4xg3vhe7q4in34iafutqlx/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-list-moreutils-0.430-3xzhqky7wh5yyr3egqkf6vikdjlyyqyk/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-exporter-tiny-1.006002-g3ofamwbighmr4ma4kaslrt7hfciklms/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-list-moreutils-xs-0.430-guiuzgtnftgmevegno7dkyqcvlizrsut/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-module-build-0.4232-wdn6u353uuool4hu46ohv7ujnha76r6w/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-set-scalar-1.29-l7msjzrcbhrlzbs4usmdze6nkqkozbn6/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-test-most-0.38-nxahf4b6mpnpgwhcdrsikiu6hfmn5xx5/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-exception-class-1.45-t5yy5qlayz2vbztdih23dlbajclnwhpn/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-class-data-inheritable-0.08-amjadsuhj75r25hjlra7l3snp6ggac73/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-devel-stacktrace-2.04-ailnskgbtgaedrnkjuxnbomlfvsemlla/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-test-deep-1.204-eg5s6qmrihxfamb5oswv34dppdfkc3bd/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-test-differences-0.69-xsgxqueoq6syq6n3nexh7qj7kpsuvmah/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-capture-tiny-0.48-il3jaqf2upunnzkzlotqopvqx2s3iz3i/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-text-diff-1.45-6yjxv4zdcupi5ek5rtbonudqwoota2ag/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-algorithm-diff-1.1903-66djhhbopf42ojrt54s2tpbulicbmxoo/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-test-exception-0.43-4nwuxhcxzhhn2yk3aj3ynjswvpyvhjy7/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-sub-uplevel-0.2800-jss357ct2ifo6fobdh4ec3su33mixbh7/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-test-warn-0.30-oop3kmff3gq72spktyek6xyx7vbm2omi/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-test-requiresinternet-0.05-j6viqrpa5bxgc4mnokx6duw6jwoo3jcb/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-dom-1.46-zr3vz62vh3kykubqs4v7zxr4emkea4hc/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-parser-2.46-cecp7xpe4wv3iqp3wtv25ytinzrgkay5/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-regexp-0.04-zb6nmbelftis6gx7crhejhqve45ka4wu/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-dom-xpath-0.14-gglkthdq2jnt5clpupbdbbnd7sklfo7m/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-xpathengine-0.14-njmd7kmm4i5j5cutagt2sv5ljvx5b75k/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-libxml-2.0201-3ea6roftkcilqlf25qk7av3k2ykx6q2l/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-namespacesupport-1.12_9-vz42efugx2pyx4wytuqm5xhnzre376kt/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-sax-1.02-kd3mvqlczikkc3bc5eib2ed24jsdfqph/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-sax-base-1.09-z4abcifhwmhh3fbnudv3nhcvawe2kv7m/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-sax-writer-0.57-rjw754swirs3to7ucbq45mtjg57xpdfr/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-filter-buffertext-1.01-l6gexlgy62irprrlmcrhpir6tsfe3doe/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-twig-3.52-y76nvxztr6rrd7dqb3quao2shvvpicic/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-xml-writer-0.900-kgjhcfpmxqlhrolc6advoag7zmzcqe2p/lib/perl5:/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/perl-yaml-1.30-qdvonqngv35aakaerkfxhaeitg7wwfjt/lib/perl5" +setenv VELVETOPTIMISER_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/velvetoptimiser-2.2.6-fikg4xgud5g2g4hkiwdnrbslrsnq4set" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/virtualgl/2.5.2 b/modulefiles/hpccf/peloton/tcl/virtualgl/2.5.2 new file mode 100644 index 00000000..1b496029 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/virtualgl/2.5.2 @@ -0,0 +1,29 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-06 09:07:38.854995 +## +## virtualgl@2.5.2%gcc@11.3.0~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v2/la4kdr2 +## + + +module-whatis "VirtualGL redirects 3D commands from a Unix/Linux OpenGL application onto a server-side GPU and converts the rendered 3D images into a video stream with which remote clients can interact to view and control the 3D application in real time." + +proc ModulesHelp { } { + puts stderr "Name : virtualgl" + puts stderr "Version: 2.5.2" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "VirtualGL redirects 3D commands from a Unix/Linux OpenGL application" + puts stderr "onto a server-side GPU and converts the rendered 3D images into a video" + puts stderr "stream with which remote clients can interact to view and control the 3D" + puts stderr "application in real time." +} + +conflict virtualgl + +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/virtualgl-2.5.2-la4kdr2ukgzzfohds2mq2wftoqxiwht7/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/virtualgl-2.5.2-la4kdr2ukgzzfohds2mq2wftoqxiwht7/bin" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/virtualgl-2.5.2-la4kdr2ukgzzfohds2mq2wftoqxiwht7/." +setenv VIRTUALGL_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/virtualgl-2.5.2-la4kdr2ukgzzfohds2mq2wftoqxiwht7" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/voropp/0.4.6 b/modulefiles/hpccf/peloton/tcl/voropp/0.4.6 new file mode 100644 index 00000000..4204b828 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/voropp/0.4.6 @@ -0,0 +1,33 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:40.880261 +## +## voropp@0.4.6%gcc@11.3.0+pic build_system=makefile arch=linux-ubuntu22.04-x86_64_v2/6yxwhkr +## + + +module-whatis "Voro++ is a open source software library for the computation of the Voronoi diagram, a widely-used tessellation that has applications in many scientific fields." + +proc ModulesHelp { } { + puts stderr "Name : voropp" + puts stderr "Version: 0.4.6" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Voro++ is a open source software library for the computation of the" + puts stderr "Voronoi diagram, a widely-used tessellation that has applications in" + puts stderr "many scientific fields." +} + +conflict voropp + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/voropp-0.4.6-6yxwhkrkay5blouuv27herrfqk6ohnqs/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/voropp-0.4.6-6yxwhkrkay5blouuv27herrfqk6ohnqs/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/voropp-0.4.6-6yxwhkrkay5blouuv27herrfqk6ohnqs/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/voropp-0.4.6-6yxwhkrkay5blouuv27herrfqk6ohnqs/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/voropp-0.4.6-6yxwhkrkay5blouuv27herrfqk6ohnqs/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/voropp-0.4.6-6yxwhkrkay5blouuv27herrfqk6ohnqs/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/voropp-0.4.6-6yxwhkrkay5blouuv27herrfqk6ohnqs/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/voropp-0.4.6-6yxwhkrkay5blouuv27herrfqk6ohnqs/." +setenv VOROPP_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/voropp-0.4.6-6yxwhkrkay5blouuv27herrfqk6ohnqs" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/vsearch/2.22.1 b/modulefiles/hpccf/peloton/tcl/vsearch/2.22.1 new file mode 100644 index 00000000..e19d7c4f --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/vsearch/2.22.1 @@ -0,0 +1,26 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-06 09:07:38.897563 +## +## vsearch@2.22.1%gcc@11.3.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/mw67rnm +## + + +module-whatis "VSEARCH is a versatile open-source tool for metagenomics." + +proc ModulesHelp { } { + puts stderr "Name : vsearch" + puts stderr "Version: 2.22.1" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "VSEARCH is a versatile open-source tool for metagenomics." +} + +conflict vsearch + +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/vsearch-2.22.1-mw67rnmdblrostrhnczjgv3iee76rmcq/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/vsearch-2.22.1-mw67rnmdblrostrhnczjgv3iee76rmcq/share/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/vsearch-2.22.1-mw67rnmdblrostrhnczjgv3iee76rmcq/." +setenv VSEARCH_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/vsearch-2.22.1-mw67rnmdblrostrhnczjgv3iee76rmcq" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/xerces-c/3.2.4 b/modulefiles/hpccf/peloton/tcl/xerces-c/3.2.4 new file mode 100644 index 00000000..23e049c6 --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/xerces-c/3.2.4 @@ -0,0 +1,37 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:40.900464 +## +## xerces-c@3.2.4%gcc@11.3.0 build_system=autotools cxxstd=default netaccessor=curl transcoder=gnuiconv arch=linux-ubuntu22.04-x86_64_v2/2lm7pzc +## +## Configure options: --enable-netaccessor-curl --enable-transcoder-gnuiconv +## + + +module-whatis "Xerces-C++ is a validating XML parser written in a portable subset of C++. Xerces-C++ makes it easy to give your application the ability to read and write XML data. A shared library is provided for parsing, generating, manipulating, and validating XML documents using the DOM, SAX, and SAX2 APIs." + +proc ModulesHelp { } { + puts stderr "Name : xerces-c" + puts stderr "Version: 3.2.4" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Xerces-C++ is a validating XML parser written in a portable subset of" + puts stderr "C++. Xerces-C++ makes it easy to give your application the ability to" + puts stderr "read and write XML data. A shared library is provided for parsing," + puts stderr "generating, manipulating, and validating XML documents using the DOM," + puts stderr "SAX, and SAX2 APIs." +} + +conflict xerces-c + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/xerces-c-3.2.4-2lm7pzcn2ne5hnpxsfxvuxuukgybnsew/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/xerces-c-3.2.4-2lm7pzcn2ne5hnpxsfxvuxuukgybnsew/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/xerces-c-3.2.4-2lm7pzcn2ne5hnpxsfxvuxuukgybnsew/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/xerces-c-3.2.4-2lm7pzcn2ne5hnpxsfxvuxuukgybnsew/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/xerces-c-3.2.4-2lm7pzcn2ne5hnpxsfxvuxuukgybnsew/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/xerces-c-3.2.4-2lm7pzcn2ne5hnpxsfxvuxuukgybnsew/bin" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/xerces-c-3.2.4-2lm7pzcn2ne5hnpxsfxvuxuukgybnsew/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/xerces-c-3.2.4-2lm7pzcn2ne5hnpxsfxvuxuukgybnsew/." +setenv XERCES_C_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/xerces-c-3.2.4-2lm7pzcn2ne5hnpxsfxvuxuukgybnsew" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/yasm/1.3.0 b/modulefiles/hpccf/peloton/tcl/yasm/1.3.0 new file mode 100644 index 00000000..2376455d --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/yasm/1.3.0 @@ -0,0 +1,33 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:40.926017 +## +## yasm@1.3.0%gcc@11.3.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v2/edfusab +## + + +module-whatis "Yasm is a complete rewrite of the NASM-2.11.06 assembler. It supports the x86 and AMD64 instruction sets, accepts NASM and GAS assembler syntaxes and outputs binary, ELF32 and ELF64 object formats." + +proc ModulesHelp { } { + puts stderr "Name : yasm" + puts stderr "Version: 1.3.0" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "Yasm is a complete rewrite of the NASM-2.11.06 assembler. It supports" + puts stderr "the x86 and AMD64 instruction sets, accepts NASM and GAS assembler" + puts stderr "syntaxes and outputs binary, ELF32 and ELF64 object formats." +} + +conflict yasm + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/yasm-1.3.0-edfusabnabwknfr27qjssxotndixkrxg/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/yasm-1.3.0-edfusabnabwknfr27qjssxotndixkrxg/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/yasm-1.3.0-edfusabnabwknfr27qjssxotndixkrxg/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/yasm-1.3.0-edfusabnabwknfr27qjssxotndixkrxg/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/yasm-1.3.0-edfusabnabwknfr27qjssxotndixkrxg/lib" +prepend-path --delim ":" PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/yasm-1.3.0-edfusabnabwknfr27qjssxotndixkrxg/bin" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/yasm-1.3.0-edfusabnabwknfr27qjssxotndixkrxg/share/man" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/yasm-1.3.0-edfusabnabwknfr27qjssxotndixkrxg/." +setenv YASM_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/yasm-1.3.0-edfusabnabwknfr27qjssxotndixkrxg" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/peloton/tcl/zlib/1.2.13 b/modulefiles/hpccf/peloton/tcl/zlib/1.2.13 new file mode 100644 index 00000000..c11c518e --- /dev/null +++ b/modulefiles/hpccf/peloton/tcl/zlib/1.2.13 @@ -0,0 +1,32 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2023-07-11 16:45:40.947403 +## +## zlib@1.2.13%gcc@11.3.0+optimize+pic+shared build_system=makefile arch=linux-ubuntu22.04-x86_64_v2/77qi6rv +## + + +module-whatis "A free, general-purpose, legally unencumbered lossless data-compression library. " + +proc ModulesHelp { } { + puts stderr "Name : zlib" + puts stderr "Version: 1.2.13" + puts stderr "Target : x86_64_v2" + puts stderr "" + puts stderr "A free, general-purpose, legally unencumbered lossless data-compression" + puts stderr "library." +} + +conflict zlib + +prepend-path --delim ":" CPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/zlib-1.2.13-77qi6rvrwc4iwqziogd6vdxucahcm5qe/include" +prepend-path --delim ":" C_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/zlib-1.2.13-77qi6rvrwc4iwqziogd6vdxucahcm5qe/include" +prepend-path --delim ":" CPLUS_INCLUDE_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/zlib-1.2.13-77qi6rvrwc4iwqziogd6vdxucahcm5qe/include" +prepend-path --delim ":" LD_LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/zlib-1.2.13-77qi6rvrwc4iwqziogd6vdxucahcm5qe/lib" +prepend-path --delim ":" LIBRARY_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/zlib-1.2.13-77qi6rvrwc4iwqziogd6vdxucahcm5qe/lib" +prepend-path --delim ":" MANPATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/zlib-1.2.13-77qi6rvrwc4iwqziogd6vdxucahcm5qe/share/man" +prepend-path --delim ":" PKG_CONFIG_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/zlib-1.2.13-77qi6rvrwc4iwqziogd6vdxucahcm5qe/lib/pkgconfig" +prepend-path --delim ":" CMAKE_PREFIX_PATH "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/zlib-1.2.13-77qi6rvrwc4iwqziogd6vdxucahcm5qe/." +setenv ZLIB_ROOT "/share/apps/22.04/spack/spack-root/opt/spack/linux-ubuntu22.04-x86_64_v2/gcc-11.3.0/zlib-1.2.13-77qi6rvrwc4iwqziogd6vdxucahcm5qe" + +if [module-info mode load] { +} diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/abseil-cpp/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/abseil-cpp/.modulerc new file mode 100644 index 00000000..45a1107e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/abseil-cpp/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded abseil-cpp/20240722.0-eeway2v diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/abseil-cpp/20240722.0-eeway2v b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/abseil-cpp/20240722.0-eeway2v new file mode 100644 index 00000000..05d33fb9 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/abseil-cpp/20240722.0-eeway2v @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:20.863831 +## +## abseil-cpp@20240722.0%gcc@13.2.0~ipo+shared build_system=cmake build_type=Release cxxstd=14 generator=make arch=linux-ubuntu22.04-x86_64_v3/eeway2v +## +## Configure options: -DBUILD_TESTING:BOOL=OFF -DABSL_BUILD_TESTING:BOOL=OFF -DABSL_USE_EXTERNAL_GOOGLETEST:BOOL=OFF -DABSL_FIND_GOOGLETEST:BOOL=OFF -DBUILD_SHARED_LIBS:BOOL=ON -DCMAKE_CXX_STANDARD:STRING=14 +## + + +module-whatis {Abseil Common Libraries (C++)} + +proc ModulesHelp { } { + puts stderr {Name : abseil-cpp} + puts stderr {Version: 20240722.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Abseil Common Libraries (C++)} +} + +conflict abseil-cpp + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/abseil-cpp-20240722.0-eeway2vu3u3rhemvu5cny3ijjfyvdis5/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/abseil-cpp-20240722.0-eeway2vu3u3rhemvu5cny3ijjfyvdis5/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/abseil-cpp-20240722.0-eeway2vu3u3rhemvu5cny3ijjfyvdis5/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/abseil-cpp-20240722.0-eeway2vu3u3rhemvu5cny3ijjfyvdis5/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/abseil-cpp-20240722.0-eeway2vu3u3rhemvu5cny3ijjfyvdis5/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/abseil-cpp-20240722.0-eeway2vu3u3rhemvu5cny3ijjfyvdis5/.} +setenv ABSEIL_CPP_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/abseil-cpp-20240722.0-eeway2vu3u3rhemvu5cny3ijjfyvdis5} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/alphafold/2.3.2 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/alphafold/2.3.2 new file mode 100644 index 00000000..f17a0467 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/alphafold/2.3.2 @@ -0,0 +1,116 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:55.584037 +## +## py-alphafold@2.3.2%gcc@13.2.0~cuda build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/n72znl5 +## + + +module-whatis {AlphaFold is an AI system developed by DeepMind that predicts a protein's 3D structure from its amino acid sequence. It regularly achieves accuracy competitive with experiment.} + +proc ModulesHelp { } { + puts stderr {Name : py-alphafold} + puts stderr {Version: 2.3.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {AlphaFold is an AI system developed by DeepMind that predicts a} + puts stderr {protein's 3D structure from its amino acid sequence. It regularly} + puts stderr {achieves accuracy competitive with experiment.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load aria2/1.37.0 + module load hh-suite/3.3.0 + module load hmmer/3.4 + module load kalign/3.4.0 + module load openmm/7.5.1-33qcxte + module load py-absl-py/1.4.0-ojr3fkl + module load py-biopython/1.81-agjkphq + module load py-chex/0.1.86-vkb7ywd + module load py-dm-haiku/0.0.10-yadpk4i + module load py-dm-tree/0.1.8-dvzcwcl + module load py-docker/6.0.1-lxf5ruf + module load py-immutabledict/2.2.1-ztqbrjz + module load py-jax/0.4.30-5beunl7 + module load py-ml-collections/0.1.1-7gtj4tf + module load py-numpy/1.25.2-2wshlgs + module load py-pandas/2.2.3-6rnszw5 + module load py-pdbfixer/1.7-lf4k4ky + module load py-protobuf/4.25.3-b4ekuzd + module load py-scipy/1.14.1-3aemdsc + module load py-tensorflow/2.17.1-y6tqwnx + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on aria2/1.37.0 + depends-on hh-suite/3.3.0 + depends-on hmmer/3.4 + depends-on kalign/3.4.0 + depends-on openmm/7.5.1-33qcxte + depends-on py-absl-py/1.4.0-ojr3fkl + depends-on py-biopython/1.81-agjkphq + depends-on py-chex/0.1.86-vkb7ywd + depends-on py-dm-haiku/0.0.10-yadpk4i + depends-on py-dm-tree/0.1.8-dvzcwcl + depends-on py-docker/6.0.1-lxf5ruf + depends-on py-immutabledict/2.2.1-ztqbrjz + depends-on py-jax/0.4.30-5beunl7 + depends-on py-ml-collections/0.1.1-7gtj4tf + depends-on py-numpy/1.25.2-2wshlgs + depends-on py-pandas/2.2.3-6rnszw5 + depends-on py-pdbfixer/1.7-lf4k4ky + depends-on py-protobuf/4.25.3-b4ekuzd + depends-on py-scipy/1.14.1-3aemdsc + depends-on py-tensorflow/2.17.1-y6tqwnx + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-alphafold + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/.} +setenv OPENMM_CUDA_COMPILER {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-12.6.2/bin/nvcc} +setenv CUDA_HOST_COMPILER {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-13.2.0/bin/g++} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/lib/python3.11/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/bin} +setenv PY_ALPHAFOLD_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-alphafold-2.3.2-n72znl5nqq7zv3zdx36kkgrook3as6xi} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/amdfftw/4.2 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/amdfftw/4.2 new file mode 100644 index 00000000..373b0538 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/amdfftw/4.2 @@ -0,0 +1,82 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:20.956347 +## +## amdfftw@4.2%gcc@13.2.0~amd-app-opt+amd-dynamic-dispatcher~amd-fast-planner~amd-mpi-vader-limit~debug~mpi+openmp+shared~static~threads build_system=autotools precision=double,float arch=linux-ubuntu22.04-x86_64_v3/elea3m7 +## + + +module-whatis {FFTW (AMD Optimized version) is a comprehensive collection of fast C routines for computing the Discrete Fourier Transform (DFT) and various special cases thereof.} + +proc ModulesHelp { } { + puts stderr {Name : amdfftw} + puts stderr {Version: 4.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {FFTW (AMD Optimized version) is a comprehensive collection of fast C} + puts stderr {routines for computing the Discrete Fourier Transform (DFT) and various} + puts stderr {special cases thereof. It is an open-source implementation of the Fast} + puts stderr {Fourier transform algorithm. It can compute transforms of real and} + puts stderr {complex-values arrays of arbitrary size and dimension. AMD Optimized} + puts stderr {FFTW is the optimized FFTW implementation targeted for AMD CPUs. For} + puts stderr {single precision build, please use precision value as float. Example :} + puts stderr {spack install amdfftw precision=float LICENSING INFORMATION: By} + puts stderr {downloading, installing and using this software, you agree to the terms} + puts stderr {and conditions of the AMD AOCL-FFTW license agreement. You may obtain a} + puts stderr {copy of this license agreement from} + puts stderr {https://www.amd.com/en/developer/aocl/fftw/eula/fftw-} + puts stderr {libraries-4-2-eula.html} + puts stderr {https://www.amd.com/en/developer/aocl/fftw/eula/fftw-libraries-eula.html} +} + +conflict amdfftw + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/amdfftw-4.2/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/amdfftw-4.2/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/amdfftw-4.2/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/amdfftw-4.2/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/amdfftw-4.2/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/amdfftw-4.2/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/amdfftw-4.2/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/amdfftw-4.2/.} +setenv AMDFFTW_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/amdfftw-4.2-elea3m7oq77xqccs5mi77yej4q3u5ht2} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/angsd/0.935 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/angsd/0.935 new file mode 100644 index 00000000..22efed81 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/angsd/0.935 @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:21.721095 +## +## angsd@0.935%gcc@13.2.0+r build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/3ekarcn +## + + +module-whatis {Angsd is a program for analysing NGS data.} + +proc ModulesHelp { } { + puts stderr {Name : angsd} + puts stderr {Version: 0.935} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Angsd is a program for analysing NGS data. The software can handle a} + puts stderr {number of different input types from mapped reads to imputed genotype} + puts stderr {probabilities. Most methods take genotype uncertainty into account} + puts stderr {instead of basing the analysis on called genotypes. This is especially} + puts stderr {useful for low and medium depth data.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load r/4.4.1-gwsuul6 +} else { + depends-on r/4.4.1-gwsuul6 +} +conflict angsd + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/angsd-0.935/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/angsd-0.935/.} +setenv R_HOME {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/r-4.4.1/rlib/R} +setenv R_LIBS {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/angsd-0.935/R} +setenv ANGSD_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/angsd-0.935-3ekarcnk5adcqj4bmyur2kz5cedcpod6} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ant/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ant/.modulerc new file mode 100644 index 00000000..def000a9 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ant/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded ant/1.10.14-34dgxlt diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ant/1.10.14-34dgxlt b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ant/1.10.14-34dgxlt new file mode 100644 index 00000000..c72fe18d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ant/1.10.14-34dgxlt @@ -0,0 +1,65 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:22.059906 +## +## ant@1.10.14%gcc@11.4.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/34dgxlt +## + + +module-whatis {Apache Ant is a Java library and command-line tool whose mission is to drive processes described in build files as targets and extension points dependent upon each other } + +proc ModulesHelp { } { + puts stderr {Name : ant} + puts stderr {Version: 1.10.14} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Apache Ant is a Java library and command-line tool whose mission is to} + puts stderr {drive processes described in build files as targets and extension points} + puts stderr {dependent upon each other} +} + +conflict ant + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ant-1.10.14-34dgxltghhd5g4fu7ulwzjmukhja4ec7/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ant-1.10.14-34dgxltghhd5g4fu7ulwzjmukhja4ec7/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ant-1.10.14-34dgxltghhd5g4fu7ulwzjmukhja4ec7/.} +setenv ANT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ant-1.10.14-34dgxltghhd5g4fu7ulwzjmukhja4ec7} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/antlr/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/antlr/.modulerc new file mode 100644 index 00000000..d7c9e445 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/antlr/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded antlr/2.7.7-ci2zx5z diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/antlr/2.7.7-ci2zx5z b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/antlr/2.7.7-ci2zx5z new file mode 100644 index 00000000..51cafb04 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/antlr/2.7.7-ci2zx5z @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:22.121930 +## +## antlr@2.7.7%gcc@13.2.0+cxx~java~pic~python build_system=autotools patches=33897ad arch=linux-ubuntu22.04-x86_64_v3/ci2zx5z +## +## Configure options: --disable-csharp --enable-cxx --disable-java --disable-python +## + + +module-whatis {ANTLR (ANother Tool for Language Recognition) is a powerful parser generator for reading, processing, executing, or translating structured text or binary files. It's widely used to build languages, tools, and frameworks. From a grammar, ANTLR generates a parser that can build and walk parse trees.} + +proc ModulesHelp { } { + puts stderr {Name : antlr} + puts stderr {Version: 2.7.7} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {ANTLR (ANother Tool for Language Recognition) is a powerful parser} + puts stderr {generator for reading, processing, executing, or translating structured} + puts stderr {text or binary files. It's widely used to build languages, tools, and} + puts stderr {frameworks. From a grammar, ANTLR generates a parser that can build and} + puts stderr {walk parse trees.} +} + +conflict antlr + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/antlr-2.7.7-ci2zx5zh2wd6vdwadsjdxtc6menjbora/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/antlr-2.7.7-ci2zx5zh2wd6vdwadsjdxtc6menjbora/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/antlr-2.7.7-ci2zx5zh2wd6vdwadsjdxtc6menjbora/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/antlr-2.7.7-ci2zx5zh2wd6vdwadsjdxtc6menjbora/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/antlr-2.7.7-ci2zx5zh2wd6vdwadsjdxtc6menjbora/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/antlr-2.7.7-ci2zx5zh2wd6vdwadsjdxtc6menjbora/.} +setenv ANTLR_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/antlr-2.7.7-ci2zx5zh2wd6vdwadsjdxtc6menjbora} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/aocc/3.2.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/aocc/3.2.0 new file mode 100644 index 00000000..765f849f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/aocc/3.2.0 @@ -0,0 +1,83 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:22.214438 +## +## aocc@3.2.0%gcc@11.4.0+license-agreed build_system=generic arch=linux-ubuntu22.04-x86_64_v3/7ld2kif +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis { The AOCC compiler system is a high performance, production quality code generation tool. The AOCC environment provides various options to developers when building and optimizing C, C++, and Fortran applications targeting 32-bit and 64-bit Linux platforms. The AOCC compiler system offers a high level of advanced optimizations, multi-threading and processor support that includes global optimization, vectorization, inter-procedural analyses, loop transformations, and code generation. AMD also provides highly optimized libraries, which extract the optimal performance from each x86 processor core when utilized. The AOCC Compiler Suite simplifies and accelerates development and tuning for x86 applications.} + +proc ModulesHelp { } { + puts stderr {Name : aocc} + puts stderr {Version: 3.2.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr { The AOCC compiler system is a high performance, production quality code} + puts stderr {generation tool. The AOCC environment provides various options to} + puts stderr {developers when building and optimizing C, C++, and Fortran applications} + puts stderr {targeting 32-bit and 64-bit Linux platforms. The AOCC compiler system} + puts stderr {offers a high level of advanced optimizations, multi-threading and} + puts stderr {processor support that includes global optimization, vectorization,} + puts stderr {inter-procedural analyses, loop transformations, and code generation.} + puts stderr {AMD also provides highly optimized libraries, which extract the optimal} + puts stderr {performance from each x86 processor core when utilized. The AOCC} + puts stderr {Compiler Suite simplifies and accelerates development and tuning for x86} + puts stderr {applications. Installation requires acceptance of the EULA by setting} + puts stderr {the +license-agreed variant. https://www.amd.com/en/developer/aocc/aocc-} + puts stderr {compiler/eula.html Example for installation: 'spack install aocc} + puts stderr {+license-agreed'} +} + +conflict aocc + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/aocc-3.2.0/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/aocc-3.2.0/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/aocc-3.2.0/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/aocc-3.2.0/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/aocc-3.2.0/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/aocc-3.2.0/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/aocc-3.2.0/.} +setenv AOCC_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/aocc-3.2.0} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/aocc/4.2.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/aocc/4.2.0 new file mode 100644 index 00000000..e3062077 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/aocc/4.2.0 @@ -0,0 +1,83 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:22.233963 +## +## aocc@4.2.0%gcc@11.4.0+license-agreed build_system=generic arch=linux-ubuntu22.04-x86_64_v3/gir5tc4 +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis { The AOCC compiler system is a high performance, production quality code generation tool. The AOCC environment provides various options to developers when building and optimizing C, C++, and Fortran applications targeting 32-bit and 64-bit Linux platforms. The AOCC compiler system offers a high level of advanced optimizations, multi-threading and processor support that includes global optimization, vectorization, inter-procedural analyses, loop transformations, and code generation. AMD also provides highly optimized libraries, which extract the optimal performance from each x86 processor core when utilized. The AOCC Compiler Suite simplifies and accelerates development and tuning for x86 applications.} + +proc ModulesHelp { } { + puts stderr {Name : aocc} + puts stderr {Version: 4.2.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr { The AOCC compiler system is a high performance, production quality code} + puts stderr {generation tool. The AOCC environment provides various options to} + puts stderr {developers when building and optimizing C, C++, and Fortran applications} + puts stderr {targeting 32-bit and 64-bit Linux platforms. The AOCC compiler system} + puts stderr {offers a high level of advanced optimizations, multi-threading and} + puts stderr {processor support that includes global optimization, vectorization,} + puts stderr {inter-procedural analyses, loop transformations, and code generation.} + puts stderr {AMD also provides highly optimized libraries, which extract the optimal} + puts stderr {performance from each x86 processor core when utilized. The AOCC} + puts stderr {Compiler Suite simplifies and accelerates development and tuning for x86} + puts stderr {applications. Installation requires acceptance of the EULA by setting} + puts stderr {the +license-agreed variant. https://www.amd.com/en/developer/aocc/aocc-} + puts stderr {compiler/eula.html Example for installation: 'spack install aocc} + puts stderr {+license-agreed'} +} + +conflict aocc + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/aocc-4.2.0/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/aocc-4.2.0/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/aocc-4.2.0/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/aocc-4.2.0/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/aocc-4.2.0/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/aocc-4.2.0/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/aocc-4.2.0/.} +setenv AOCC_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/aocc-4.2.0} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/apptainer/1.3.4 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/apptainer/1.3.4 new file mode 100644 index 00000000..f3363bae --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/apptainer/1.3.4 @@ -0,0 +1,86 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:22.398412 +## +## apptainer@1.3.4%gcc@13.2.0+network~suid build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/s24a6rp +## + + +module-whatis {Apptainer is an open source container platform designed to be simple, fast, and secure. Many container platforms are available, but Apptainer is designed for ease-of-use on shared systems and in high performance computing (HPC) environments.} + +proc ModulesHelp { } { + puts stderr {Name : apptainer} + puts stderr {Version: 1.3.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Apptainer is an open source container platform designed to be simple,} + puts stderr {fast, and secure. Many container platforms are available, but Apptainer} + puts stderr {is designed for ease-of-use on shared systems and in high performance} + puts stderr {computing (HPC) environments. Needs post-install chmod/chown steps to} + puts stderr {enable full functionality. See package definition or `spack-build-} + puts stderr {out.txt` build log for details, e.g.: tail -15 $(spack location -i} + puts stderr {apptainer)/.spack/spack-build-out.txt} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load conmon/2.1.12-ozk6xfz + module load e2fsprogs/1.47.1-u2z2ayx + module load fuse-overlayfs/1.13-wuljqqn + module load gocryptfs/2.4.0-gqsyoz7 + module load squashfs/4.6.1 + module load squashfuse/0.5.2 +} else { + depends-on conmon/2.1.12-ozk6xfz + depends-on e2fsprogs/1.47.1-u2z2ayx + depends-on fuse-overlayfs/1.13-wuljqqn + depends-on gocryptfs/2.4.0-gqsyoz7 + depends-on squashfs/4.6.1 + depends-on squashfuse/0.5.2 +} +conflict apptainer + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/apptainer-1.3.4/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/apptainer-1.3.4/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/apptainer-1.3.4/.} +prepend-path GOPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/apptainer-1.3.4} +setenv APPTAINER_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/apptainer-1.3.4-s24a6rprwbqcmpzfkrvdflztctmqatev} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/aragorn/1.2.41 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/aragorn/1.2.41 new file mode 100644 index 00000000..702b4c54 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/aragorn/1.2.41 @@ -0,0 +1,63 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:22.955714 +## +## aragorn@1.2.41%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/532apet +## + + +module-whatis {ARAGORN, a program to detect tRNA genes and tmRNA genes in nucleotide sequences.} + +proc ModulesHelp { } { + puts stderr {Name : aragorn} + puts stderr {Version: 1.2.41} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {ARAGORN, a program to detect tRNA genes and tmRNA genes in nucleotide} + puts stderr {sequences.} +} + +conflict aragorn + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/aragorn-1.2.41/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/aragorn-1.2.41/.} +setenv ARAGORN_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/aragorn-1.2.41-532apetgokrpqcklxcsilbhuvy6ntile} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/argtable/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/argtable/.modulerc new file mode 100644 index 00000000..743f7751 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/argtable/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded argtable/2-13-jftfhte diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/argtable/2-13-jftfhte b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/argtable/2-13-jftfhte new file mode 100644 index 00000000..ddb2de4d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/argtable/2-13-jftfhte @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:22.978957 +## +## argtable@2-13%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/jftfhte +## + + +module-whatis {Argtable is an ANSI C library for parsing GNU style command line options with a minimum of fuss. } + +proc ModulesHelp { } { + puts stderr {Name : argtable} + puts stderr {Version: 2-13} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Argtable is an ANSI C library for parsing GNU style command line options} + puts stderr {with a minimum of fuss.} +} + +conflict argtable + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/argtable-2-13-jftfhtemkcmlrpj35wjl4gobnw5lbame/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/argtable-2-13-jftfhtemkcmlrpj35wjl4gobnw5lbame/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/argtable-2-13-jftfhtemkcmlrpj35wjl4gobnw5lbame/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/argtable-2-13-jftfhtemkcmlrpj35wjl4gobnw5lbame/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/argtable-2-13-jftfhtemkcmlrpj35wjl4gobnw5lbame/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/argtable-2-13-jftfhtemkcmlrpj35wjl4gobnw5lbame/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/argtable-2-13-jftfhtemkcmlrpj35wjl4gobnw5lbame/.} +setenv ARGTABLE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/argtable-2-13-jftfhtemkcmlrpj35wjl4gobnw5lbame} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/aria2/1.37.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/aria2/1.37.0 new file mode 100644 index 00000000..0beabb67 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/aria2/1.37.0 @@ -0,0 +1,64 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:23.000996 +## +## aria2@1.37.0%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/5d65ry3 +## + + +module-whatis {An ultra fast download utility} + +proc ModulesHelp { } { + puts stderr {Name : aria2} + puts stderr {Version: 1.37.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {An ultra fast download utility} +} + +conflict aria2 + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/aria2-1.37.0/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/aria2-1.37.0/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/aria2-1.37.0/.} +setenv ARIA2_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/aria2-1.37.0-5d65ry3ox3cblbazqnxxztl7ef6o4yfx} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/aspera-cli/3.7.7 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/aspera-cli/3.7.7 new file mode 100644 index 00000000..38867df9 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/aspera-cli/3.7.7 @@ -0,0 +1,62 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:23.099615 +## +## aspera-cli@3.7.7%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/perm6do +## + + +module-whatis {The Aspera CLI client for the Fast and Secure Protocol (FASP).} + +proc ModulesHelp { } { + puts stderr {Name : aspera-cli} + puts stderr {Version: 3.7.7} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The Aspera CLI client for the Fast and Secure Protocol (FASP).} +} + +conflict aspera-cli + +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/aspera-cli-3.7.7/.} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/aspera-cli-3.7.7/cli/bin} +setenv ASPERA_CLI_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/aspera-cli-3.7.7-perm6dof7wznzlcjourne3zqdckurmci} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/awscli-v2/2.15.53 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/awscli-v2/2.15.53 new file mode 100644 index 00000000..82da415c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/awscli-v2/2.15.53 @@ -0,0 +1,95 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:24.257213 +## +## awscli-v2@2.15.53%gcc@13.2.0+examples build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/h4k3acd +## + + +module-whatis {This package provides a unified command line interface to Amazon Web Services.} + +proc ModulesHelp { } { + puts stderr {Name : awscli-v2} + puts stderr {Version: 2.15.53} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {This package provides a unified command line interface to Amazon Web} + puts stderr {Services.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-awscrt/0.19.19-e5k6pl5 + module load py-colorama/0.4.6-jwgijtj + module load py-cryptography/43.0.3-bvkm3yk + module load py-distro/1.8.0-4i72hrr + module load py-docutils/0.19-n5n7m3v + module load py-flit-core/3.8.0-7voksar + module load py-jmespath/1.0.1-odmh3ja + module load py-prompt-toolkit/3.0.38-wakgqao + module load py-python-dateutil/2.8.2-2mjz45z + module load py-ruamel-yaml/0.17.16-5gas6rx + module load py-urllib3/1.26.20-xzn4wsh + module load python/3.11.9-itykk2n + module load python-venv/1.0-okrhcwx +} else { + depends-on py-awscrt/0.19.19-e5k6pl5 + depends-on py-colorama/0.4.6-jwgijtj + depends-on py-cryptography/43.0.3-bvkm3yk + depends-on py-distro/1.8.0-4i72hrr + depends-on py-docutils/0.19-n5n7m3v + depends-on py-flit-core/3.8.0-7voksar + depends-on py-jmespath/1.0.1-odmh3ja + depends-on py-prompt-toolkit/3.0.38-wakgqao + depends-on py-python-dateutil/2.8.2-2mjz45z + depends-on py-ruamel-yaml/0.17.16-5gas6rx + depends-on py-urllib3/1.26.20-xzn4wsh + depends-on python/3.11.9-itykk2n + depends-on python-venv/1.0-okrhcwx +} +conflict awscli-v2 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/lib/python3.11/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/bin} +setenv AWSCLI_V2_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/awscli-v2-2.15.53-h4k3acddabslvpfprn5xj6gadxhsr3gw} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/awscli/1.29.41 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/awscli/1.29.41 new file mode 100644 index 00000000..e8baea4d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/awscli/1.29.41 @@ -0,0 +1,85 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:23.124555 +## +## awscli@1.29.41%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/tno7jb5 +## + + +module-whatis {This package provides a unified command line interface to Amazon Web Services} + +proc ModulesHelp { } { + puts stderr {Name : awscli} + puts stderr {Version: 1.29.41} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {This package provides a unified command line interface to Amazon Web} + puts stderr {Services} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-botocore/1.31.41-fk2gdrm + module load py-colorama/0.4.4-7tbuwqr + module load py-docutils/0.16-jtimvy7 + module load py-pyyaml/5.4.1-6wupxf2 + module load py-rsa/4.7.2-c6c2ul6 + module load py-s3transfer/0.6.2-xozmlox + module load python/3.13.0-xf4zxxe + module load python-venv/1.0-6mlwnfu +} else { + depends-on py-botocore/1.31.41-fk2gdrm + depends-on py-colorama/0.4.4-7tbuwqr + depends-on py-docutils/0.16-jtimvy7 + depends-on py-pyyaml/5.4.1-6wupxf2 + depends-on py-rsa/4.7.2-c6c2ul6 + depends-on py-s3transfer/0.6.2-xozmlox + depends-on python/3.13.0-xf4zxxe + depends-on python-venv/1.0-6mlwnfu +} +conflict awscli + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.13.0/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.13.0/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.13.0/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.13.0/lib/python3.13/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.13.0/bin} +setenv AWSCLI_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/awscli-1.29.41-tno7jb5zn4gfwxpuwbhaixfoun5ifbks} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bamtools/2.5.2 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bamtools/2.5.2 new file mode 100644 index 00000000..bca57e1d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bamtools/2.5.2 @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:25.493021 +## +## bamtools@2.5.2%gcc@13.2.0~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/4gc66hm +## +## Configure options: -DCMAKE_INSTALL_RPATH=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/bamtools-2.5.2-4gc66hmcp6n4egqrln54qsszjztufkja/lib:/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/bamtools-2.5.2-4gc66hmcp6n4egqrln54qsszjztufkja/lib64:/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gcc-runtime-13.2.0-y4ja4trdxkpuyidxmq3vwsmylih2czjs/lib:/usr/lib:/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/jsoncpp-1.9.5-v27kygooo7a4etlvabd7u5tvp6xn5uy6/lib:/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zlib-ng-2.2.1-ci2x2tjfpbdihazwtuwsat2anrc47e6u/lib:/usr/lib64:/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/bamtools-2.5.2-4gc66hmcp6n4egqrln54qsszjztufkja/lib/bamtools +## + + +module-whatis {C++ API & command-line toolkit for working with BAM data.} + +proc ModulesHelp { } { + puts stderr {Name : bamtools} + puts stderr {Version: 2.5.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {C++ API & command-line toolkit for working with BAM data.} +} + +conflict bamtools + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/bamtools-2.5.2/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/bamtools-2.5.2/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/bamtools-2.5.2/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/bamtools-2.5.2/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/bamtools-2.5.2/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/bamtools-2.5.2/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/bamtools-2.5.2/.} +setenv BAMTOOLS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/bamtools-2.5.2-4gc66hmcp6n4egqrln54qsszjztufkja} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bayenv2/2.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bayenv2/2.0 new file mode 100644 index 00000000..c9379332 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bayenv2/2.0 @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:25.536132 +## +## bayenv2@2.0%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/afdzpy5 +## + + +module-whatis {Loci involved in local adaptation can potentially be identified by an unusual correlation between allele frequencies and important ecological variables, or by extreme allele frequency differences between geographic regions. However, such comparisons are complicated by differences in sample sizes and the neutral correlation of allele frequencies across populations due to shared history and gene flow. To overcome these difficulties, we have developed a Bayesian method that estimates the empirical pattern of covariance in allele frequencies between populations from a set of markers, and then uses this as a null model for a test at individual SNPs. Graham developed this method in collaboration with David Witonsky, Anna Di Rienzo and Jonathan Pritchard.} + +proc ModulesHelp { } { + puts stderr {Name : bayenv2} + puts stderr {Version: 2.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Loci involved in local adaptation can potentially be identified by an} + puts stderr {unusual correlation between allele frequencies and important ecological} + puts stderr {variables, or by extreme allele frequency differences between geographic} + puts stderr {regions. However, such comparisons are complicated by differences in} + puts stderr {sample sizes and the neutral correlation of allele frequencies across} + puts stderr {populations due to shared history and gene flow. To overcome these} + puts stderr {difficulties, we have developed a Bayesian method that estimates the} + puts stderr {empirical pattern of covariance in allele frequencies between} + puts stderr {populations from a set of markers, and then uses this as a null model} + puts stderr {for a test at individual SNPs. Graham developed this method in} + puts stderr {collaboration with David Witonsky, Anna Di Rienzo and Jonathan} + puts stderr {Pritchard.} +} + +conflict bayenv2 + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/bayenv2-2.0/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/bayenv2-2.0/.} +setenv BAYENV2_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/bayenv2-2.0-afdzpy52ra7thh7yz6uddvpn5neokq4l} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bbmap/39.01 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bbmap/39.01 new file mode 100644 index 00000000..e4417270 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bbmap/39.01 @@ -0,0 +1,64 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:25.558096 +## +## bbmap@39.01%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/oaz45j7 +## + + +module-whatis {Short read aligner for DNA and RNA-seq data.} + +proc ModulesHelp { } { + puts stderr {Name : bbmap} + puts stderr {Version: 39.01} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Short read aligner for DNA and RNA-seq data.} +} + +conflict bbmap + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/bbmap-39.01/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/bbmap-39.01/.} +setenv BBMAP_CONFIG {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/bbmap-39.01/bin/config} +setenv BBMAP_RESOURCES {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/bbmap-39.01/bin/resources} +setenv BBMAP_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/bbmap-39.01-oaz45j7wootzexrkrmalzjvtsd5q4rbk} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bc/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bc/.modulerc new file mode 100644 index 00000000..9b3c31f3 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bc/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded bc/1.07.1-gwis562 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bc/1.07.1-gwis562 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bc/1.07.1-gwis562 new file mode 100644 index 00000000..3a0aafb9 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bc/1.07.1-gwis562 @@ -0,0 +1,66 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:25.581013 +## +## bc@1.07.1%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/gwis562 +## + + +module-whatis {bc is an arbitrary precision numeric processing language. Syntax is similar to C, but differs in many substantial areas. It supports interactive execution of statements.} + +proc ModulesHelp { } { + puts stderr {Name : bc} + puts stderr {Version: 1.07.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {bc is an arbitrary precision numeric processing language. Syntax is} + puts stderr {similar to C, but differs in many substantial areas. It supports} + puts stderr {interactive execution of statements.} +} + +conflict bc + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/bc-1.07.1-gwis5626uxxfo5ge7wvxga2btcodciff/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/bc-1.07.1-gwis5626uxxfo5ge7wvxga2btcodciff/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/bc-1.07.1-gwis5626uxxfo5ge7wvxga2btcodciff/.} +setenv BC_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/bc-1.07.1-gwis5626uxxfo5ge7wvxga2btcodciff} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bcftools/1.19 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bcftools/1.19 new file mode 100644 index 00000000..bd215c96 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bcftools/1.19 @@ -0,0 +1,78 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:25.607165 +## +## bcftools@1.19%gcc@13.2.0+libgsl+perl-filters build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/muqs2pa +## +## Configure options: --with-htslib=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/htslib-1.19.1-g2e7lvynxeg3f7pbpavninxlb6nvnlhh --enable-libgsl --enable-perl-filters +## + + +module-whatis {BCFtools is a set of utilities that manipulate variant calls in the Variant Call Format (VCF) and its binary counterpart BCF. All commands work transparently with both VCFs and BCFs, both uncompressed and BGZF-compressed.} + +proc ModulesHelp { } { + puts stderr {Name : bcftools} + puts stderr {Version: 1.19} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {BCFtools is a set of utilities that manipulate variant calls in the} + puts stderr {Variant Call Format (VCF) and its binary counterpart BCF. All commands} + puts stderr {work transparently with both VCFs and BCFs, both uncompressed and BGZF-} + puts stderr {compressed.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load py-gffutils/0.10.1-y65zfcx + module load py-matplotlib/3.9.2-bsuux3u +} else { + depends-on perl/5.40.0-lzbctij + depends-on py-gffutils/0.10.1-y65zfcx + depends-on py-matplotlib/3.9.2-bsuux3u +} +conflict bcftools + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/bcftools-1.19/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/bcftools-1.19/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/bcftools-1.19/.} +setenv BCFTOOLS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/bcftools-1.19-muqs2pa3j5meb2e4f4cwik7la7ftw4ez} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/beagle/5.4 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/beagle/5.4 new file mode 100644 index 00000000..fdd82edc --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/beagle/5.4 @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:27.100489 +## +## beagle@5.4%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/yg3rbs3 +## + + +module-whatis {Beagle is a software package for phasing genotypes and for imputing ungenotyped markers.} + +proc ModulesHelp { } { + puts stderr {Name : beagle} + puts stderr {Version: 5.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Beagle is a software package for phasing genotypes and for imputing} + puts stderr {ungenotyped markers.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load openjdk/17.0.11_9 +} else { + depends-on openjdk/17.0.11_9 +} +conflict beagle + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/beagle-5.4/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/beagle-5.4/.} +setenv BEAGLE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/beagle-5.4-yg3rbs3myqol3jci2ngkdixgkqhc6ne6} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bedops/2.4.41 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bedops/2.4.41 new file mode 100644 index 00000000..52849ed2 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bedops/2.4.41 @@ -0,0 +1,65 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:27.124707 +## +## bedops@2.4.41%gcc@13.2.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/re3qa73 +## + + +module-whatis {BEDOPS is an open-source command-line toolkit that performs highly efficient and scalable Boolean and other set operations, statistical calculations, archiving, conversion and other management of genomic data of arbitrary scale.} + +proc ModulesHelp { } { + puts stderr {Name : bedops} + puts stderr {Version: 2.4.41} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {BEDOPS is an open-source command-line toolkit that performs highly} + puts stderr {efficient and scalable Boolean and other set operations, statistical} + puts stderr {calculations, archiving, conversion and other management of genomic data} + puts stderr {of arbitrary scale.} +} + +conflict bedops + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/bedops-2.4.41/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/bedops-2.4.41/.} +setenv BEDOPS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/bedops-2.4.41-re3qa73rwvdqvhd7igveiau5mdf6ckot} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bedtools2/2.31.1 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bedtools2/2.31.1 new file mode 100644 index 00000000..04658dc1 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bedtools2/2.31.1 @@ -0,0 +1,64 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:27.147116 +## +## bedtools2@2.31.1%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/2jx7bka +## + + +module-whatis {Collectively, the bedtools utilities are a swiss-army knife of tools for a wide-range of genomics analysis tasks. The most widely-used tools enable genome arithmetic: that is, set theory on the genome.} + +proc ModulesHelp { } { + puts stderr {Name : bedtools2} + puts stderr {Version: 2.31.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Collectively, the bedtools utilities are a swiss-army knife of tools for} + puts stderr {a wide-range of genomics analysis tasks. The most widely-used tools} + puts stderr {enable genome arithmetic: that is, set theory on the genome.} +} + +conflict bedtools2 + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/bedtools2-2.31.1/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/bedtools2-2.31.1/.} +setenv BEDTOOLS2_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/bedtools2-2.31.1-2jx7bkaxqxbw6pxwzramt4jmnovncqcw} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/berkeley-db/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/berkeley-db/.modulerc new file mode 100644 index 00000000..9d502b04 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/berkeley-db/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded berkeley-db/18.1.40-br27jq6 +module-hide --soft --hidden-loaded berkeley-db/18.1.40-jnmy675 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/berkeley-db/18.1.40-br27jq6 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/berkeley-db/18.1.40-br27jq6 new file mode 100644 index 00000000..e1c73793 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/berkeley-db/18.1.40-br27jq6 @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:27.173275 +## +## berkeley-db@18.1.40%gcc@11.4.0+cxx~docs+stl build_system=autotools patches=26090f4,b231fcc arch=linux-ubuntu22.04-x86_64_v3/br27jq6 +## +## Configure options: --disable-static --enable-dbm --enable-compat185 --with-repmgr-ssl=no --enable-cxx --enable-stl +## + + +module-whatis {Oracle Berkeley DB} + +proc ModulesHelp { } { + puts stderr {Name : berkeley-db} + puts stderr {Version: 18.1.40} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Oracle Berkeley DB} +} + +conflict berkeley-db + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/berkeley-db-18.1.40-br27jq6mkoumsbtdldgzcm3lw5zqjvel/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/berkeley-db-18.1.40-br27jq6mkoumsbtdldgzcm3lw5zqjvel/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/berkeley-db-18.1.40-br27jq6mkoumsbtdldgzcm3lw5zqjvel/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/berkeley-db-18.1.40-br27jq6mkoumsbtdldgzcm3lw5zqjvel/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/berkeley-db-18.1.40-br27jq6mkoumsbtdldgzcm3lw5zqjvel/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/berkeley-db-18.1.40-br27jq6mkoumsbtdldgzcm3lw5zqjvel/.} +setenv BERKELEY_DB_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/berkeley-db-18.1.40-br27jq6mkoumsbtdldgzcm3lw5zqjvel} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/berkeley-db/18.1.40-jnmy675 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/berkeley-db/18.1.40-jnmy675 new file mode 100644 index 00000000..52597a2a --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/berkeley-db/18.1.40-jnmy675 @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:27.206755 +## +## berkeley-db@18.1.40%gcc@13.2.0+cxx~docs+stl build_system=autotools patches=26090f4,b231fcc arch=linux-ubuntu22.04-x86_64_v3/jnmy675 +## +## Configure options: --disable-static --enable-dbm --enable-compat185 --with-repmgr-ssl=no --enable-cxx --enable-stl +## + + +module-whatis {Oracle Berkeley DB} + +proc ModulesHelp { } { + puts stderr {Name : berkeley-db} + puts stderr {Version: 18.1.40} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Oracle Berkeley DB} +} + +conflict berkeley-db + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/berkeley-db-18.1.40-jnmy675w4t75ydcekpjqy4m2j6ml4yj3/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/berkeley-db-18.1.40-jnmy675w4t75ydcekpjqy4m2j6ml4yj3/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/berkeley-db-18.1.40-jnmy675w4t75ydcekpjqy4m2j6ml4yj3/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/berkeley-db-18.1.40-jnmy675w4t75ydcekpjqy4m2j6ml4yj3/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/berkeley-db-18.1.40-jnmy675w4t75ydcekpjqy4m2j6ml4yj3/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/berkeley-db-18.1.40-jnmy675w4t75ydcekpjqy4m2j6ml4yj3/.} +setenv BERKELEY_DB_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/berkeley-db-18.1.40-jnmy675w4t75ydcekpjqy4m2j6ml4yj3} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bison/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bison/.modulerc new file mode 100644 index 00000000..b6a300a9 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bison/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded bison/3.8.2-qq47dly diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bison/3.8.2-qq47dly b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bison/3.8.2-qq47dly new file mode 100644 index 00000000..814ac29e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bison/3.8.2-qq47dly @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:27.233848 +## +## bison@3.8.2%gcc@13.2.0~color build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/qq47dly +## + + +module-whatis {Bison is a general-purpose parser generator that converts an annotated context-free grammar into a deterministic LR or generalized LR (GLR) parser employing LALR(1) parser tables.} + +proc ModulesHelp { } { + puts stderr {Name : bison} + puts stderr {Version: 3.8.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Bison is a general-purpose parser generator that converts an annotated} + puts stderr {context-free grammar into a deterministic LR or generalized LR (GLR)} + puts stderr {parser employing LALR(1) parser tables.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load m4/1.4.19 +} else { + depends-on m4/1.4.19 +} +conflict bison + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/bison-3.8.2-qq47dlyjx2dgepvowjrgurad57rv2mhw/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/bison-3.8.2-qq47dlyjx2dgepvowjrgurad57rv2mhw/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/bison-3.8.2-qq47dlyjx2dgepvowjrgurad57rv2mhw/share/man} +prepend-path ACLOCAL_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/bison-3.8.2-qq47dlyjx2dgepvowjrgurad57rv2mhw/share/aclocal} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/bison-3.8.2-qq47dlyjx2dgepvowjrgurad57rv2mhw/.} +setenv BISON_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/bison-3.8.2-qq47dlyjx2dgepvowjrgurad57rv2mhw} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/blast-plus/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/blast-plus/.modulerc new file mode 100644 index 00000000..59339a96 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/blast-plus/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded blast-plus/2.16.0-qyzslfm diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/blast-plus/2.16.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/blast-plus/2.16.0 new file mode 100644 index 00000000..d12d3ae6 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/blast-plus/2.16.0 @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:27.482528 +## +## blast-plus@2.16.0%gcc@13.2.0+bzip2+freetype+gnutls+jpeg+lzo+openssl+pcre+perl+png+python~static+zlib build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/4zztw65 +## +## Configure options: --with-bin-release --without-debug --with-mt --without-boost --with-64 --with-dll --without-static --without-static-exe --with-jpeg=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libjpeg-turbo-3.0.4-ujtiqvv4sbyi2gvs3tqui6eqfwe4igbh --with-png=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libpng-1.6.39-6565ndyqqpaj6epbfx7wtvzg4qkgogmy --with-freetype=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/freetype-2.13.2-e262vgdg35uw63egahg2dzuqtha63o7r --without-hdf5 --with-z=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zlib-ng-2.2.1-ci2x2tjfpbdihazwtuwsat2anrc47e6u --with-bz2=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/bzip2-1.0.8-qknztbakgnayrsc4iql53yss5tv4yslr --with-lzo=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/lzo-2.10-xhchxsob2z3owhyj4p7ctkp5dlived7n --with-gnutls=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gnutls-3.8.3-a3hdtnuitsub4dtwgalqhqkb3upfrwxq --with-openssl=/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.4.0 --with-pcre=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pcre-8.45-rjj57dvowwsj4rkj7p6dmcht4vsmne4b --with-python=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.11.9-i64b36bczyoqks4r3uwbdvxfgg6xbt3n --with-perl=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-5.40.0-lzbctije7oh4wvh3uk67gnm57qxc26f6 +## + + +module-whatis {Basic Local Alignment Search Tool.} + +proc ModulesHelp { } { + puts stderr {Name : blast-plus} + puts stderr {Version: 2.16.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Basic Local Alignment Search Tool.} +} + +conflict blast-plus + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/blast-plus-2.16.0/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/blast-plus-2.16.0/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/blast-plus-2.16.0/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/blast-plus-2.16.0/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/blast-plus-2.16.0/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/blast-plus-2.16.0/.} +setenv BLAST_PLUS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/blast-plus-2.16.0-4zztw65u6y77xnkqupmnnwsqtp5nbxdz} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/blast-plus/2.16.0-qyzslfm b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/blast-plus/2.16.0-qyzslfm new file mode 100644 index 00000000..04f6e34d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/blast-plus/2.16.0-qyzslfm @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:27.286213 +## +## blast-plus@2.16.0%gcc@13.2.0+bzip2+freetype+gnutls+jpeg+lzo+openssl+pcre+perl+png+python~static+zlib build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/qyzslfm +## +## Configure options: --with-bin-release --without-debug --with-mt --without-boost --with-64 --with-dll --without-static --without-static-exe --with-jpeg=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libjpeg-turbo-3.0.4-izrqhj2nnhk66smfgabjp6j5ethclads --with-png=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libpng-1.6.39-6565ndyqqpaj6epbfx7wtvzg4qkgogmy --with-freetype=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/freetype-2.13.2-e262vgdg35uw63egahg2dzuqtha63o7r --without-hdf5 --with-z=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zlib-ng-2.2.1-ci2x2tjfpbdihazwtuwsat2anrc47e6u --with-bz2=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/bzip2-1.0.8-qknztbakgnayrsc4iql53yss5tv4yslr --with-lzo=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/lzo-2.10-xhchxsob2z3owhyj4p7ctkp5dlived7n --with-gnutls=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gnutls-3.8.3-7ys6gl5d6omkwt4vajtzdsezbuxm4xwv --with-openssl=/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-1.1.1w --with-pcre=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pcre-8.45-rjj57dvowwsj4rkj7p6dmcht4vsmne4b --with-python=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.11.9-wlce6b7jcdbqpur7mn77yzjb6nto2ami --with-perl=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-5.40.0-lzbctije7oh4wvh3uk67gnm57qxc26f6 +## + + +module-whatis {Basic Local Alignment Search Tool.} + +proc ModulesHelp { } { + puts stderr {Name : blast-plus} + puts stderr {Version: 2.16.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Basic Local Alignment Search Tool.} +} + +conflict blast-plus + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/blast-plus-2.16.0-qyzslfm25iqwy72eikjdml55jz7ap5ca/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/blast-plus-2.16.0-qyzslfm25iqwy72eikjdml55jz7ap5ca/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/blast-plus-2.16.0-qyzslfm25iqwy72eikjdml55jz7ap5ca/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/blast-plus-2.16.0-qyzslfm25iqwy72eikjdml55jz7ap5ca/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/blast-plus-2.16.0-qyzslfm25iqwy72eikjdml55jz7ap5ca/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/blast-plus-2.16.0-qyzslfm25iqwy72eikjdml55jz7ap5ca/.} +setenv BLAST_PLUS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/blast-plus-2.16.0-qyzslfm25iqwy72eikjdml55jz7ap5ca} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/blast2go/5.2.5 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/blast2go/5.2.5 new file mode 100644 index 00000000..95db57e7 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/blast2go/5.2.5 @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:27.585674 +## +## blast2go@5.2.5%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/qvqu65o +## + + +module-whatis {Blast2GO is a bioinformatics platform for high-quality functional annotation and analysis of genomic datasets.} + +proc ModulesHelp { } { + puts stderr {Name : blast2go} + puts stderr {Version: 5.2.5} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Blast2GO is a bioinformatics platform for high-quality functional} + puts stderr {annotation and analysis of genomic datasets.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load blast-plus/2.16.0 +} else { + depends-on blast-plus/2.16.0 +} +conflict blast2go + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/blast2go-5.2.5/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/blast2go-5.2.5/.} +setenv BLAST2GO_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/blast2go-5.2.5-qvqu65oe4kych6425igyo5b4btweo4xh} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/blat/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/blat/.modulerc new file mode 100644 index 00000000..e0aa22c8 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/blat/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded blat/35-k5n5lye diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/blat/35-k5n5lye b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/blat/35-k5n5lye new file mode 100644 index 00000000..9fbf5231 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/blat/35-k5n5lye @@ -0,0 +1,63 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:27.664837 +## +## blat@35%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/k5n5lye +## + + +module-whatis {BLAT (BLAST-like alignment tool) is a pairwise sequence alignment algorithm.} + +proc ModulesHelp { } { + puts stderr {Name : blat} + puts stderr {Version: 35} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {BLAT (BLAST-like alignment tool) is a pairwise sequence alignment} + puts stderr {algorithm.} +} + +conflict blat + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/blat-35-k5n5lye6wm2fk6nsalkovup3tbjgkkmt/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/blat-35-k5n5lye6wm2fk6nsalkovup3tbjgkkmt/.} +setenv BLAT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/blat-35-k5n5lye6wm2fk6nsalkovup3tbjgkkmt} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/blat/37 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/blat/37 new file mode 100644 index 00000000..b61d9829 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/blat/37 @@ -0,0 +1,63 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:27.686191 +## +## blat@37%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/v2mtp76 +## + + +module-whatis {BLAT (BLAST-like alignment tool) is a pairwise sequence alignment algorithm.} + +proc ModulesHelp { } { + puts stderr {Name : blat} + puts stderr {Version: 37} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {BLAT (BLAST-like alignment tool) is a pairwise sequence alignment} + puts stderr {algorithm.} +} + +conflict blat + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/blat-37/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/blat-37/.} +setenv BLAT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/blat-37-v2mtp767f65jyuzgjja5ogvo4tvomuat} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/boost/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/boost/.modulerc new file mode 100644 index 00000000..82ce54c6 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/boost/.modulerc @@ -0,0 +1,10 @@ +#%Module4.7 +module-hide --soft --hidden-loaded boost/1.83.0-plab4vo +module-hide --soft --hidden-loaded boost/1.86.0-d3ou3rp +module-hide --soft --hidden-loaded boost/1.86.0-n2uwyps +module-hide --soft --hidden-loaded boost/1.86.0-ci2ihdy +module-hide --soft --hidden-loaded boost/1.86.0-ghxzkwm +module-hide --soft --hidden-loaded boost/1.86.0-onpefui +module-hide --soft --hidden-loaded boost/1.86.0-mydu4uj +module-hide --soft --hidden-loaded boost/1.86.0-hvbznr2 +module-hide --soft --hidden-loaded boost/1.86.0-q4dqlmb diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/boost/1.83.0-plab4vo b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/boost/1.83.0-plab4vo new file mode 100644 index 00000000..b8ec8420 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/boost/1.83.0-plab4vo @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:27.761863 +## +## boost@1.83.0%gcc@13.2.0+atomic+chrono~clanglibcpp~container~context~contract~coroutine+date_time~debug+exception~fiber+filesystem+graph~graph_parallel+icu+iostreams~json+locale+log+math~mpi+multithreaded~nowide~numpy+pic+program_options~python+random+regex+serialization+shared+signals~singlethreaded~stacktrace+system~taggedlayout+test+thread+timer~type_erasure~url~versionedlayout+wave build_system=generic cxxstd=11 patches=a440f96,b8569d7 visibility=hidden arch=linux-ubuntu22.04-x86_64_v3/plab4vo +## + + +module-whatis {Boost provides free peer-reviewed portable C++ source libraries, emphasizing libraries that work well with the C++ Standard Library.} + +proc ModulesHelp { } { + puts stderr {Name : boost} + puts stderr {Version: 1.83.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Boost provides free peer-reviewed portable C++ source libraries,} + puts stderr {emphasizing libraries that work well with the C++ Standard Library.} + puts stderr {Boost libraries are intended to be widely useful, and usable across a} + puts stderr {broad spectrum of applications. The Boost license encourages both} + puts stderr {commercial and non-commercial use.} +} + +conflict boost + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.83.0-plab4voznmubrchef5xoreq6lgownof5/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.83.0-plab4voznmubrchef5xoreq6lgownof5/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.83.0-plab4voznmubrchef5xoreq6lgownof5/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.83.0-plab4voznmubrchef5xoreq6lgownof5/include} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.83.0-plab4voznmubrchef5xoreq6lgownof5/.} +setenv BOOST_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.83.0-plab4voznmubrchef5xoreq6lgownof5} +setenv BOOST_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.83.0-plab4voznmubrchef5xoreq6lgownof5} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/boost/1.84.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/boost/1.84.0 new file mode 100644 index 00000000..cc0aeb57 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/boost/1.84.0 @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:27.797666 +## +## boost@1.84.0%gcc@13.2.0+atomic+chrono~clanglibcpp~cobalt~container+context~contract+coroutine+date_time~debug+exception~fiber+filesystem+graph+graph_parallel+icu+iostreams+json+locale+log+math~mpi+multithreaded~nowide~numpy~pic+program_options~python+random+regex+serialization+shared+signals~singlethreaded+stacktrace+system~taggedlayout+test+thread+timer~type_erasure~url~versionedlayout+wave build_system=generic context-impl=fcontext cxxstd=11 patches=a440f96,b8569d7 visibility=hidden arch=linux-ubuntu22.04-x86_64_v3/cfpr2nj +## + + +module-whatis {Boost provides free peer-reviewed portable C++ source libraries, emphasizing libraries that work well with the C++ Standard Library.} + +proc ModulesHelp { } { + puts stderr {Name : boost} + puts stderr {Version: 1.84.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Boost provides free peer-reviewed portable C++ source libraries,} + puts stderr {emphasizing libraries that work well with the C++ Standard Library.} + puts stderr {Boost libraries are intended to be widely useful, and usable across a} + puts stderr {broad spectrum of applications. The Boost license encourages both} + puts stderr {commercial and non-commercial use.} +} + +conflict boost + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/boost-1.84.0/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/boost-1.84.0/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/boost-1.84.0/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/boost-1.84.0/include} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/boost-1.84.0/.} +setenv BOOST_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/boost-1.84.0} +setenv BOOST_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.84.0-cfpr2nj777pjdlffrnhguvua2ie5jsfu} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/boost/1.86.0-ci2ihdy b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/boost/1.86.0-ci2ihdy new file mode 100644 index 00000000..fee2905f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/boost/1.86.0-ci2ihdy @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:27.961876 +## +## boost@1.86.0%gcc@13.2.0~atomic~charconv~chrono~clanglibcpp~cobalt+container~context~contract~coroutine~date_time~debug+exception~fiber~filesystem~graph~graph_parallel~icu~iostreams~json~locale~log+math~mpi+multithreaded~nowide~numpy~pic~program_options~python~random~regex~serialization+shared~signals~singlethreaded~stacktrace~system~taggedlayout~test~thread~timer~type_erasure~url~versionedlayout~wave build_system=generic cxxstd=11 patches=a440f96 visibility=hidden arch=linux-ubuntu22.04-x86_64_v3/ci2ihdy +## + + +module-whatis {Boost provides free peer-reviewed portable C++ source libraries, emphasizing libraries that work well with the C++ Standard Library.} + +proc ModulesHelp { } { + puts stderr {Name : boost} + puts stderr {Version: 1.86.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Boost provides free peer-reviewed portable C++ source libraries,} + puts stderr {emphasizing libraries that work well with the C++ Standard Library.} + puts stderr {Boost libraries are intended to be widely useful, and usable across a} + puts stderr {broad spectrum of applications. The Boost license encourages both} + puts stderr {commercial and non-commercial use.} +} + +conflict boost + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.86.0-ci2ihdyjlt7uivwfasl2zgutehzxbxjt/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.86.0-ci2ihdyjlt7uivwfasl2zgutehzxbxjt/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.86.0-ci2ihdyjlt7uivwfasl2zgutehzxbxjt/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.86.0-ci2ihdyjlt7uivwfasl2zgutehzxbxjt/include} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.86.0-ci2ihdyjlt7uivwfasl2zgutehzxbxjt/.} +setenv BOOST_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.86.0-ci2ihdyjlt7uivwfasl2zgutehzxbxjt} +setenv BOOST_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.86.0-ci2ihdyjlt7uivwfasl2zgutehzxbxjt} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/boost/1.86.0-d3ou3rp b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/boost/1.86.0-d3ou3rp new file mode 100644 index 00000000..f6931636 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/boost/1.86.0-d3ou3rp @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:27.918344 +## +## boost@1.86.0%gcc@13.2.0~atomic~charconv~chrono~clanglibcpp~cobalt~container~context~contract~coroutine~date_time~debug~exception~fiber~filesystem~graph~graph_parallel~icu~iostreams~json~locale~log~math~mpi+multithreaded~nowide~numpy~pic~program_options~python~random~regex~serialization+shared~signals~singlethreaded~stacktrace~system~taggedlayout~test~thread~timer~type_erasure~url~versionedlayout~wave build_system=generic cxxstd=11 patches=a440f96 visibility=hidden arch=linux-ubuntu22.04-x86_64_v3/d3ou3rp +## + + +module-whatis {Boost provides free peer-reviewed portable C++ source libraries, emphasizing libraries that work well with the C++ Standard Library.} + +proc ModulesHelp { } { + puts stderr {Name : boost} + puts stderr {Version: 1.86.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Boost provides free peer-reviewed portable C++ source libraries,} + puts stderr {emphasizing libraries that work well with the C++ Standard Library.} + puts stderr {Boost libraries are intended to be widely useful, and usable across a} + puts stderr {broad spectrum of applications. The Boost license encourages both} + puts stderr {commercial and non-commercial use.} +} + +conflict boost + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.86.0-d3ou3rpnvguiphzbx4ymwg774vi5acex/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.86.0-d3ou3rpnvguiphzbx4ymwg774vi5acex/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.86.0-d3ou3rpnvguiphzbx4ymwg774vi5acex/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.86.0-d3ou3rpnvguiphzbx4ymwg774vi5acex/include} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.86.0-d3ou3rpnvguiphzbx4ymwg774vi5acex/.} +setenv BOOST_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.86.0-d3ou3rpnvguiphzbx4ymwg774vi5acex} +setenv BOOST_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.86.0-d3ou3rpnvguiphzbx4ymwg774vi5acex} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/boost/1.86.0-ghxzkwm b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/boost/1.86.0-ghxzkwm new file mode 100644 index 00000000..09f5e1e0 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/boost/1.86.0-ghxzkwm @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:27.983386 +## +## boost@1.86.0%gcc@13.2.0~atomic~charconv~chrono~clanglibcpp~cobalt+container~context~contract~coroutine~date_time~debug+exception~fiber~filesystem~graph~graph_parallel~icu~iostreams~json~locale~log+math~mpi+multithreaded~nowide~numpy~pic~program_options~python+random~regex~serialization+shared~signals~singlethreaded~stacktrace~system~taggedlayout~test~thread~timer~type_erasure~url~versionedlayout~wave build_system=generic cxxstd=11 patches=a440f96 visibility=hidden arch=linux-ubuntu22.04-x86_64_v3/ghxzkwm +## + + +module-whatis {Boost provides free peer-reviewed portable C++ source libraries, emphasizing libraries that work well with the C++ Standard Library.} + +proc ModulesHelp { } { + puts stderr {Name : boost} + puts stderr {Version: 1.86.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Boost provides free peer-reviewed portable C++ source libraries,} + puts stderr {emphasizing libraries that work well with the C++ Standard Library.} + puts stderr {Boost libraries are intended to be widely useful, and usable across a} + puts stderr {broad spectrum of applications. The Boost license encourages both} + puts stderr {commercial and non-commercial use.} +} + +conflict boost + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.86.0-ghxzkwmrhulqcmhnx6mole4gomqc7rbm/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.86.0-ghxzkwmrhulqcmhnx6mole4gomqc7rbm/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.86.0-ghxzkwmrhulqcmhnx6mole4gomqc7rbm/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.86.0-ghxzkwmrhulqcmhnx6mole4gomqc7rbm/include} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.86.0-ghxzkwmrhulqcmhnx6mole4gomqc7rbm/.} +setenv BOOST_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.86.0-ghxzkwmrhulqcmhnx6mole4gomqc7rbm} +setenv BOOST_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.86.0-ghxzkwmrhulqcmhnx6mole4gomqc7rbm} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/boost/1.86.0-hvbznr2 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/boost/1.86.0-hvbznr2 new file mode 100644 index 00000000..9f5d37fd --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/boost/1.86.0-hvbznr2 @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:28.092726 +## +## boost@1.86.0%gcc@13.2.0+atomic~charconv+chrono~clanglibcpp~cobalt~container~context~contract~coroutine+date_time~debug+exception~fiber+filesystem+graph~graph_parallel+icu+iostreams~json+locale+log+math~mpi+multithreaded~nowide~numpy~pic+program_options~python+random+regex+serialization+shared+signals~singlethreaded~stacktrace+system~taggedlayout+test+thread+timer~type_erasure~url~versionedlayout+wave build_system=generic cxxstd=11 patches=a440f96,b8569d7 visibility=hidden arch=linux-ubuntu22.04-x86_64_v3/hvbznr2 +## + + +module-whatis {Boost provides free peer-reviewed portable C++ source libraries, emphasizing libraries that work well with the C++ Standard Library.} + +proc ModulesHelp { } { + puts stderr {Name : boost} + puts stderr {Version: 1.86.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Boost provides free peer-reviewed portable C++ source libraries,} + puts stderr {emphasizing libraries that work well with the C++ Standard Library.} + puts stderr {Boost libraries are intended to be widely useful, and usable across a} + puts stderr {broad spectrum of applications. The Boost license encourages both} + puts stderr {commercial and non-commercial use.} +} + +conflict boost + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.86.0-hvbznr2lap6yklu2or4zftdxsizzqild/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.86.0-hvbznr2lap6yklu2or4zftdxsizzqild/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.86.0-hvbznr2lap6yklu2or4zftdxsizzqild/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.86.0-hvbznr2lap6yklu2or4zftdxsizzqild/include} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.86.0-hvbznr2lap6yklu2or4zftdxsizzqild/.} +setenv BOOST_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.86.0-hvbznr2lap6yklu2or4zftdxsizzqild} +setenv BOOST_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.86.0-hvbznr2lap6yklu2or4zftdxsizzqild} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/boost/1.86.0-mydu4uj b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/boost/1.86.0-mydu4uj new file mode 100644 index 00000000..13ccd39c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/boost/1.86.0-mydu4uj @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:28.069228 +## +## boost@1.86.0%gcc@13.2.0+atomic~charconv+chrono~clanglibcpp~cobalt~container~context~contract~coroutine+date_time~debug+exception~fiber+filesystem+graph~graph_parallel+icu+iostreams~json+locale+log+math~mpi+multithreaded~nowide~numpy~pic+program_options~python+random+regex+serialization+shared+signals~singlethreaded~stacktrace+system~taggedlayout+test+thread+timer~type_erasure~url~versionedlayout+wave build_system=generic cxxstd=11 patches=a440f96,b8569d7 visibility=hidden arch=linux-ubuntu22.04-x86_64_v3/mydu4uj +## + + +module-whatis {Boost provides free peer-reviewed portable C++ source libraries, emphasizing libraries that work well with the C++ Standard Library.} + +proc ModulesHelp { } { + puts stderr {Name : boost} + puts stderr {Version: 1.86.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Boost provides free peer-reviewed portable C++ source libraries,} + puts stderr {emphasizing libraries that work well with the C++ Standard Library.} + puts stderr {Boost libraries are intended to be widely useful, and usable across a} + puts stderr {broad spectrum of applications. The Boost license encourages both} + puts stderr {commercial and non-commercial use.} +} + +conflict boost + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.86.0-mydu4ujx7m3hxz64434wxfkefb3swvef/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.86.0-mydu4ujx7m3hxz64434wxfkefb3swvef/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.86.0-mydu4ujx7m3hxz64434wxfkefb3swvef/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.86.0-mydu4ujx7m3hxz64434wxfkefb3swvef/include} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.86.0-mydu4ujx7m3hxz64434wxfkefb3swvef/.} +setenv BOOST_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.86.0-mydu4ujx7m3hxz64434wxfkefb3swvef} +setenv BOOST_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.86.0-mydu4ujx7m3hxz64434wxfkefb3swvef} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/boost/1.86.0-n2uwyps b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/boost/1.86.0-n2uwyps new file mode 100644 index 00000000..905f9fd6 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/boost/1.86.0-n2uwyps @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:27.940517 +## +## boost@1.86.0%gcc@13.2.0~atomic~charconv~chrono~clanglibcpp~cobalt~container~context~contract~coroutine~date_time~debug~exception~fiber~filesystem+graph~graph_parallel~icu~iostreams~json~locale~log~math~mpi+multithreaded~nowide~numpy~pic~program_options~python~random~regex~serialization+shared~signals~singlethreaded~stacktrace~system~taggedlayout~test~thread~timer~type_erasure~url~versionedlayout~wave build_system=generic cxxstd=11 patches=a440f96 visibility=hidden arch=linux-ubuntu22.04-x86_64_v3/n2uwyps +## + + +module-whatis {Boost provides free peer-reviewed portable C++ source libraries, emphasizing libraries that work well with the C++ Standard Library.} + +proc ModulesHelp { } { + puts stderr {Name : boost} + puts stderr {Version: 1.86.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Boost provides free peer-reviewed portable C++ source libraries,} + puts stderr {emphasizing libraries that work well with the C++ Standard Library.} + puts stderr {Boost libraries are intended to be widely useful, and usable across a} + puts stderr {broad spectrum of applications. The Boost license encourages both} + puts stderr {commercial and non-commercial use.} +} + +conflict boost + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.86.0-n2uwypscqmatwdzaxws6fiuj736hn6rm/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.86.0-n2uwypscqmatwdzaxws6fiuj736hn6rm/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.86.0-n2uwypscqmatwdzaxws6fiuj736hn6rm/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.86.0-n2uwypscqmatwdzaxws6fiuj736hn6rm/include} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.86.0-n2uwypscqmatwdzaxws6fiuj736hn6rm/.} +setenv BOOST_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.86.0-n2uwypscqmatwdzaxws6fiuj736hn6rm} +setenv BOOST_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.86.0-n2uwypscqmatwdzaxws6fiuj736hn6rm} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/boost/1.86.0-onpefui b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/boost/1.86.0-onpefui new file mode 100644 index 00000000..439b596d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/boost/1.86.0-onpefui @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:28.047736 +## +## boost@1.86.0%gcc@13.2.0+atomic~charconv+chrono~clanglibcpp~cobalt~container~context~contract~coroutine~date_time~debug+exception~fiber~filesystem~graph~graph_parallel~icu~iostreams~json~locale~log~math~mpi+multithreaded~nowide~numpy~pic~program_options~python~random~regex~serialization+shared~signals~singlethreaded~stacktrace+system~taggedlayout~test+thread~timer~type_erasure~url~versionedlayout~wave build_system=generic cxxstd=11 patches=a440f96 visibility=hidden arch=linux-ubuntu22.04-x86_64_v3/onpefui +## + + +module-whatis {Boost provides free peer-reviewed portable C++ source libraries, emphasizing libraries that work well with the C++ Standard Library.} + +proc ModulesHelp { } { + puts stderr {Name : boost} + puts stderr {Version: 1.86.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Boost provides free peer-reviewed portable C++ source libraries,} + puts stderr {emphasizing libraries that work well with the C++ Standard Library.} + puts stderr {Boost libraries are intended to be widely useful, and usable across a} + puts stderr {broad spectrum of applications. The Boost license encourages both} + puts stderr {commercial and non-commercial use.} +} + +conflict boost + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.86.0-onpefuilqojtvbplb6igqbbgckqmcgel/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.86.0-onpefuilqojtvbplb6igqbbgckqmcgel/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.86.0-onpefuilqojtvbplb6igqbbgckqmcgel/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.86.0-onpefuilqojtvbplb6igqbbgckqmcgel/include} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.86.0-onpefuilqojtvbplb6igqbbgckqmcgel/.} +setenv BOOST_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.86.0-onpefuilqojtvbplb6igqbbgckqmcgel} +setenv BOOST_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.86.0-onpefuilqojtvbplb6igqbbgckqmcgel} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/boost/1.86.0-q4dqlmb b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/boost/1.86.0-q4dqlmb new file mode 100644 index 00000000..d866f40f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/boost/1.86.0-q4dqlmb @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:28.115533 +## +## boost@1.86.0%gcc@13.2.0+atomic~charconv+chrono~clanglibcpp~cobalt~container~context~contract~coroutine+date_time~debug+exception~fiber+filesystem+graph~graph_parallel+icu+iostreams~json+locale+log+math~mpi+multithreaded~nowide~numpy~pic+program_options~python+random+regex+serialization+shared+signals~singlethreaded~stacktrace+system~taggedlayout+test+thread+timer~type_erasure~url~versionedlayout+wave build_system=generic cxxstd=11 patches=a440f96,b8569d7 visibility=hidden arch=linux-ubuntu22.04-x86_64_v3/q4dqlmb +## + + +module-whatis {Boost provides free peer-reviewed portable C++ source libraries, emphasizing libraries that work well with the C++ Standard Library.} + +proc ModulesHelp { } { + puts stderr {Name : boost} + puts stderr {Version: 1.86.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Boost provides free peer-reviewed portable C++ source libraries,} + puts stderr {emphasizing libraries that work well with the C++ Standard Library.} + puts stderr {Boost libraries are intended to be widely useful, and usable across a} + puts stderr {broad spectrum of applications. The Boost license encourages both} + puts stderr {commercial and non-commercial use.} +} + +conflict boost + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.86.0-q4dqlmblltesfcbbrwrpf2wnmath7sxf/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.86.0-q4dqlmblltesfcbbrwrpf2wnmath7sxf/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.86.0-q4dqlmblltesfcbbrwrpf2wnmath7sxf/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.86.0-q4dqlmblltesfcbbrwrpf2wnmath7sxf/include} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.86.0-q4dqlmblltesfcbbrwrpf2wnmath7sxf/.} +setenv BOOST_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.86.0-q4dqlmblltesfcbbrwrpf2wnmath7sxf} +setenv BOOST_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.86.0-q4dqlmblltesfcbbrwrpf2wnmath7sxf} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bowtie/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bowtie/.modulerc new file mode 100644 index 00000000..6ea50d12 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bowtie/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded bowtie/1.3.1-thb3bkg diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bowtie/1.3.1 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bowtie/1.3.1 new file mode 100644 index 00000000..f1659883 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bowtie/1.3.1 @@ -0,0 +1,63 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:28.189020 +## +## bowtie@1.3.1%gcc@13.2.0~tbb build_system=makefile patches=55bcf00 arch=linux-ubuntu22.04-x86_64_v3/726nmww +## + + +module-whatis {Bowtie is an ultrafast, memory-efficient short read aligner for short DNA sequences (reads) from next-gen sequencers.} + +proc ModulesHelp { } { + puts stderr {Name : bowtie} + puts stderr {Version: 1.3.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Bowtie is an ultrafast, memory-efficient short read aligner for short} + puts stderr {DNA sequences (reads) from next-gen sequencers.} +} + +conflict bowtie + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/bowtie-1.3.1/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/bowtie-1.3.1/.} +setenv BOWTIE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/bowtie-1.3.1-726nmwwpqqdm2artxsbplymaltxt7ccc} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bowtie/1.3.1-thb3bkg b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bowtie/1.3.1-thb3bkg new file mode 100644 index 00000000..f4f7d5b8 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bowtie/1.3.1-thb3bkg @@ -0,0 +1,63 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:28.153241 +## +## bowtie@1.3.1%gcc@13.2.0~tbb build_system=makefile patches=55bcf00 arch=linux-ubuntu22.04-x86_64_v3/thb3bkg +## + + +module-whatis {Bowtie is an ultrafast, memory-efficient short read aligner for short DNA sequences (reads) from next-gen sequencers.} + +proc ModulesHelp { } { + puts stderr {Name : bowtie} + puts stderr {Version: 1.3.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Bowtie is an ultrafast, memory-efficient short read aligner for short} + puts stderr {DNA sequences (reads) from next-gen sequencers.} +} + +conflict bowtie + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/bowtie-1.3.1-thb3bkgh6a5lqzis2l4ppj7clcv55ccf/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/bowtie-1.3.1-thb3bkgh6a5lqzis2l4ppj7clcv55ccf/.} +setenv BOWTIE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/bowtie-1.3.1-thb3bkgh6a5lqzis2l4ppj7clcv55ccf} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bowtie2/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bowtie2/.modulerc new file mode 100644 index 00000000..5afaa95f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bowtie2/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded bowtie2/2.5.2-tpbmfae diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bowtie2/2.5.2 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bowtie2/2.5.2 new file mode 100644 index 00000000..f7ae1fc8 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bowtie2/2.5.2 @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:28.213895 +## +## bowtie2@2.5.2%gcc@13.2.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/mxmwmxt +## + + +module-whatis {Bowtie 2 is an ultrafast and memory-efficient tool for aligning sequencing reads to long reference sequences} + +proc ModulesHelp { } { + puts stderr {Name : bowtie2} + puts stderr {Version: 2.5.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Bowtie 2 is an ultrafast and memory-efficient tool for aligning} + puts stderr {sequencing reads to long reference sequences} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load python/3.13.0-xf4zxxe +} else { + depends-on perl/5.40.0-lzbctij + depends-on python/3.13.0-xf4zxxe +} +conflict bowtie2 + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/bowtie2-2.5.2/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/bowtie2-2.5.2/.} +setenv BOWTIE2_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/bowtie2-2.5.2-mxmwmxtzozc2op27ajz55vrd4qsqzxz3} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bowtie2/2.5.2-tpbmfae b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bowtie2/2.5.2-tpbmfae new file mode 100644 index 00000000..70b239d8 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bowtie2/2.5.2-tpbmfae @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:28.281067 +## +## bowtie2@2.5.2%gcc@13.2.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/tpbmfae +## + + +module-whatis {Bowtie 2 is an ultrafast and memory-efficient tool for aligning sequencing reads to long reference sequences} + +proc ModulesHelp { } { + puts stderr {Name : bowtie2} + puts stderr {Version: 2.5.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Bowtie 2 is an ultrafast and memory-efficient tool for aligning} + puts stderr {sequencing reads to long reference sequences} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-v76o5kk + module load python/3.13.0-ev3dbxe +} else { + depends-on perl/5.40.0-v76o5kk + depends-on python/3.13.0-ev3dbxe +} +conflict bowtie2 + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/bowtie2-2.5.2-tpbmfaedvljnal7pprmqc7ysmqhpndge/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/bowtie2-2.5.2-tpbmfaedvljnal7pprmqc7ysmqhpndge/.} +setenv BOWTIE2_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/bowtie2-2.5.2-tpbmfaedvljnal7pprmqc7ysmqhpndge} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/brotli/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/brotli/.modulerc new file mode 100644 index 00000000..2e5ef093 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/brotli/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded brotli/1.1.0-muwqzpi +module-hide --soft --hidden-loaded brotli/1.1.0-5unujtc diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/brotli/1.1.0-5unujtc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/brotli/1.1.0-5unujtc new file mode 100644 index 00000000..418d1fe5 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/brotli/1.1.0-5unujtc @@ -0,0 +1,67 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:28.454624 +## +## brotli@1.1.0%gcc@13.2.0~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/5unujtc +## + + +module-whatis {Brotli is a generic-purpose lossless compression algorithm} + +proc ModulesHelp { } { + puts stderr {Name : brotli} + puts stderr {Version: 1.1.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Brotli is a generic-purpose lossless compression algorithm} +} + +conflict brotli + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/brotli-1.1.0-5unujtcz2qpnwfpvlybeyyzkelcu52si/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/brotli-1.1.0-5unujtcz2qpnwfpvlybeyyzkelcu52si/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/brotli-1.1.0-5unujtcz2qpnwfpvlybeyyzkelcu52si/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/brotli-1.1.0-5unujtcz2qpnwfpvlybeyyzkelcu52si/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/brotli-1.1.0-5unujtcz2qpnwfpvlybeyyzkelcu52si/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/brotli-1.1.0-5unujtcz2qpnwfpvlybeyyzkelcu52si/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/brotli-1.1.0-5unujtcz2qpnwfpvlybeyyzkelcu52si/.} +setenv BROTLI_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/brotli-1.1.0-5unujtcz2qpnwfpvlybeyyzkelcu52si} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/brotli/1.1.0-muwqzpi b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/brotli/1.1.0-muwqzpi new file mode 100644 index 00000000..951c8469 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/brotli/1.1.0-muwqzpi @@ -0,0 +1,67 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:28.445495 +## +## brotli@1.1.0%gcc@13.2.0~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/muwqzpi +## + + +module-whatis {Brotli is a generic-purpose lossless compression algorithm} + +proc ModulesHelp { } { + puts stderr {Name : brotli} + puts stderr {Version: 1.1.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Brotli is a generic-purpose lossless compression algorithm} +} + +conflict brotli + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/brotli-1.1.0-muwqzpivdatid6djkbi6kapwcjqfclyq/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/brotli-1.1.0-muwqzpivdatid6djkbi6kapwcjqfclyq/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/brotli-1.1.0-muwqzpivdatid6djkbi6kapwcjqfclyq/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/brotli-1.1.0-muwqzpivdatid6djkbi6kapwcjqfclyq/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/brotli-1.1.0-muwqzpivdatid6djkbi6kapwcjqfclyq/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/brotli-1.1.0-muwqzpivdatid6djkbi6kapwcjqfclyq/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/brotli-1.1.0-muwqzpivdatid6djkbi6kapwcjqfclyq/.} +setenv BROTLI_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/brotli-1.1.0-muwqzpivdatid6djkbi6kapwcjqfclyq} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bwa/0.7.17 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bwa/0.7.17 new file mode 100644 index 00000000..e69af578 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bwa/0.7.17 @@ -0,0 +1,64 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:28.463587 +## +## bwa@0.7.17%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/e6ovc7k +## + + +module-whatis {Burrow-Wheeler Aligner for pairwise alignment between DNA sequences.} + +proc ModulesHelp { } { + puts stderr {Name : bwa} + puts stderr {Version: 0.7.17} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Burrow-Wheeler Aligner for pairwise alignment between DNA sequences.} +} + +conflict bwa + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/bwa-0.7.17/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/bwa-0.7.17/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/bwa-0.7.17/.} +setenv BWA_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/bwa-0.7.17-e6ovc7kdij67pap6ziic2xcnihpgmnzx} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bwtool/1.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bwtool/1.0 new file mode 100644 index 00000000..b2c35b99 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bwtool/1.0 @@ -0,0 +1,62 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:28.487403 +## +## bwtool@1.0%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/vl2n5yh +## + + +module-whatis {bwtool is a command-line utility for bigWig files.} + +proc ModulesHelp { } { + puts stderr {Name : bwtool} + puts stderr {Version: 1.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {bwtool is a command-line utility for bigWig files.} +} + +conflict bwtool + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/bwtool-1.0/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/bwtool-1.0/.} +setenv BWTOOL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/bwtool-1.0-vl2n5yhmiknc3ju2osspjepyg3zytzms} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bzip2/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bzip2/.modulerc new file mode 100644 index 00000000..7064b4a5 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bzip2/.modulerc @@ -0,0 +1,4 @@ +#%Module4.7 +module-hide --soft --hidden-loaded bzip2/1.0.8-ewqc7cx +module-hide --soft --hidden-loaded bzip2/1.0.8-w3nrdq4 +module-hide --soft --hidden-loaded bzip2/1.0.8-vgm6cfw diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bzip2/1.0.8 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bzip2/1.0.8 new file mode 100644 index 00000000..26727378 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bzip2/1.0.8 @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:28.635614 +## +## bzip2@1.0.8%gcc@13.2.0~debug~pic+shared build_system=generic arch=linux-ubuntu22.04-x86_64_v3/qknztba +## + + +module-whatis {bzip2 is a freely available, patent free high-quality data compressor. It typically compresses files to within 10% to 15% of the best available techniques (the PPM family of statistical compressors), whilst being around twice as fast at compression and six times faster at decompression.} + +proc ModulesHelp { } { + puts stderr {Name : bzip2} + puts stderr {Version: 1.0.8} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {bzip2 is a freely available, patent free high-quality data compressor.} + puts stderr {It typically compresses files to within 10% to 15% of the best available} + puts stderr {techniques (the PPM family of statistical compressors), whilst being} + puts stderr {around twice as fast at compression and six times faster at} + puts stderr {decompression.} +} + +conflict bzip2 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/bzip2-1.0.8/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/bzip2-1.0.8/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/bzip2-1.0.8/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/bzip2-1.0.8/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/bzip2-1.0.8/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/bzip2-1.0.8/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/bzip2-1.0.8/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/bzip2-1.0.8/.} +setenv BZIP2_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/bzip2-1.0.8-qknztbakgnayrsc4iql53yss5tv4yslr} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bzip2/1.0.8-ewqc7cx b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bzip2/1.0.8-ewqc7cx new file mode 100644 index 00000000..b3c6ebc6 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bzip2/1.0.8-ewqc7cx @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:28.595597 +## +## bzip2@1.0.8%gcc@11.4.0~debug~pic+shared build_system=generic arch=linux-ubuntu22.04-x86_64_v3/ewqc7cx +## + + +module-whatis {bzip2 is a freely available, patent free high-quality data compressor. It typically compresses files to within 10% to 15% of the best available techniques (the PPM family of statistical compressors), whilst being around twice as fast at compression and six times faster at decompression.} + +proc ModulesHelp { } { + puts stderr {Name : bzip2} + puts stderr {Version: 1.0.8} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {bzip2 is a freely available, patent free high-quality data compressor.} + puts stderr {It typically compresses files to within 10% to 15% of the best available} + puts stderr {techniques (the PPM family of statistical compressors), whilst being} + puts stderr {around twice as fast at compression and six times faster at} + puts stderr {decompression.} +} + +conflict bzip2 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/bzip2-1.0.8-ewqc7cx44b63asa742p2asywp2k6rfto/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/bzip2-1.0.8-ewqc7cx44b63asa742p2asywp2k6rfto/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/bzip2-1.0.8-ewqc7cx44b63asa742p2asywp2k6rfto/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/bzip2-1.0.8-ewqc7cx44b63asa742p2asywp2k6rfto/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/bzip2-1.0.8-ewqc7cx44b63asa742p2asywp2k6rfto/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/bzip2-1.0.8-ewqc7cx44b63asa742p2asywp2k6rfto/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/bzip2-1.0.8-ewqc7cx44b63asa742p2asywp2k6rfto/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/bzip2-1.0.8-ewqc7cx44b63asa742p2asywp2k6rfto/.} +setenv BZIP2_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/bzip2-1.0.8-ewqc7cx44b63asa742p2asywp2k6rfto} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bzip2/1.0.8-vgm6cfw b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bzip2/1.0.8-vgm6cfw new file mode 100644 index 00000000..0a2ffbc0 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bzip2/1.0.8-vgm6cfw @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:28.550041 +## +## bzip2@1.0.8%gcc@7.5.0~debug~pic+shared build_system=generic arch=linux-ubuntu22.04-x86_64_v3/vgm6cfw +## + + +module-whatis {bzip2 is a freely available, patent free high-quality data compressor. It typically compresses files to within 10% to 15% of the best available techniques (the PPM family of statistical compressors), whilst being around twice as fast at compression and six times faster at decompression.} + +proc ModulesHelp { } { + puts stderr {Name : bzip2} + puts stderr {Version: 1.0.8} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {bzip2 is a freely available, patent free high-quality data compressor.} + puts stderr {It typically compresses files to within 10% to 15% of the best available} + puts stderr {techniques (the PPM family of statistical compressors), whilst being} + puts stderr {around twice as fast at compression and six times faster at} + puts stderr {decompression.} +} + +conflict bzip2 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/bzip2-1.0.8-vgm6cfwk2ynkxdutptxddhik5syqzoqk/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/bzip2-1.0.8-vgm6cfwk2ynkxdutptxddhik5syqzoqk/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/bzip2-1.0.8-vgm6cfwk2ynkxdutptxddhik5syqzoqk/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/bzip2-1.0.8-vgm6cfwk2ynkxdutptxddhik5syqzoqk/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/bzip2-1.0.8-vgm6cfwk2ynkxdutptxddhik5syqzoqk/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/bzip2-1.0.8-vgm6cfwk2ynkxdutptxddhik5syqzoqk/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/bzip2-1.0.8-vgm6cfwk2ynkxdutptxddhik5syqzoqk/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/bzip2-1.0.8-vgm6cfwk2ynkxdutptxddhik5syqzoqk/.} +setenv BZIP2_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/bzip2-1.0.8-vgm6cfwk2ynkxdutptxddhik5syqzoqk} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bzip2/1.0.8-w3nrdq4 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bzip2/1.0.8-w3nrdq4 new file mode 100644 index 00000000..a1d452a1 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/bzip2/1.0.8-w3nrdq4 @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:28.615938 +## +## bzip2@1.0.8%gcc@11.4.0~debug~pic+shared build_system=generic arch=linux-ubuntu22.04-x86_64_v3/w3nrdq4 +## + + +module-whatis {bzip2 is a freely available, patent free high-quality data compressor. It typically compresses files to within 10% to 15% of the best available techniques (the PPM family of statistical compressors), whilst being around twice as fast at compression and six times faster at decompression.} + +proc ModulesHelp { } { + puts stderr {Name : bzip2} + puts stderr {Version: 1.0.8} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {bzip2 is a freely available, patent free high-quality data compressor.} + puts stderr {It typically compresses files to within 10% to 15% of the best available} + puts stderr {techniques (the PPM family of statistical compressors), whilst being} + puts stderr {around twice as fast at compression and six times faster at} + puts stderr {decompression.} +} + +conflict bzip2 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/bzip2-1.0.8-w3nrdq4zswhvsa6oajnk42ozoswkhb33/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/bzip2-1.0.8-w3nrdq4zswhvsa6oajnk42ozoswkhb33/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/bzip2-1.0.8-w3nrdq4zswhvsa6oajnk42ozoswkhb33/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/bzip2-1.0.8-w3nrdq4zswhvsa6oajnk42ozoswkhb33/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/bzip2-1.0.8-w3nrdq4zswhvsa6oajnk42ozoswkhb33/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/bzip2-1.0.8-w3nrdq4zswhvsa6oajnk42ozoswkhb33/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/bzip2-1.0.8-w3nrdq4zswhvsa6oajnk42ozoswkhb33/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/bzip2-1.0.8-w3nrdq4zswhvsa6oajnk42ozoswkhb33/.} +setenv BZIP2_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/bzip2-1.0.8-w3nrdq4zswhvsa6oajnk42ozoswkhb33} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/c-ares/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/c-ares/.modulerc new file mode 100644 index 00000000..cd40ab6b --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/c-ares/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded c-ares/1.28.1-uvns34x diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/c-ares/1.28.1-uvns34x b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/c-ares/1.28.1-uvns34x new file mode 100644 index 00000000..6c7cbdaa --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/c-ares/1.28.1-uvns34x @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:28.661715 +## +## c-ares@1.28.1%gcc@13.2.0~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/uvns34x +## + + +module-whatis {c-ares: A C library for asynchronous DNS requests} + +proc ModulesHelp { } { + puts stderr {Name : c-ares} + puts stderr {Version: 1.28.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {c-ares: A C library for asynchronous DNS requests} +} + +conflict c-ares + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/c-ares-1.28.1-uvns34xdxu6d44427xfo5cjsdvcnifwh/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/c-ares-1.28.1-uvns34xdxu6d44427xfo5cjsdvcnifwh/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/c-ares-1.28.1-uvns34xdxu6d44427xfo5cjsdvcnifwh/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/c-ares-1.28.1-uvns34xdxu6d44427xfo5cjsdvcnifwh/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/c-ares-1.28.1-uvns34xdxu6d44427xfo5cjsdvcnifwh/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/c-ares-1.28.1-uvns34xdxu6d44427xfo5cjsdvcnifwh/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/c-ares-1.28.1-uvns34xdxu6d44427xfo5cjsdvcnifwh/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/c-ares-1.28.1-uvns34xdxu6d44427xfo5cjsdvcnifwh/.} +setenv C_ARES_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/c-ares-1.28.1-uvns34xdxu6d44427xfo5cjsdvcnifwh} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/c-blosc/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/c-blosc/.modulerc new file mode 100644 index 00000000..fdeed0c6 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/c-blosc/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded c-blosc/1.21.5-4mjsrfz +module-hide --soft --hidden-loaded c-blosc/1.21.5-jacvmq7 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/c-blosc/1.21.5-4mjsrfz b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/c-blosc/1.21.5-4mjsrfz new file mode 100644 index 00000000..d7e6a112 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/c-blosc/1.21.5-4mjsrfz @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:28.671770 +## +## c-blosc@1.21.5%gcc@11.4.0+avx2~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/4mjsrfz +## +## Configure options: -DDEACTIVATE_AVX2=OFF -DPREFER_EXTERNAL_SNAPPY=ON -DPREFER_EXTERNAL_ZLIB=ON -DPREFER_EXTERNAL_ZSTD=ON -DPREFER_EXTERNAL_LZ4=ON -DBUILD_TESTS=OFF -DBUILD_BENCHMARKS=OFF +## + + +module-whatis {Blosc, an extremely fast, multi-threaded, meta-compressor library} + +proc ModulesHelp { } { + puts stderr {Name : c-blosc} + puts stderr {Version: 1.21.5} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Blosc, an extremely fast, multi-threaded, meta-compressor library} +} + +conflict c-blosc + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/c-blosc-1.21.5-4mjsrfz2yy2djyraibiquvcwvl3nrf7f/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/c-blosc-1.21.5-4mjsrfz2yy2djyraibiquvcwvl3nrf7f/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/c-blosc-1.21.5-4mjsrfz2yy2djyraibiquvcwvl3nrf7f/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/c-blosc-1.21.5-4mjsrfz2yy2djyraibiquvcwvl3nrf7f/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/c-blosc-1.21.5-4mjsrfz2yy2djyraibiquvcwvl3nrf7f/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/c-blosc-1.21.5-4mjsrfz2yy2djyraibiquvcwvl3nrf7f/.} +setenv C_BLOSC_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/c-blosc-1.21.5-4mjsrfz2yy2djyraibiquvcwvl3nrf7f} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/c-blosc/1.21.5-jacvmq7 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/c-blosc/1.21.5-jacvmq7 new file mode 100644 index 00000000..19503931 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/c-blosc/1.21.5-jacvmq7 @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:28.746696 +## +## c-blosc@1.21.5%gcc@13.2.0+avx2~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/jacvmq7 +## +## Configure options: -DDEACTIVATE_AVX2=OFF -DPREFER_EXTERNAL_SNAPPY=ON -DPREFER_EXTERNAL_ZLIB=ON -DPREFER_EXTERNAL_ZSTD=ON -DPREFER_EXTERNAL_LZ4=ON -DBUILD_TESTS=OFF -DBUILD_BENCHMARKS=OFF +## + + +module-whatis {Blosc, an extremely fast, multi-threaded, meta-compressor library} + +proc ModulesHelp { } { + puts stderr {Name : c-blosc} + puts stderr {Version: 1.21.5} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Blosc, an extremely fast, multi-threaded, meta-compressor library} +} + +conflict c-blosc + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/c-blosc-1.21.5-jacvmq7px72vlvg2ywocs6pfa55bfyz3/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/c-blosc-1.21.5-jacvmq7px72vlvg2ywocs6pfa55bfyz3/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/c-blosc-1.21.5-jacvmq7px72vlvg2ywocs6pfa55bfyz3/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/c-blosc-1.21.5-jacvmq7px72vlvg2ywocs6pfa55bfyz3/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/c-blosc-1.21.5-jacvmq7px72vlvg2ywocs6pfa55bfyz3/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/c-blosc-1.21.5-jacvmq7px72vlvg2ywocs6pfa55bfyz3/.} +setenv C_BLOSC_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/c-blosc-1.21.5-jacvmq7px72vlvg2ywocs6pfa55bfyz3} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cairo/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cairo/.modulerc new file mode 100644 index 00000000..fdd7cf76 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cairo/.modulerc @@ -0,0 +1,4 @@ +#%Module4.7 +module-hide --soft --hidden-loaded cairo/1.16.0-4n2usyn +module-hide --soft --hidden-loaded cairo/1.16.0-o76rz24 +module-hide --soft --hidden-loaded cairo/1.16.0-ne3zfvm diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cairo/1.16.0-4n2usyn b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cairo/1.16.0-4n2usyn new file mode 100644 index 00000000..7ad05aea --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cairo/1.16.0-4n2usyn @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2024-12-19 13:36:28.415377 +## +## cairo@1.16.0%gcc@13.2.0+X+fc+ft+gobject+pdf+pic+png+shared~svg build_system=autotools patches=7097196,7c4da77 arch=linux-ubuntu22.04-x86_64_v3/4n2usyn +## +## Configure options: --disable-trace --enable-tee --enable-xlib --enable-xcb --enable-pdf --enable-gobject --enable-ft --enable-fc --enable-shared --with-pic +## + + +module-whatis {Cairo is a 2D graphics library with support for multiple output devices.} + +proc ModulesHelp { } { + puts stderr {Name : cairo} + puts stderr {Version: 1.16.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Cairo is a 2D graphics library with support for multiple output devices.} +} + +conflict cairo + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/cairo-1.16.0-4n2usyn6myv2kk3kdux6iwdlp54wnaah/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/cairo-1.16.0-4n2usyn6myv2kk3kdux6iwdlp54wnaah/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/cairo-1.16.0-4n2usyn6myv2kk3kdux6iwdlp54wnaah/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/cairo-1.16.0-4n2usyn6myv2kk3kdux6iwdlp54wnaah/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/cairo-1.16.0-4n2usyn6myv2kk3kdux6iwdlp54wnaah/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/cairo-1.16.0-4n2usyn6myv2kk3kdux6iwdlp54wnaah/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/cairo-1.16.0-4n2usyn6myv2kk3kdux6iwdlp54wnaah/.} +prepend-path XLOCALEDIR {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libx11-1.8.10-dufv2eokil27hgb3ao7tuotsswt65llr/share/X11/locale} +setenv CAIRO_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/cairo-1.16.0-4n2usyn6myv2kk3kdux6iwdlp54wnaah} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cairo/1.16.0-ne3zfvm b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cairo/1.16.0-ne3zfvm new file mode 100644 index 00000000..4db6ef4f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cairo/1.16.0-ne3zfvm @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:29.196166 +## +## cairo@1.16.0%gcc@13.2.0+X+fc+ft+gobject+pdf+pic+png+shared~svg build_system=autotools patches=7097196,7c4da77 arch=linux-ubuntu22.04-x86_64_v3/ne3zfvm +## +## Configure options: --disable-trace --enable-tee --enable-xlib --enable-xcb --enable-pdf --enable-gobject --enable-ft --enable-fc --enable-shared --with-pic +## + + +module-whatis {Cairo is a 2D graphics library with support for multiple output devices.} + +proc ModulesHelp { } { + puts stderr {Name : cairo} + puts stderr {Version: 1.16.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Cairo is a 2D graphics library with support for multiple output devices.} +} + +conflict cairo + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/cairo-1.16.0-ne3zfvm6nyazfq35mbfrlvwkrgujrwt7/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/cairo-1.16.0-ne3zfvm6nyazfq35mbfrlvwkrgujrwt7/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/cairo-1.16.0-ne3zfvm6nyazfq35mbfrlvwkrgujrwt7/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/cairo-1.16.0-ne3zfvm6nyazfq35mbfrlvwkrgujrwt7/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/cairo-1.16.0-ne3zfvm6nyazfq35mbfrlvwkrgujrwt7/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/cairo-1.16.0-ne3zfvm6nyazfq35mbfrlvwkrgujrwt7/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/cairo-1.16.0-ne3zfvm6nyazfq35mbfrlvwkrgujrwt7/.} +prepend-path XLOCALEDIR {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libx11-1.8.10-dufv2eokil27hgb3ao7tuotsswt65llr/share/X11/locale} +setenv CAIRO_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/cairo-1.16.0-ne3zfvm6nyazfq35mbfrlvwkrgujrwt7} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cairo/1.16.0-o76rz24 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cairo/1.16.0-o76rz24 new file mode 100644 index 00000000..fc3edd7a --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cairo/1.16.0-o76rz24 @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:28.921589 +## +## cairo@1.16.0%gcc@13.2.0+X+fc+ft+gobject+pdf+pic+png+shared~svg build_system=autotools patches=7097196,7c4da77 arch=linux-ubuntu22.04-x86_64_v3/o76rz24 +## +## Configure options: --disable-trace --enable-tee --enable-xlib --enable-xcb --enable-pdf --enable-gobject --enable-ft --enable-fc --enable-shared --with-pic +## + + +module-whatis {Cairo is a 2D graphics library with support for multiple output devices.} + +proc ModulesHelp { } { + puts stderr {Name : cairo} + puts stderr {Version: 1.16.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Cairo is a 2D graphics library with support for multiple output devices.} +} + +conflict cairo + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/cairo-1.16.0-o76rz24xpfaq522rqaytqboxub3w3t7l/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/cairo-1.16.0-o76rz24xpfaq522rqaytqboxub3w3t7l/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/cairo-1.16.0-o76rz24xpfaq522rqaytqboxub3w3t7l/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/cairo-1.16.0-o76rz24xpfaq522rqaytqboxub3w3t7l/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/cairo-1.16.0-o76rz24xpfaq522rqaytqboxub3w3t7l/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/cairo-1.16.0-o76rz24xpfaq522rqaytqboxub3w3t7l/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/cairo-1.16.0-o76rz24xpfaq522rqaytqboxub3w3t7l/.} +prepend-path XLOCALEDIR {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libx11-1.8.10-4ysbix3phyqds2vcfaitukap5yprk6rq/share/X11/locale} +setenv CAIRO_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/cairo-1.16.0-o76rz24xpfaq522rqaytqboxub3w3t7l} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/canu/2.2 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/canu/2.2 new file mode 100644 index 00000000..1521d223 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/canu/2.2 @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:29.544618 +## +## canu@2.2%gcc@13.2.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/tjoqx5t +## + + +module-whatis {A single molecule sequence assembler for genomes large and small.} + +proc ModulesHelp { } { + puts stderr {Name : canu} + puts stderr {Version: 2.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A single molecule sequence assembler for genomes large and small.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load gnuplot/6.0.0-7z2s75q + module load openjdk/17.0.11_9 + module load perl/5.40.0-lzbctij +} else { + depends-on gnuplot/6.0.0-7z2s75q + depends-on openjdk/17.0.11_9 + depends-on perl/5.40.0-lzbctij +} +conflict canu + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/canu-2.2/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/canu-2.2/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/canu-2.2/.} +setenv CANU_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/canu-2.2-tjoqx5tz7jsjcawi2zbnz2qesdxdu74c} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cap3/2015-02-11 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cap3/2015-02-11 new file mode 100644 index 00000000..6856a65d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cap3/2015-02-11 @@ -0,0 +1,62 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:29.763603 +## +## cap3@2015-02-11%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/jy3tzfe +## + + +module-whatis {CAP3 is DNA Sequence Assembly Program} + +proc ModulesHelp { } { + puts stderr {Name : cap3} + puts stderr {Version: 2015-02-11} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {CAP3 is DNA Sequence Assembly Program} +} + +conflict cap3 + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/cap3-2015-02-11/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/cap3-2015-02-11/.} +setenv CAP3_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/cap3-2015-02-11-jy3tzfelxibq7s7wilvwqrq4wiiqsybh} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ccfits/2.6 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ccfits/2.6 new file mode 100644 index 00000000..69416cd9 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ccfits/2.6 @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:29.785935 +## +## ccfits@2.6%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/mtpmok3 +## + + +module-whatis {CCfits is an object oriented interface to the cfitsio library. It is designed to make the capabilities of cfitsio available to programmers working in C++. It is written in ANSI C++ and implemented using the C++ Standard Library with namespaces, exception handling, and member template functions.} + +proc ModulesHelp { } { + puts stderr {Name : ccfits} + puts stderr {Version: 2.6} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {CCfits is an object oriented interface to the cfitsio library. It is} + puts stderr {designed to make the capabilities of cfitsio available to programmers} + puts stderr {working in C++. It is written in ANSI C++ and implemented using the C++} + puts stderr {Standard Library with namespaces, exception handling, and member} + puts stderr {template functions.} +} + +conflict ccfits + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/ccfits-2.6/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/ccfits-2.6/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/ccfits-2.6/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/ccfits-2.6/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/ccfits-2.6/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/ccfits-2.6/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/ccfits-2.6/.} +setenv CCFITS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/ccfits-2.6-mtpmok3zfo7hozpsx5s4jlpst5lavtbk} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cdhit/4.8.1 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cdhit/4.8.1 new file mode 100644 index 00000000..e012d864 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cdhit/4.8.1 @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:29.830389 +## +## cdhit@4.8.1%gcc@13.2.0+openmp+zlib build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/jqsqoys +## + + +module-whatis {CD-HIT is a very widely used program for clustering and comparing protein or nucleotide sequences.} + +proc ModulesHelp { } { + puts stderr {Name : cdhit} + puts stderr {Version: 4.8.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {CD-HIT is a very widely used program for clustering and comparing} + puts stderr {protein or nucleotide sequences.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load perl-text-nsp/1.31-6brg4kp +} else { + depends-on perl/5.40.0-lzbctij + depends-on perl-text-nsp/1.31-6brg4kp +} +conflict cdhit + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/cdhit-4.8.1/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/cdhit-4.8.1/.} +setenv CDHIT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/cdhit-4.8.1-jqsqoysxxqd4skt6uift2be54gzdkcw6} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cdo/2.4.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cdo/2.4.0 new file mode 100644 index 00000000..3f4b1d4f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cdo/2.4.0 @@ -0,0 +1,65 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:29.883066 +## +## cdo@2.4.0%gcc@13.2.0~curl~external-grib1+fftw3+hdf5+libxml2~magics+netcdf+openmp+proj+szip+udunits2 build_system=autotools grib2=eccodes arch=linux-ubuntu22.04-x86_64_v3/i6zwypb +## +## Configure options: --with-netcdf=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/netcdf-c-4.9.2-3ysnpt3vuqs7wvcccqd5pfwbou3kpvhb --with-eccodes=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/eccodes-2.34.0-tigyndyy2dwv3tgg5gbkqij4hgzbjg34 --without-grib_api --enable-cgribex --with-szlib=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libaec-1.0.6-j6vsk27rnowtkndtomw3fovt6wwxilya --with-hdf5=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/hdf5-1.14.5-etfjww7ofbv2dfmgkw3zq5zslmxj7n3w --with-udunits2=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/udunits-2.2.28-yrblqxevpegw3rx5mkokoqonjnvc2jqr --with-libxml2=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxml2-2.13.4-bcm4imbjivtlgw4v2opnuvhylpxhhx6s --with-proj=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/proj-9.4.1-uhgpe4fgawqsu36gynqmpwnuogt674l3 --without-curl --without-magics --with-fftw3 --enable-openmp LDFLAGS=-L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/hdf5-1.14.5-etfjww7ofbv2dfmgkw3zq5zslmxj7n3w/lib +## + + +module-whatis {CDO is a collection of command line Operators to manipulate and analyse Climate and NWP model Data. } + +proc ModulesHelp { } { + puts stderr {Name : cdo} + puts stderr {Version: 2.4.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {CDO is a collection of command line Operators to manipulate and analyse} + puts stderr {Climate and NWP model Data.} +} + +conflict cdo + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/cdo-2.4.0/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/cdo-2.4.0/.} +setenv CDO_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/cdo-2.4.0-i6zwypbsugvbmmqftloq26hu7usc6atl} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/censor-norb/4.2.30 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/censor-norb/4.2.30 new file mode 100644 index 00000000..9cb00bbf --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/censor-norb/4.2.30 @@ -0,0 +1,76 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:30.098270 +## +## censor-norb@4.2.30%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/lro6hon +## + + +module-whatis {censor compares and masks protein or nucleotide sequences.} + +proc ModulesHelp { } { + puts stderr {Name : censor-norb} + puts stderr {Version: 4.2.30} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {censor compares and masks protein or nucleotide sequences.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load ncbi-rmblastn/2.14.0 + module load perl/5.40.0-lzbctij + module load perl-bioperl/1.7.8-t2wyx73 +} else { + depends-on ncbi-rmblastn/2.14.0 + depends-on perl/5.40.0-lzbctij + depends-on perl-bioperl/1.7.8-t2wyx73 +} +conflict censor-norb + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/censor-norb-4.2.30/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/censor-norb-4.2.30/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/censor-norb-4.2.30/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/censor-norb-4.2.30/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/censor-norb-4.2.30/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/censor-norb-4.2.30/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/perl-5.40.0/lib/perl5} +setenv CENSOR_NORB_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/censor-norb-4.2.30-lro6honaij2dd2la734z6bftcy43totp} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cfitsio/4.4.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cfitsio/4.4.0 new file mode 100644 index 00000000..105bf156 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cfitsio/4.4.0 @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:31.096471 +## +## cfitsio@4.4.0%gcc@13.2.0+bzip2+shared build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/rece4hu +## +## Configure options: --with-bzip2=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/bzip2-1.0.8-qknztbakgnayrsc4iql53yss5tv4yslr +## + + +module-whatis {CFITSIO is a library of C and Fortran subroutines for reading and writing data files in FITS (Flexible Image Transport System) data format. } + +proc ModulesHelp { } { + puts stderr {Name : cfitsio} + puts stderr {Version: 4.4.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {CFITSIO is a library of C and Fortran subroutines for reading and} + puts stderr {writing data files in FITS (Flexible Image Transport System) data} + puts stderr {format.} +} + +conflict cfitsio + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/cfitsio-4.4.0/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/cfitsio-4.4.0/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/cfitsio-4.4.0/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/cfitsio-4.4.0/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/cfitsio-4.4.0/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/cfitsio-4.4.0/.} +setenv CFITSIO_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/cfitsio-4.4.0-rece4hu6icau273v3ecallorxeuowbup} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cgal/5.4.1 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cgal/5.4.1 new file mode 100644 index 00000000..94ecbaa9 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cgal/5.4.1 @@ -0,0 +1,75 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:31.113240 +## +## cgal@5.4.1%gcc@13.2.0~core~demos+eigen~header_only~imageio~ipo+shared build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/p3u4fhi +## +## Configure options: -DBUILD_SHARED_LIBS:BOOL=True -DWITH_CGAL_Core:BOOL=False -DWITH_CGAL_ImageIO:BOOL=False -DWITH_CGAL_Qt5:BOOL=False -DCGAL_HEADER_ONLY:BOOL=False +## + + +module-whatis {The Computational Geometry Algorithms Library (CGAL) is a C++ library that aims to provide easy access to efficient and reliable algorithms in computational geometry. CGAL is used in various areas needing geometric computation, such as geographic information systems, computer aided design, molecular biology, medical imaging, computer graphics, and robotics. } + +proc ModulesHelp { } { + puts stderr {Name : cgal} + puts stderr {Version: 5.4.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The Computational Geometry Algorithms Library (CGAL) is a C++ library} + puts stderr {that aims to provide easy access to efficient and reliable algorithms in} + puts stderr {computational geometry. CGAL is used in various areas needing geometric} + puts stderr {computation, such as geographic information systems, computer aided} + puts stderr {design, molecular biology, medical imaging, computer graphics, and} + puts stderr {robotics.} +} + +conflict cgal + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/cgal-5.4.1/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/cgal-5.4.1/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/cgal-5.4.1/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/cgal-5.4.1/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/cgal-5.4.1/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/cgal-5.4.1/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/cgal-5.4.1/.} +setenv CGAL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/cgal-5.4.1-p3u4fhiq53ozchan2xeflcggxu3ill5v} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/circos/0.69-9 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/circos/0.69-9 new file mode 100644 index 00000000..93e833fc --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/circos/0.69-9 @@ -0,0 +1,102 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:31.320976 +## +## circos@0.69-9%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/a4sqlya +## + + +module-whatis {Circos is a software package for visualizing data and information.} + +proc ModulesHelp { } { + puts stderr {Name : circos} + puts stderr {Version: 0.69-9} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Circos is a software package for visualizing data and information.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load perl-clone/0.46-3guhici + module load perl-config-general/2.65-zdwg3mj + module load perl-exporter-tiny/1.006002-37txk54 + module load perl-font-ttf/1.06-524am4m + module load perl-gd/2.81-smc3lei + module load perl-io-string/1.08-uc43fnq + module load perl-list-moreutils/0.430-gt3gh55 + module load perl-math-bezier/0.01-kr6ht2v + module load perl-math-round/0.07-t2wwkqh + module load perl-math-vecstat/0.08-2pawj3b + module load perl-params-validate/1.31-ujltxgf + module load perl-readonly/2.05-kpq5e6g + module load perl-regexp-common/2017060201-4ucoqrk + module load perl-set-intspan/1.19-dadq6pg + module load perl-statistics-basic/1.6611-265wn7q + module load perl-svg/2.87-mcus2f5 + module load perl-text-format/0.62-qv2xewz +} else { + depends-on perl/5.40.0-lzbctij + depends-on perl-clone/0.46-3guhici + depends-on perl-config-general/2.65-zdwg3mj + depends-on perl-exporter-tiny/1.006002-37txk54 + depends-on perl-font-ttf/1.06-524am4m + depends-on perl-gd/2.81-smc3lei + depends-on perl-io-string/1.08-uc43fnq + depends-on perl-list-moreutils/0.430-gt3gh55 + depends-on perl-math-bezier/0.01-kr6ht2v + depends-on perl-math-round/0.07-t2wwkqh + depends-on perl-math-vecstat/0.08-2pawj3b + depends-on perl-params-validate/1.31-ujltxgf + depends-on perl-readonly/2.05-kpq5e6g + depends-on perl-regexp-common/2017060201-4ucoqrk + depends-on perl-set-intspan/1.19-dadq6pg + depends-on perl-statistics-basic/1.6611-265wn7q + depends-on perl-svg/2.87-mcus2f5 + depends-on perl-text-format/0.62-qv2xewz +} +conflict circos + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/circos-0.69-9/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/circos-0.69-9/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/circos-0.69-9/.} +setenv CIRCOS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/circos-0.69-9-a4sqlyatj3e7rzjetmbuhkwqj6bqjycd} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/clang/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/clang/.modulerc new file mode 100644 index 00000000..81a40262 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/clang/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded clang/14.0.6-agpjego +module-hide --soft --hidden-loaded clang/16.0.6-lmruzc6 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/clang/14.0.6 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/clang/14.0.6 new file mode 100644 index 00000000..48626bd6 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/clang/14.0.6 @@ -0,0 +1,78 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:46.214423 +## +## llvm@14.0.6%gcc@11.4.0+clang~cuda+flang+gold+libomptarget~libomptarget_debug~link_llvm_dylib+lld+lldb+llvm_dylib+lua~mlir+polly~python~split_dwarf~z3 build_system=cmake build_type=Release compiler-rt=runtime generator=ninja libcxx=runtime libunwind=runtime openmp=runtime patches=1f42874,25bc503,6379168,8248141,b216cff,cb8e645 shlib_symbol_version=none targets=all version_suffix=none arch=linux-ubuntu22.04-x86_64_v3/uxi5lpt +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {The LLVM Project is a collection of modular and reusable compiler and toolchain technologies. Despite its name, LLVM has little to do with traditional virtual machines, though it does provide helpful libraries that can be used to build them. The name 'LLVM' itself is not an acronym; it is the full name of the project. } + +proc ModulesHelp { } { + puts stderr {Name : llvm} + puts stderr {Version: 14.0.6} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The LLVM Project is a collection of modular and reusable compiler and} + puts stderr {toolchain technologies. Despite its name, LLVM has little to do with} + puts stderr {traditional virtual machines, though it does provide helpful libraries} + puts stderr {that can be used to build them. The name "LLVM" itself is not an} + puts stderr {acronym; it is the full name of the project.} +} + +conflict llvm + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-14.0.6/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-14.0.6/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-14.0.6/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-14.0.6/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-14.0.6/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-14.0.6/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-14.0.6/.} +setenv CC {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-14.0.6/bin/clang} +setenv CXX {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-14.0.6/bin/clang++} +setenv FC {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-14.0.6/bin/flang} +setenv F77 {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-14.0.6/bin/flang} +setenv LLVM_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-14.0.6} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/clang/14.0.6-agpjego b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/clang/14.0.6-agpjego new file mode 100644 index 00000000..2feb17ea --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/clang/14.0.6-agpjego @@ -0,0 +1,78 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:46.232762 +## +## llvm@14.0.6%gcc@13.2.0+clang~cuda+flang+gold+libomptarget~libomptarget_debug~link_llvm_dylib+lld+lldb+llvm_dylib+lua~mlir+polly~python~split_dwarf~z3 build_system=cmake build_type=Release compiler-rt=runtime generator=ninja libcxx=runtime libunwind=runtime openmp=runtime patches=1f42874,25bc503,6379168,8248141,b216cff,cb8e645 shlib_symbol_version=none targets=all version_suffix=none arch=linux-ubuntu22.04-x86_64_v3/agpjego +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {The LLVM Project is a collection of modular and reusable compiler and toolchain technologies. Despite its name, LLVM has little to do with traditional virtual machines, though it does provide helpful libraries that can be used to build them. The name 'LLVM' itself is not an acronym; it is the full name of the project. } + +proc ModulesHelp { } { + puts stderr {Name : llvm} + puts stderr {Version: 14.0.6} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The LLVM Project is a collection of modular and reusable compiler and} + puts stderr {toolchain technologies. Despite its name, LLVM has little to do with} + puts stderr {traditional virtual machines, though it does provide helpful libraries} + puts stderr {that can be used to build them. The name "LLVM" itself is not an} + puts stderr {acronym; it is the full name of the project.} +} + +conflict llvm + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-14.0.6/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-14.0.6/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-14.0.6/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-14.0.6/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-14.0.6/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-14.0.6/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-14.0.6/.} +setenv CC {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-14.0.6/bin/clang} +setenv CXX {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-14.0.6/bin/clang++} +setenv FC {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-14.0.6/bin/flang} +setenv F77 {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-14.0.6/bin/flang} +setenv LLVM_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-14.0.6} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/clang/16.0.6 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/clang/16.0.6 new file mode 100644 index 00000000..6578e041 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/clang/16.0.6 @@ -0,0 +1,78 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:46.251650 +## +## llvm@16.0.6%gcc@11.4.0+clang~cuda+flang+gold+libomptarget~libomptarget_debug~link_llvm_dylib+lld+lldb+llvm_dylib+lua~mlir+polly~python~split_dwarf~z3~zstd build_system=cmake build_type=Release compiler-rt=runtime generator=ninja libcxx=runtime libunwind=runtime openmp=runtime shlib_symbol_version=none targets=all version_suffix=none arch=linux-ubuntu22.04-x86_64_v3/2wxl3kq +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {The LLVM Project is a collection of modular and reusable compiler and toolchain technologies. Despite its name, LLVM has little to do with traditional virtual machines, though it does provide helpful libraries that can be used to build them. The name 'LLVM' itself is not an acronym; it is the full name of the project. } + +proc ModulesHelp { } { + puts stderr {Name : llvm} + puts stderr {Version: 16.0.6} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The LLVM Project is a collection of modular and reusable compiler and} + puts stderr {toolchain technologies. Despite its name, LLVM has little to do with} + puts stderr {traditional virtual machines, though it does provide helpful libraries} + puts stderr {that can be used to build them. The name "LLVM" itself is not an} + puts stderr {acronym; it is the full name of the project.} +} + +conflict llvm + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-16.0.6/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-16.0.6/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-16.0.6/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-16.0.6/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-16.0.6/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-16.0.6/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-16.0.6/.} +setenv CC {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-16.0.6/bin/clang} +setenv CXX {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-16.0.6/bin/clang++} +setenv FC {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-16.0.6/bin/flang} +setenv F77 {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-16.0.6/bin/flang} +setenv LLVM_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-16.0.6} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/clang/16.0.6-lmruzc6 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/clang/16.0.6-lmruzc6 new file mode 100644 index 00000000..d5cad20c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/clang/16.0.6-lmruzc6 @@ -0,0 +1,78 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:46.256653 +## +## llvm@16.0.6%gcc@13.2.0+clang~cuda+flang+gold+libomptarget~libomptarget_debug~link_llvm_dylib+lld+lldb+llvm_dylib+lua~mlir+polly~python~split_dwarf~z3~zstd build_system=cmake build_type=Release compiler-rt=runtime generator=ninja libcxx=runtime libunwind=runtime openmp=runtime shlib_symbol_version=none targets=all version_suffix=none arch=linux-ubuntu22.04-x86_64_v3/lmruzc6 +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {The LLVM Project is a collection of modular and reusable compiler and toolchain technologies. Despite its name, LLVM has little to do with traditional virtual machines, though it does provide helpful libraries that can be used to build them. The name 'LLVM' itself is not an acronym; it is the full name of the project. } + +proc ModulesHelp { } { + puts stderr {Name : llvm} + puts stderr {Version: 16.0.6} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The LLVM Project is a collection of modular and reusable compiler and} + puts stderr {toolchain technologies. Despite its name, LLVM has little to do with} + puts stderr {traditional virtual machines, though it does provide helpful libraries} + puts stderr {that can be used to build them. The name "LLVM" itself is not an} + puts stderr {acronym; it is the full name of the project.} +} + +conflict llvm + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-16.0.6/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-16.0.6/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-16.0.6/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-16.0.6/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-16.0.6/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-16.0.6/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-16.0.6/.} +setenv CC {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-16.0.6/bin/clang} +setenv CXX {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-16.0.6/bin/clang++} +setenv FC {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-16.0.6/bin/flang} +setenv F77 {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-16.0.6/bin/flang} +setenv LLVM_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-16.0.6} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/clang/19.1.3 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/clang/19.1.3 new file mode 100644 index 00000000..f10db00a --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/clang/19.1.3 @@ -0,0 +1,78 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:46.262503 +## +## llvm@19.1.3%gcc@11.4.0+clang~cuda+flang+gold+libomptarget~libomptarget_debug~link_llvm_dylib+lld+lldb+llvm_dylib+lua~mlir+offload+polly~python~split_dwarf~z3~zstd build_system=cmake build_type=Release compiler-rt=runtime generator=ninja libcxx=runtime libunwind=runtime openmp=runtime shlib_symbol_version=none targets=all version_suffix=none arch=linux-ubuntu22.04-x86_64_v3/hoo65mi +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {The LLVM Project is a collection of modular and reusable compiler and toolchain technologies. Despite its name, LLVM has little to do with traditional virtual machines, though it does provide helpful libraries that can be used to build them. The name 'LLVM' itself is not an acronym; it is the full name of the project. } + +proc ModulesHelp { } { + puts stderr {Name : llvm} + puts stderr {Version: 19.1.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The LLVM Project is a collection of modular and reusable compiler and} + puts stderr {toolchain technologies. Despite its name, LLVM has little to do with} + puts stderr {traditional virtual machines, though it does provide helpful libraries} + puts stderr {that can be used to build them. The name "LLVM" itself is not an} + puts stderr {acronym; it is the full name of the project.} +} + +conflict llvm + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-19.1.3/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-19.1.3/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-19.1.3/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-19.1.3/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-19.1.3/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-19.1.3/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-19.1.3/.} +setenv CC {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-19.1.3/bin/clang} +setenv CXX {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-19.1.3/bin/clang++} +setenv FC {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-19.1.3/bin/flang} +setenv F77 {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-19.1.3/bin/flang} +setenv LLVM_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/clang-19.1.3} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/clhep/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/clhep/.modulerc new file mode 100644 index 00000000..86b9ef05 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/clhep/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded clhep/2.4.7.1-diuh2pk diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/clhep/2.4.7.1-diuh2pk b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/clhep/2.4.7.1-diuh2pk new file mode 100644 index 00000000..64d71194 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/clhep/2.4.7.1-diuh2pk @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:31.767294 +## +## clhep@2.4.7.1%gcc@13.2.0~cms~ipo build_system=cmake build_type=Release cxxstd=17 generator=make arch=linux-ubuntu22.04-x86_64_v3/diuh2pk +## +## Configure options: -DCLHEP_BUILD_CXXSTD=-std=c++17 +## + + +module-whatis {CLHEP is a C++ Class Library for High Energy Physics.} + +proc ModulesHelp { } { + puts stderr {Name : clhep} + puts stderr {Version: 2.4.7.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {CLHEP is a C++ Class Library for High Energy Physics.} +} + +conflict clhep + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/clhep-2.4.7.1-diuh2pkpnnfhso4jju64zok3e3pctbz4/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/clhep-2.4.7.1-diuh2pkpnnfhso4jju64zok3e3pctbz4/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/clhep-2.4.7.1-diuh2pkpnnfhso4jju64zok3e3pctbz4/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/clhep-2.4.7.1-diuh2pkpnnfhso4jju64zok3e3pctbz4/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/clhep-2.4.7.1-diuh2pkpnnfhso4jju64zok3e3pctbz4/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/clhep-2.4.7.1-diuh2pkpnnfhso4jju64zok3e3pctbz4/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/clhep-2.4.7.1-diuh2pkpnnfhso4jju64zok3e3pctbz4/.} +setenv CLHEP_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/clhep-2.4.7.1-diuh2pkpnnfhso4jju64zok3e3pctbz4} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cli11/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cli11/.modulerc new file mode 100644 index 00000000..a5ad6196 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cli11/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded cli11/1.9.1-df4ibzu diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cli11/1.9.1-df4ibzu b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cli11/1.9.1-df4ibzu new file mode 100644 index 00000000..e1e741f4 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cli11/1.9.1-df4ibzu @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:31.790200 +## +## cli11@1.9.1%gcc@11.4.0~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/df4ibzu +## +## Configure options: -DCLI11_BUILD_EXAMPLES:BOOL=OFF -DCLI11_BUILD_DOCS:BOOL=OFF -DCLI11_BUILD_TESTS:BOOL=OFF -DCLI11_PRECOMPILED:BOOL=ON +## + + +module-whatis {CLI11 is a command line parser for C++11 and beyond that provides a rich feature set with a simple and intuitive interface.} + +proc ModulesHelp { } { + puts stderr {Name : cli11} + puts stderr {Version: 1.9.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {CLI11 is a command line parser for C++11 and beyond that provides a rich} + puts stderr {feature set with a simple and intuitive interface.} +} + +conflict cli11 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/cli11-1.9.1-df4ibzukz6zosdpf2wd4ok42g3k3m6hj/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/cli11-1.9.1-df4ibzukz6zosdpf2wd4ok42g3k3m6hj/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/cli11-1.9.1-df4ibzukz6zosdpf2wd4ok42g3k3m6hj/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/cli11-1.9.1-df4ibzukz6zosdpf2wd4ok42g3k3m6hj/include} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/cli11-1.9.1-df4ibzukz6zosdpf2wd4ok42g3k3m6hj/.} +setenv CLI11_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/cli11-1.9.1-df4ibzukz6zosdpf2wd4ok42g3k3m6hj} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/clp/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/clp/.modulerc new file mode 100644 index 00000000..5e801f59 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/clp/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded clp/1.17.9-ijbp534 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/clp/1.17.9-ijbp534 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/clp/1.17.9-ijbp534 new file mode 100644 index 00000000..ae620077 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/clp/1.17.9-ijbp534 @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:31.811822 +## +## clp@1.17.9%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/ijbp534 +## + + +module-whatis {Clp (Coin-or linear programming) is an open-source linear programming solver written in C++.} + +proc ModulesHelp { } { + puts stderr {Name : clp} + puts stderr {Version: 1.17.9} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Clp (Coin-or linear programming) is an open-source linear programming} + puts stderr {solver written in C++.} +} + +conflict clp + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/clp-1.17.9-ijbp534z3u3k5rkk3cyvdizloxmo6ndp/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/clp-1.17.9-ijbp534z3u3k5rkk3cyvdizloxmo6ndp/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/clp-1.17.9-ijbp534z3u3k5rkk3cyvdizloxmo6ndp/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/clp-1.17.9-ijbp534z3u3k5rkk3cyvdizloxmo6ndp/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/clp-1.17.9-ijbp534z3u3k5rkk3cyvdizloxmo6ndp/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/clp-1.17.9-ijbp534z3u3k5rkk3cyvdizloxmo6ndp/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/clp-1.17.9-ijbp534z3u3k5rkk3cyvdizloxmo6ndp/.} +setenv CLP_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/clp-1.17.9-ijbp534z3u3k5rkk3cyvdizloxmo6ndp} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/clustal-omega/1.2.4 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/clustal-omega/1.2.4 new file mode 100644 index 00000000..4f598bf0 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/clustal-omega/1.2.4 @@ -0,0 +1,67 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:31.862923 +## +## clustal-omega@1.2.4%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/xaawrlw +## + + +module-whatis {Clustal Omega: the last alignment program you'll ever need.} + +proc ModulesHelp { } { + puts stderr {Name : clustal-omega} + puts stderr {Version: 1.2.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Clustal Omega: the last alignment program you'll ever need.} +} + +conflict clustal-omega + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/clustal-omega-1.2.4/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/clustal-omega-1.2.4/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/clustal-omega-1.2.4/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/clustal-omega-1.2.4/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/clustal-omega-1.2.4/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/clustal-omega-1.2.4/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/clustal-omega-1.2.4/.} +setenv CLUSTAL_OMEGA_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/clustal-omega-1.2.4-xaawrlwmz5kentkregcdy3viutmleasl} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/clustalw/2.1 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/clustalw/2.1 new file mode 100644 index 00000000..15f18725 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/clustalw/2.1 @@ -0,0 +1,63 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:31.885768 +## +## clustalw@2.1%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/yfvprd2 +## + + +module-whatis {Multiple alignment of nucleic acid and protein sequences.} + +proc ModulesHelp { } { + puts stderr {Name : clustalw} + puts stderr {Version: 2.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Multiple alignment of nucleic acid and protein sequences.} +} + +conflict clustalw + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/clustalw-2.1/bin} +prepend-path ACLOCAL_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/clustalw-2.1/share/aclocal} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/clustalw-2.1/.} +setenv CLUSTALW_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/clustalw-2.1-yfvprd2wd6bwn4eup64vrx2uanpg4hwt} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cmake/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cmake/.modulerc new file mode 100644 index 00000000..7f8d15ff --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cmake/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded cmake/3.30.5-vbs4dsr +module-hide --soft --hidden-loaded cmake/3.30.5-xx2cy46 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cmake/3.10.3 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cmake/3.10.3 new file mode 100644 index 00000000..8b02c743 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cmake/3.10.3 @@ -0,0 +1,64 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:31.963452 +## +## cmake@3.10.3%gcc@13.2.0~doc+ncurses+ownlibs~qtgui build_system=generic build_type=Release patches=1c54004,dd3a40d arch=linux-ubuntu22.04-x86_64_v3/ede66yb +## + + +module-whatis {A cross-platform, open-source build system. CMake is a family of tools designed to build, test and package software. } + +proc ModulesHelp { } { + puts stderr {Name : cmake} + puts stderr {Version: 3.10.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A cross-platform, open-source build system. CMake is a family of tools} + puts stderr {designed to build, test and package software.} +} + +conflict cmake + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/cmake-3.10.3/bin} +prepend-path ACLOCAL_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/cmake-3.10.3/share/aclocal} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/cmake-3.10.3/.} +setenv CMAKE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/cmake-3.10.3-ede66ybvo4yueevn3xp4dpscn6ggw3q4} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cmake/3.16.9 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cmake/3.16.9 new file mode 100644 index 00000000..5a277937 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cmake/3.16.9 @@ -0,0 +1,64 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:31.991127 +## +## cmake@3.16.9%gcc@13.2.0~doc+ncurses+ownlibs~qtgui build_system=generic build_type=Release patches=1c54004,bf695e3 arch=linux-ubuntu22.04-x86_64_v3/7q64qkl +## + + +module-whatis {A cross-platform, open-source build system. CMake is a family of tools designed to build, test and package software. } + +proc ModulesHelp { } { + puts stderr {Name : cmake} + puts stderr {Version: 3.16.9} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A cross-platform, open-source build system. CMake is a family of tools} + puts stderr {designed to build, test and package software.} +} + +conflict cmake + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/cmake-3.16.9/bin} +prepend-path ACLOCAL_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/cmake-3.16.9/share/aclocal} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/cmake-3.16.9/.} +setenv CMAKE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/cmake-3.16.9-7q64qklt3mbin4nunq6owooqtnnimms2} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cmake/3.28.1 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cmake/3.28.1 new file mode 100644 index 00000000..fa8bb162 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cmake/3.28.1 @@ -0,0 +1,64 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:32.019097 +## +## cmake@3.28.1%gcc@13.2.0~doc+ncurses+ownlibs~qtgui build_system=generic build_type=Release patches=dbc3892 arch=linux-ubuntu22.04-x86_64_v3/pm5f36g +## + + +module-whatis {A cross-platform, open-source build system. CMake is a family of tools designed to build, test and package software. } + +proc ModulesHelp { } { + puts stderr {Name : cmake} + puts stderr {Version: 3.28.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A cross-platform, open-source build system. CMake is a family of tools} + puts stderr {designed to build, test and package software.} +} + +conflict cmake + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/cmake-3.28.1/bin} +prepend-path ACLOCAL_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/cmake-3.28.1/share/aclocal} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/cmake-3.28.1/.} +setenv CMAKE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/cmake-3.28.1-pm5f36g7jmvp4nkqlvw75kbpbvhowomi} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cmake/3.3.1 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cmake/3.3.1 new file mode 100644 index 00000000..19b65c57 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cmake/3.3.1 @@ -0,0 +1,64 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:31.921635 +## +## cmake@3.3.1%gcc@13.2.0~doc+ncurses+ownlibs~qtgui build_system=generic build_type=Release arch=linux-ubuntu22.04-x86_64_v3/r6dfnlo +## + + +module-whatis {A cross-platform, open-source build system. CMake is a family of tools designed to build, test and package software. } + +proc ModulesHelp { } { + puts stderr {Name : cmake} + puts stderr {Version: 3.3.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A cross-platform, open-source build system. CMake is a family of tools} + puts stderr {designed to build, test and package software.} +} + +conflict cmake + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/cmake-3.3.1/bin} +prepend-path ACLOCAL_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/cmake-3.3.1/share/aclocal} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/cmake-3.3.1/.} +setenv CMAKE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/cmake-3.3.1-r6dfnlokgvfjocn6nxlq4n35abghqc33} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cmake/3.30.5-vbs4dsr b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cmake/3.30.5-vbs4dsr new file mode 100644 index 00000000..460c076e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cmake/3.30.5-vbs4dsr @@ -0,0 +1,64 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:32.148841 +## +## cmake@3.30.5%gcc@13.2.0~doc+ncurses+ownlibs~qtgui build_system=generic build_type=Release patches=dbc3892 arch=linux-ubuntu22.04-x86_64_v3/vbs4dsr +## + + +module-whatis {A cross-platform, open-source build system. CMake is a family of tools designed to build, test and package software. } + +proc ModulesHelp { } { + puts stderr {Name : cmake} + puts stderr {Version: 3.30.5} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A cross-platform, open-source build system. CMake is a family of tools} + puts stderr {designed to build, test and package software.} +} + +conflict cmake + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/cmake-3.30.5-vbs4dsr3l6ojatoxwdrzexlmeg3m4j57/bin} +prepend-path ACLOCAL_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/cmake-3.30.5-vbs4dsr3l6ojatoxwdrzexlmeg3m4j57/share/aclocal} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/cmake-3.30.5-vbs4dsr3l6ojatoxwdrzexlmeg3m4j57/.} +setenv CMAKE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/cmake-3.30.5-vbs4dsr3l6ojatoxwdrzexlmeg3m4j57} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cmake/3.30.5-xx2cy46 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cmake/3.30.5-xx2cy46 new file mode 100644 index 00000000..5aab294a --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cmake/3.30.5-xx2cy46 @@ -0,0 +1,64 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:32.047411 +## +## cmake@3.30.5%gcc@7.5.0~doc+ncurses+ownlibs~qtgui build_system=generic build_type=Release patches=dbc3892 arch=linux-ubuntu22.04-x86_64_v3/xx2cy46 +## + + +module-whatis {A cross-platform, open-source build system. CMake is a family of tools designed to build, test and package software. } + +proc ModulesHelp { } { + puts stderr {Name : cmake} + puts stderr {Version: 3.30.5} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A cross-platform, open-source build system. CMake is a family of tools} + puts stderr {designed to build, test and package software.} +} + +conflict cmake + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/cmake-3.30.5-xx2cy46i2d7ii44yun4vpukmgfinzcle/bin} +prepend-path ACLOCAL_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/cmake-3.30.5-xx2cy46i2d7ii44yun4vpukmgfinzcle/share/aclocal} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/cmake-3.30.5-xx2cy46i2d7ii44yun4vpukmgfinzcle/.} +setenv CMAKE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/cmake-3.30.5-xx2cy46i2d7ii44yun4vpukmgfinzcle} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/code-server/4.12.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/code-server/4.12.0 new file mode 100644 index 00000000..aa841d49 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/code-server/4.12.0 @@ -0,0 +1,64 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:32.187511 +## +## code-server@4.12.0%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/sdphvwb +## + + +module-whatis {code-server is VS Code running on a remote server, accessible through the browser.} + +proc ModulesHelp { } { + puts stderr {Name : code-server} + puts stderr {Version: 4.12.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {code-server is VS Code running on a remote server, accessible through} + puts stderr {the browser.} +} + +conflict code-server + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/code-server-4.12.0/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/code-server-4.12.0/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/code-server-4.12.0/.} +setenv CODE_SERVER_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/code-server-4.12.0-sdphvwbljgeh3rwaov7ezi6rkkncwytg} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/coinutils/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/coinutils/.modulerc new file mode 100644 index 00000000..589a0380 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/coinutils/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded coinutils/2.11.10-dpqvgvg diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/coinutils/2.11.10-dpqvgvg b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/coinutils/2.11.10-dpqvgvg new file mode 100644 index 00000000..37baa8d7 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/coinutils/2.11.10-dpqvgvg @@ -0,0 +1,67 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:32.209614 +## +## coinutils@2.11.10%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/dpqvgvg +## + + +module-whatis {CoinUtils is an open-source collection of classes and helper functions that are generally useful to multiple COIN-OR projects.} + +proc ModulesHelp { } { + puts stderr {Name : coinutils} + puts stderr {Version: 2.11.10} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {CoinUtils is an open-source collection of classes and helper functions} + puts stderr {that are generally useful to multiple COIN-OR projects.} +} + +conflict coinutils + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/coinutils-2.11.10-dpqvgvgnf3k76vsfo7mw6xrfmdcc7tx3/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/coinutils-2.11.10-dpqvgvgnf3k76vsfo7mw6xrfmdcc7tx3/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/coinutils-2.11.10-dpqvgvgnf3k76vsfo7mw6xrfmdcc7tx3/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/coinutils-2.11.10-dpqvgvgnf3k76vsfo7mw6xrfmdcc7tx3/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/coinutils-2.11.10-dpqvgvgnf3k76vsfo7mw6xrfmdcc7tx3/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/coinutils-2.11.10-dpqvgvgnf3k76vsfo7mw6xrfmdcc7tx3/.} +setenv COINUTILS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/coinutils-2.11.10-dpqvgvgnf3k76vsfo7mw6xrfmdcc7tx3} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/conmon/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/conmon/.modulerc new file mode 100644 index 00000000..2bf7dbfb --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/conmon/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded conmon/2.1.12-ozk6xfz diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/conmon/2.1.12-ozk6xfz b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/conmon/2.1.12-ozk6xfz new file mode 100644 index 00000000..55c00a13 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/conmon/2.1.12-ozk6xfz @@ -0,0 +1,64 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:32.217615 +## +## conmon@2.1.12%gcc@13.2.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/ozk6xfz +## + + +module-whatis {An OCI container runtime monitor} + +proc ModulesHelp { } { + puts stderr {Name : conmon} + puts stderr {Version: 2.1.12} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {An OCI container runtime monitor} +} + +conflict conmon + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/conmon-2.1.12-ozk6xfzm7tjrr6m5nlq2fxwiav47uwum/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/conmon-2.1.12-ozk6xfzm7tjrr6m5nlq2fxwiav47uwum/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/conmon-2.1.12-ozk6xfzm7tjrr6m5nlq2fxwiav47uwum/.} +setenv CONMON_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/conmon-2.1.12-ozk6xfzm7tjrr6m5nlq2fxwiav47uwum} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/corset/1.09 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/corset/1.09 new file mode 100644 index 00000000..c08af708 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/corset/1.09 @@ -0,0 +1,63 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:32.236083 +## +## corset@1.09%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/ghwau6t +## + + +module-whatis {Corset is a command-line software program to go from a de novo transcriptome assembly to gene-level counts.} + +proc ModulesHelp { } { + puts stderr {Name : corset} + puts stderr {Version: 1.09} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Corset is a command-line software program to go from a de novo} + puts stderr {transcriptome assembly to gene-level counts.} +} + +conflict corset + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/corset-1.09/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/corset-1.09/.} +setenv CORSET_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/corset-1.09-ghwau6t72ak7f5baxbzleeyh7m7qn7g6} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cp2k/2024.1 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cp2k/2024.1 new file mode 100644 index 00000000..3d797935 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cp2k/2024.1 @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:32.586050 +## +## cp2k@2024.1%gcc@13.2.0+cuda~cuda_arch_35_k20x~cuda_fft~enable_regtests+libint~libvori+libxc~mpi~mpi_f08+openmp~plumed~pytorch~quip~rocm~spglib~spla build_system=makefile cuda_arch=70 lmax=5 smm=libxsmm arch=linux-ubuntu22.04-x86_64_v3/txfqzan +## + + +module-whatis {CP2K is a quantum chemistry and solid state physics software package that can perform atomistic simulations of solid state, liquid, molecular, periodic, material, crystal, and biological systems } + +proc ModulesHelp { } { + puts stderr {Name : cp2k} + puts stderr {Version: 2024.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {CP2K is a quantum chemistry and solid state physics software package} + puts stderr {that can perform atomistic simulations of solid state, liquid,} + puts stderr {molecular, periodic, material, crystal, and biological systems} +} + +conflict cp2k + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/cp2k-2024.1/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/cp2k-2024.1/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/cp2k-2024.1/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/cp2k-2024.1/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/cp2k-2024.1/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/cp2k-2024.1/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/cp2k-2024.1/.} +setenv CP2K_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/cp2k-2024.1-txfqzanvvhl5bdzsmhge3jwyizytpgk5} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cuda/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cuda/.modulerc new file mode 100644 index 00000000..b2c70ae4 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cuda/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded cuda/11.7.1-nrj6ush diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cuda/10.2.89 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cuda/10.2.89 new file mode 100644 index 00000000..feb0f878 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cuda/10.2.89 @@ -0,0 +1,75 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:32.932289 +## +## cuda@10.2.89%gcc@13.2.0~allow-unsupported-compilers~dev build_system=generic arch=linux-ubuntu22.04-x86_64_v3/i7xf4tk +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {CUDA is a parallel computing platform and programming model invented by NVIDIA. It enables dramatic increases in computing performance by harnessing the power of the graphics processing unit (GPU).} + +proc ModulesHelp { } { + puts stderr {Name : cuda} + puts stderr {Version: 10.2.89} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {CUDA is a parallel computing platform and programming model invented by} + puts stderr {NVIDIA. It enables dramatic increases in computing performance by} + puts stderr {harnessing the power of the graphics processing unit (GPU). Note: This} + puts stderr {package does not currently install the drivers necessary to run CUDA.} + puts stderr {These will need to be installed manually. See:} + puts stderr {https://docs.nvidia.com/cuda/ for details.} +} + +conflict cuda + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-10.2.89/lib64} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-10.2.89/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-10.2.89/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-10.2.89/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-10.2.89/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-10.2.89/.} +setenv CUDA_HOME {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-10.2.89} +setenv NVHPC_CUDA_HOME {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-10.2.89} +setenv CUDA_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-10.2.89} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cuda/11.2.2 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cuda/11.2.2 new file mode 100644 index 00000000..fe5485c9 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cuda/11.2.2 @@ -0,0 +1,75 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:32.951485 +## +## cuda@11.2.2%gcc@13.2.0~allow-unsupported-compilers~dev build_system=generic arch=linux-ubuntu22.04-x86_64_v3/iycg2gt +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {CUDA is a parallel computing platform and programming model invented by NVIDIA. It enables dramatic increases in computing performance by harnessing the power of the graphics processing unit (GPU).} + +proc ModulesHelp { } { + puts stderr {Name : cuda} + puts stderr {Version: 11.2.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {CUDA is a parallel computing platform and programming model invented by} + puts stderr {NVIDIA. It enables dramatic increases in computing performance by} + puts stderr {harnessing the power of the graphics processing unit (GPU). Note: This} + puts stderr {package does not currently install the drivers necessary to run CUDA.} + puts stderr {These will need to be installed manually. See:} + puts stderr {https://docs.nvidia.com/cuda/ for details.} +} + +conflict cuda + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-11.2.2/lib64} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-11.2.2/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-11.2.2/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-11.2.2/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-11.2.2/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-11.2.2/.} +setenv CUDA_HOME {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-11.2.2} +setenv NVHPC_CUDA_HOME {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-11.2.2} +setenv CUDA_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-11.2.2} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cuda/11.7.1 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cuda/11.7.1 new file mode 100644 index 00000000..f8ab207a --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cuda/11.7.1 @@ -0,0 +1,75 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:32.990499 +## +## cuda@11.7.1%gcc@13.2.0~allow-unsupported-compilers~dev build_system=generic arch=linux-ubuntu22.04-x86_64_v3/csb7cyx +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {CUDA is a parallel computing platform and programming model invented by NVIDIA. It enables dramatic increases in computing performance by harnessing the power of the graphics processing unit (GPU).} + +proc ModulesHelp { } { + puts stderr {Name : cuda} + puts stderr {Version: 11.7.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {CUDA is a parallel computing platform and programming model invented by} + puts stderr {NVIDIA. It enables dramatic increases in computing performance by} + puts stderr {harnessing the power of the graphics processing unit (GPU). Note: This} + puts stderr {package does not currently install the drivers necessary to run CUDA.} + puts stderr {These will need to be installed manually. See:} + puts stderr {https://docs.nvidia.com/cuda/ for details.} +} + +conflict cuda + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-11.7.1/lib64} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-11.7.1/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-11.7.1/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-11.7.1/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-11.7.1/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-11.7.1/.} +setenv CUDA_HOME {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-11.7.1} +setenv NVHPC_CUDA_HOME {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-11.7.1} +setenv CUDA_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-11.7.1} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cuda/11.7.1-nrj6ush b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cuda/11.7.1-nrj6ush new file mode 100644 index 00000000..ca00e9fa --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cuda/11.7.1-nrj6ush @@ -0,0 +1,75 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:32.970680 +## +## cuda@11.7.1%gcc@11.4.0~allow-unsupported-compilers~dev build_system=generic arch=linux-ubuntu22.04-x86_64_v3/nrj6ush +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {CUDA is a parallel computing platform and programming model invented by NVIDIA. It enables dramatic increases in computing performance by harnessing the power of the graphics processing unit (GPU).} + +proc ModulesHelp { } { + puts stderr {Name : cuda} + puts stderr {Version: 11.7.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {CUDA is a parallel computing platform and programming model invented by} + puts stderr {NVIDIA. It enables dramatic increases in computing performance by} + puts stderr {harnessing the power of the graphics processing unit (GPU). Note: This} + puts stderr {package does not currently install the drivers necessary to run CUDA.} + puts stderr {These will need to be installed manually. See:} + puts stderr {https://docs.nvidia.com/cuda/ for details.} +} + +conflict cuda + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-11.7.1/lib64} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-11.7.1/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-11.7.1/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-11.7.1/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-11.7.1/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-11.7.1/.} +setenv CUDA_HOME {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-11.7.1} +setenv NVHPC_CUDA_HOME {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-11.7.1} +setenv CUDA_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-11.7.1} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cuda/12.3.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cuda/12.3.0 new file mode 100644 index 00000000..cd9b3ed1 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cuda/12.3.0 @@ -0,0 +1,75 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:33.009462 +## +## cuda@12.3.0%gcc@13.2.0~allow-unsupported-compilers~dev build_system=generic arch=linux-ubuntu22.04-x86_64_v3/j4edmr4 +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {CUDA is a parallel computing platform and programming model invented by NVIDIA. It enables dramatic increases in computing performance by harnessing the power of the graphics processing unit (GPU).} + +proc ModulesHelp { } { + puts stderr {Name : cuda} + puts stderr {Version: 12.3.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {CUDA is a parallel computing platform and programming model invented by} + puts stderr {NVIDIA. It enables dramatic increases in computing performance by} + puts stderr {harnessing the power of the graphics processing unit (GPU). Note: This} + puts stderr {package does not currently install the drivers necessary to run CUDA.} + puts stderr {These will need to be installed manually. See:} + puts stderr {https://docs.nvidia.com/cuda/ for details.} +} + +conflict cuda + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-12.3.0/lib64} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-12.3.0/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-12.3.0/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-12.3.0/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-12.3.0/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-12.3.0/.} +setenv CUDA_HOME {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-12.3.0} +setenv NVHPC_CUDA_HOME {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-12.3.0} +setenv CUDA_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-12.3.0} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cuda/12.6.2 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cuda/12.6.2 new file mode 100644 index 00000000..2c4a86ce --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cuda/12.6.2 @@ -0,0 +1,75 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:33.030076 +## +## cuda@12.6.2%gcc@13.2.0~allow-unsupported-compilers~dev build_system=generic arch=linux-ubuntu22.04-x86_64_v3/4r2och5 +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {CUDA is a parallel computing platform and programming model invented by NVIDIA. It enables dramatic increases in computing performance by harnessing the power of the graphics processing unit (GPU).} + +proc ModulesHelp { } { + puts stderr {Name : cuda} + puts stderr {Version: 12.6.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {CUDA is a parallel computing platform and programming model invented by} + puts stderr {NVIDIA. It enables dramatic increases in computing performance by} + puts stderr {harnessing the power of the graphics processing unit (GPU). Note: This} + puts stderr {package does not currently install the drivers necessary to run CUDA.} + puts stderr {These will need to be installed manually. See:} + puts stderr {https://docs.nvidia.com/cuda/ for details.} +} + +conflict cuda + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-12.6.2/lib64} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-12.6.2/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-12.6.2/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-12.6.2/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-12.6.2/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-12.6.2/.} +setenv CUDA_HOME {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-12.6.2} +setenv NVHPC_CUDA_HOME {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-12.6.2} +setenv CUDA_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-12.6.2} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cuda/8.0.61 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cuda/8.0.61 new file mode 100644 index 00000000..a5e66bf6 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cuda/8.0.61 @@ -0,0 +1,75 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:32.893243 +## +## cuda@8.0.61%gcc@13.2.0~allow-unsupported-compilers~dev build_system=generic arch=linux-ubuntu22.04-x86_64_v3/na6wicg +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {CUDA is a parallel computing platform and programming model invented by NVIDIA. It enables dramatic increases in computing performance by harnessing the power of the graphics processing unit (GPU).} + +proc ModulesHelp { } { + puts stderr {Name : cuda} + puts stderr {Version: 8.0.61} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {CUDA is a parallel computing platform and programming model invented by} + puts stderr {NVIDIA. It enables dramatic increases in computing performance by} + puts stderr {harnessing the power of the graphics processing unit (GPU). Note: This} + puts stderr {package does not currently install the drivers necessary to run CUDA.} + puts stderr {These will need to be installed manually. See:} + puts stderr {https://docs.nvidia.com/cuda/ for details.} +} + +conflict cuda + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-8.0.61/lib64} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-8.0.61/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-8.0.61/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-8.0.61/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-8.0.61/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-8.0.61/.} +setenv CUDA_HOME {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-8.0.61} +setenv NVHPC_CUDA_HOME {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-8.0.61} +setenv CUDA_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-8.0.61} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cuda/9.2.88 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cuda/9.2.88 new file mode 100644 index 00000000..c73c31dd --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cuda/9.2.88 @@ -0,0 +1,75 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:32.913386 +## +## cuda@9.2.88%gcc@13.2.0~allow-unsupported-compilers~dev build_system=generic arch=linux-ubuntu22.04-x86_64_v3/izpuwu7 +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {CUDA is a parallel computing platform and programming model invented by NVIDIA. It enables dramatic increases in computing performance by harnessing the power of the graphics processing unit (GPU).} + +proc ModulesHelp { } { + puts stderr {Name : cuda} + puts stderr {Version: 9.2.88} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {CUDA is a parallel computing platform and programming model invented by} + puts stderr {NVIDIA. It enables dramatic increases in computing performance by} + puts stderr {harnessing the power of the graphics processing unit (GPU). Note: This} + puts stderr {package does not currently install the drivers necessary to run CUDA.} + puts stderr {These will need to be installed manually. See:} + puts stderr {https://docs.nvidia.com/cuda/ for details.} +} + +conflict cuda + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-9.2.88/lib64} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-9.2.88/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-9.2.88/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-9.2.88/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-9.2.88/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-9.2.88/.} +setenv CUDA_HOME {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-9.2.88} +setenv NVHPC_CUDA_HOME {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-9.2.88} +setenv CUDA_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-9.2.88} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cuda/default b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cuda/default new file mode 120000 index 00000000..1e80f151 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cuda/default @@ -0,0 +1 @@ +/cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/cuda/12.3.0 \ No newline at end of file diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cudnn/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cudnn/.modulerc new file mode 100644 index 00000000..e6afe616 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cudnn/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded cudnn/8.9.7.29-12-impkyvb diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cudnn/8.9.7.29-12-impkyvb b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cudnn/8.9.7.29-12-impkyvb new file mode 100644 index 00000000..8c8e8575 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cudnn/8.9.7.29-12-impkyvb @@ -0,0 +1,67 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:33.048851 +## +## cudnn@8.9.7.29-12%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/impkyvb +## + + +module-whatis {NVIDIA cuDNN is a GPU-accelerated library of primitives for deep neural networks} + +proc ModulesHelp { } { + puts stderr {Name : cudnn} + puts stderr {Version: 8.9.7.29-12} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {NVIDIA cuDNN is a GPU-accelerated library of primitives for deep neural} + puts stderr {networks} +} + +conflict cudnn + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/cudnn-8.9.7.29-12-impkyvb333zlls7ut4c6oewpkqt5itlm/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/cudnn-8.9.7.29-12-impkyvb333zlls7ut4c6oewpkqt5itlm/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/cudnn-8.9.7.29-12-impkyvb333zlls7ut4c6oewpkqt5itlm/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/cudnn-8.9.7.29-12-impkyvb333zlls7ut4c6oewpkqt5itlm/include} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/cudnn-8.9.7.29-12-impkyvb333zlls7ut4c6oewpkqt5itlm/.} +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/cudnn-8.9.7.29-12-impkyvb333zlls7ut4c6oewpkqt5itlm/lib} +setenv CUDNN_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/cudnn-8.9.7.29-12-impkyvb333zlls7ut4c6oewpkqt5itlm} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cufflinks/2.2.1 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cufflinks/2.2.1 new file mode 100644 index 00000000..a50fbf52 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cufflinks/2.2.1 @@ -0,0 +1,63 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:33.071444 +## +## cufflinks@2.2.1%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/ualroo6 +## + + +module-whatis {Cufflinks assembles transcripts, estimates their abundances, and tests for differential expression and regulation in RNA-Seq samples.} + +proc ModulesHelp { } { + puts stderr {Name : cufflinks} + puts stderr {Version: 2.2.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Cufflinks assembles transcripts, estimates their abundances, and tests} + puts stderr {for differential expression and regulation in RNA-Seq samples.} +} + +conflict cufflinks + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/cufflinks-2.2.1/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/cufflinks-2.2.1/.} +setenv CUFFLINKS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/cufflinks-2.2.1-ualroo63ub3clsvl7t3d3oitautm3prg} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/curl/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/curl/.modulerc new file mode 100644 index 00000000..e45fb344 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/curl/.modulerc @@ -0,0 +1,6 @@ +#%Module4.7 +module-hide --soft --hidden-loaded curl/8.10.1-kgtuqcf +module-hide --soft --hidden-loaded curl/8.10.1-ayyzogx +module-hide --soft --hidden-loaded curl/8.10.1-i7fultc +module-hide --soft --hidden-loaded curl/8.10.1-shs3wg7 +module-hide --soft --hidden-loaded curl/8.10.1-obo4sob diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/curl/8.10.1-ayyzogx b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/curl/8.10.1-ayyzogx new file mode 100644 index 00000000..dbd4c585 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/curl/8.10.1-ayyzogx @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:33.148547 +## +## curl@8.10.1%gcc@13.2.0~gssapi~ldap~libidn2~librtmp~libssh~libssh2+nghttp2 build_system=autotools libs=shared,static tls=openssl arch=linux-ubuntu22.04-x86_64_v3/ayyzogx +## + + +module-whatis {cURL is an open source command line tool and library for transferring data with URL syntax} + +proc ModulesHelp { } { + puts stderr {Name : curl} + puts stderr {Version: 8.10.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {cURL is an open source command line tool and library for transferring} + puts stderr {data with URL syntax} +} + +conflict curl + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/curl-8.10.1-ayyzogxjftsylkxvp7kobwrg2qaoy4uv/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/curl-8.10.1-ayyzogxjftsylkxvp7kobwrg2qaoy4uv/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/curl-8.10.1-ayyzogxjftsylkxvp7kobwrg2qaoy4uv/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/curl-8.10.1-ayyzogxjftsylkxvp7kobwrg2qaoy4uv/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/curl-8.10.1-ayyzogxjftsylkxvp7kobwrg2qaoy4uv/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/curl-8.10.1-ayyzogxjftsylkxvp7kobwrg2qaoy4uv/share/man} +prepend-path ACLOCAL_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/curl-8.10.1-ayyzogxjftsylkxvp7kobwrg2qaoy4uv/share/aclocal} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/curl-8.10.1-ayyzogxjftsylkxvp7kobwrg2qaoy4uv/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/curl-8.10.1-ayyzogxjftsylkxvp7kobwrg2qaoy4uv/.} +setenv CURL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/curl-8.10.1-ayyzogxjftsylkxvp7kobwrg2qaoy4uv} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/curl/8.10.1-i7fultc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/curl/8.10.1-i7fultc new file mode 100644 index 00000000..ccf65a80 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/curl/8.10.1-i7fultc @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:33.253228 +## +## curl@8.10.1%gcc@13.2.0~gssapi~ldap+libidn2~librtmp~libssh~libssh2+nghttp2 build_system=autotools libs=shared,static tls=openssl arch=linux-ubuntu22.04-x86_64_v3/i7fultc +## + + +module-whatis {cURL is an open source command line tool and library for transferring data with URL syntax} + +proc ModulesHelp { } { + puts stderr {Name : curl} + puts stderr {Version: 8.10.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {cURL is an open source command line tool and library for transferring} + puts stderr {data with URL syntax} +} + +conflict curl + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/curl-8.10.1-i7fultcj5vnbrycfrpourocb3mwshm5c/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/curl-8.10.1-i7fultcj5vnbrycfrpourocb3mwshm5c/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/curl-8.10.1-i7fultcj5vnbrycfrpourocb3mwshm5c/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/curl-8.10.1-i7fultcj5vnbrycfrpourocb3mwshm5c/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/curl-8.10.1-i7fultcj5vnbrycfrpourocb3mwshm5c/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/curl-8.10.1-i7fultcj5vnbrycfrpourocb3mwshm5c/share/man} +prepend-path ACLOCAL_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/curl-8.10.1-i7fultcj5vnbrycfrpourocb3mwshm5c/share/aclocal} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/curl-8.10.1-i7fultcj5vnbrycfrpourocb3mwshm5c/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/curl-8.10.1-i7fultcj5vnbrycfrpourocb3mwshm5c/.} +setenv CURL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/curl-8.10.1-i7fultcj5vnbrycfrpourocb3mwshm5c} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/curl/8.10.1-kgtuqcf b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/curl/8.10.1-kgtuqcf new file mode 100644 index 00000000..c34f17be --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/curl/8.10.1-kgtuqcf @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:33.101337 +## +## curl@8.10.1%gcc@11.4.0~gssapi~ldap~libidn2~librtmp~libssh~libssh2+nghttp2 build_system=autotools libs=shared,static tls=openssl arch=linux-ubuntu22.04-x86_64_v3/kgtuqcf +## + + +module-whatis {cURL is an open source command line tool and library for transferring data with URL syntax} + +proc ModulesHelp { } { + puts stderr {Name : curl} + puts stderr {Version: 8.10.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {cURL is an open source command line tool and library for transferring} + puts stderr {data with URL syntax} +} + +conflict curl + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/curl-8.10.1-kgtuqcffpdvdveloffl2mbu22jqpamja/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/curl-8.10.1-kgtuqcffpdvdveloffl2mbu22jqpamja/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/curl-8.10.1-kgtuqcffpdvdveloffl2mbu22jqpamja/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/curl-8.10.1-kgtuqcffpdvdveloffl2mbu22jqpamja/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/curl-8.10.1-kgtuqcffpdvdveloffl2mbu22jqpamja/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/curl-8.10.1-kgtuqcffpdvdveloffl2mbu22jqpamja/share/man} +prepend-path ACLOCAL_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/curl-8.10.1-kgtuqcffpdvdveloffl2mbu22jqpamja/share/aclocal} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/curl-8.10.1-kgtuqcffpdvdveloffl2mbu22jqpamja/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/curl-8.10.1-kgtuqcffpdvdveloffl2mbu22jqpamja/.} +setenv CURL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/curl-8.10.1-kgtuqcffpdvdveloffl2mbu22jqpamja} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/curl/8.10.1-obo4sob b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/curl/8.10.1-obo4sob new file mode 100644 index 00000000..e6a4f77e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/curl/8.10.1-obo4sob @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:33.093319 +## +## curl@8.10.1%gcc@7.5.0~gssapi~ldap~libidn2~librtmp~libssh~libssh2+nghttp2 build_system=autotools libs=shared,static tls=openssl arch=linux-ubuntu22.04-x86_64_v3/obo4sob +## + + +module-whatis {cURL is an open source command line tool and library for transferring data with URL syntax} + +proc ModulesHelp { } { + puts stderr {Name : curl} + puts stderr {Version: 8.10.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {cURL is an open source command line tool and library for transferring} + puts stderr {data with URL syntax} +} + +conflict curl + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/curl-8.10.1-obo4sobcmfyepsn2h25hlpznaifail2b/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/curl-8.10.1-obo4sobcmfyepsn2h25hlpznaifail2b/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/curl-8.10.1-obo4sobcmfyepsn2h25hlpznaifail2b/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/curl-8.10.1-obo4sobcmfyepsn2h25hlpznaifail2b/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/curl-8.10.1-obo4sobcmfyepsn2h25hlpznaifail2b/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/curl-8.10.1-obo4sobcmfyepsn2h25hlpznaifail2b/share/man} +prepend-path ACLOCAL_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/curl-8.10.1-obo4sobcmfyepsn2h25hlpznaifail2b/share/aclocal} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/curl-8.10.1-obo4sobcmfyepsn2h25hlpznaifail2b/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/curl-8.10.1-obo4sobcmfyepsn2h25hlpznaifail2b/.} +setenv CURL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/curl-8.10.1-obo4sobcmfyepsn2h25hlpznaifail2b} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/curl/8.10.1-shs3wg7 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/curl/8.10.1-shs3wg7 new file mode 100644 index 00000000..d2f12012 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/curl/8.10.1-shs3wg7 @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:33.263043 +## +## curl@8.10.1%gcc@13.2.0~gssapi~ldap+libidn2~librtmp~libssh~libssh2+nghttp2 build_system=autotools libs=shared,static tls=openssl arch=linux-ubuntu22.04-x86_64_v3/shs3wg7 +## + + +module-whatis {cURL is an open source command line tool and library for transferring data with URL syntax} + +proc ModulesHelp { } { + puts stderr {Name : curl} + puts stderr {Version: 8.10.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {cURL is an open source command line tool and library for transferring} + puts stderr {data with URL syntax} +} + +conflict curl + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/curl-8.10.1-shs3wg73wmyzramuwbfabpotpo4zalxk/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/curl-8.10.1-shs3wg73wmyzramuwbfabpotpo4zalxk/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/curl-8.10.1-shs3wg73wmyzramuwbfabpotpo4zalxk/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/curl-8.10.1-shs3wg73wmyzramuwbfabpotpo4zalxk/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/curl-8.10.1-shs3wg73wmyzramuwbfabpotpo4zalxk/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/curl-8.10.1-shs3wg73wmyzramuwbfabpotpo4zalxk/share/man} +prepend-path ACLOCAL_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/curl-8.10.1-shs3wg73wmyzramuwbfabpotpo4zalxk/share/aclocal} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/curl-8.10.1-shs3wg73wmyzramuwbfabpotpo4zalxk/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/curl-8.10.1-shs3wg73wmyzramuwbfabpotpo4zalxk/.} +setenv CURL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/curl-8.10.1-shs3wg73wmyzramuwbfabpotpo4zalxk} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cyrus-sasl/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cyrus-sasl/.modulerc new file mode 100644 index 00000000..a083a030 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cyrus-sasl/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded cyrus-sasl/2.1.28-s3yrqxn diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cyrus-sasl/2.1.28-s3yrqxn b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cyrus-sasl/2.1.28-s3yrqxn new file mode 100644 index 00000000..0f17ac2d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/cyrus-sasl/2.1.28-s3yrqxn @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:33.274624 +## +## cyrus-sasl@2.1.28%gcc@13.2.0 build_system=autotools patches=819342f arch=linux-ubuntu22.04-x86_64_v3/s3yrqxn +## + + +module-whatis {This is the Cyrus SASL API implementation. It can be used on the client or server side to provide authentication and authorization services.} + +proc ModulesHelp { } { + puts stderr {Name : cyrus-sasl} + puts stderr {Version: 2.1.28} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {This is the Cyrus SASL API implementation. It can be used on the client} + puts stderr {or server side to provide authentication and authorization services.} +} + +conflict cyrus-sasl + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/cyrus-sasl-2.1.28-s3yrqxnlhmxt5gstuh5gaemcam64jw66/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/cyrus-sasl-2.1.28-s3yrqxnlhmxt5gstuh5gaemcam64jw66/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/cyrus-sasl-2.1.28-s3yrqxnlhmxt5gstuh5gaemcam64jw66/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/cyrus-sasl-2.1.28-s3yrqxnlhmxt5gstuh5gaemcam64jw66/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/cyrus-sasl-2.1.28-s3yrqxnlhmxt5gstuh5gaemcam64jw66/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/cyrus-sasl-2.1.28-s3yrqxnlhmxt5gstuh5gaemcam64jw66/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/cyrus-sasl-2.1.28-s3yrqxnlhmxt5gstuh5gaemcam64jw66/.} +setenv CYRUS_SASL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/cyrus-sasl-2.1.28-s3yrqxnlhmxt5gstuh5gaemcam64jw66} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/diamond/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/diamond/.modulerc new file mode 100644 index 00000000..b7b3eef3 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/diamond/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded diamond/2.1.10-v5sv7w3 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/diamond/2.1.10-v5sv7w3 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/diamond/2.1.10-v5sv7w3 new file mode 100644 index 00000000..c9510179 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/diamond/2.1.10-v5sv7w3 @@ -0,0 +1,65 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:33.333387 +## +## diamond@2.1.10%gcc@13.2.0+blast~eigen~ipo+zstd build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/v5sv7w3 +## +## Configure options: -DWITH_ZSTD:BOOL=ON -DEIGEN_BLAS:BOOL=OFF -DBLAST_INCLUDE_DIR:STRING=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/blast-plus-2.16.0-4zztw65u6y77xnkqupmnnwsqtp5nbxdz/include/ncbi-tools++ -DBLAST_LIBRARY_DIR:STRING=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/blast-plus-2.16.0-4zztw65u6y77xnkqupmnnwsqtp5nbxdz/lib +## + + +module-whatis {DIAMOND is a sequence aligner for protein and translated DNA searches, designed for high performance analysis of big sequence data.} + +proc ModulesHelp { } { + puts stderr {Name : diamond} + puts stderr {Version: 2.1.10} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {DIAMOND is a sequence aligner for protein and translated DNA searches,} + puts stderr {designed for high performance analysis of big sequence data.} +} + +conflict diamond + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/diamond-2.1.10-v5sv7w3re2rvrizosjee4pzjcp7ymkn6/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/diamond-2.1.10-v5sv7w3re2rvrizosjee4pzjcp7ymkn6/.} +setenv DIAMOND_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/diamond-2.1.10-v5sv7w3re2rvrizosjee4pzjcp7ymkn6} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/diamond/2.1.7 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/diamond/2.1.7 new file mode 100644 index 00000000..a0f93b95 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/diamond/2.1.7 @@ -0,0 +1,63 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:33.297801 +## +## diamond@2.1.7%gcc@11.4.0~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/t5gutih +## + + +module-whatis {DIAMOND is a sequence aligner for protein and translated DNA searches, designed for high performance analysis of big sequence data.} + +proc ModulesHelp { } { + puts stderr {Name : diamond} + puts stderr {Version: 2.1.7} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {DIAMOND is a sequence aligner for protein and translated DNA searches,} + puts stderr {designed for high performance analysis of big sequence data.} +} + +conflict diamond + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/diamond-2.1.7/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/diamond-2.1.7/.} +setenv DIAMOND_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/diamond-2.1.7-t5gutihxv4v6alwniexfi4tagmmxy6uj} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/diffutils/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/diffutils/.modulerc new file mode 100644 index 00000000..c7076680 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/diffutils/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded diffutils/3.10-4ibwh2g diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/diffutils/3.10-4ibwh2g b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/diffutils/3.10-4ibwh2g new file mode 100644 index 00000000..bde8a8b1 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/diffutils/3.10-4ibwh2g @@ -0,0 +1,65 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:33.366998 +## +## diffutils@3.10%gcc@7.5.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/4ibwh2g +## + + +module-whatis {GNU Diffutils is a package of several programs related to finding differences between files.} + +proc ModulesHelp { } { + puts stderr {Name : diffutils} + puts stderr {Version: 3.10} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {GNU Diffutils is a package of several programs related to finding} + puts stderr {differences between files.} +} + +conflict diffutils + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/diffutils-3.10-4ibwh2gczpirqtw64ldsjwckfepuc56a/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/diffutils-3.10-4ibwh2gczpirqtw64ldsjwckfepuc56a/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/diffutils-3.10-4ibwh2gczpirqtw64ldsjwckfepuc56a/.} +setenv DIFFUTILS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/diffutils-3.10-4ibwh2gczpirqtw64ldsjwckfepuc56a} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/distangsd/main b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/distangsd/main new file mode 100644 index 00000000..2083228f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/distangsd/main @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:33.387610 +## +## distangsd@main%gcc@13.2.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/mzqgowu +## + + +module-whatis { distAngsd is a software to simulate and infer phylogenetic relationships between two individuals, in which two novel methods (i.e., geno and nuc) are proposed. A bunch of other methods are also implemented, e.g., RandomSEQ, ConsensusSEQ, AmbiguityGT and NoAmbiguity for comparisons. The software can both conduct simulation and analyses real vcf/bcf file given reliable genotype likelihoods are calculated.} + +proc ModulesHelp { } { + puts stderr {Name : distangsd} + puts stderr {Version: main} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr { distAngsd is a software to simulate and infer phylogenetic} + puts stderr {relationships between two individuals, in which two novel methods (i.e.,} + puts stderr {geno and nuc) are proposed. A bunch of other methods are also} + puts stderr {implemented, e.g., RandomSEQ, ConsensusSEQ, AmbiguityGT and NoAmbiguity} + puts stderr {for comparisons. The software can both conduct simulation and analyses} + puts stderr {real vcf/bcf file given reliable genotype likelihoods are calculated.} + puts stderr {The software can do 1-d simulation and inference (only genetic distance} + puts stderr {t estimation), 2-d simulation and inference (genetic distance t and} + puts stderr {invariable sites proportion p_inv joint estimation), vcf file read and} + puts stderr {inference, genotype likelihood table read and inference. Both JC69 are} + puts stderr {GTR models can be considered. Genotype likelihood and inference logs can} + puts stderr {be recored either in the format of txt.gz or bin. NOTE: distAngsd did} + puts stderr {not provide any version numbers, so it is versioned by its git hash.} +} + +conflict distangsd + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/distangsd-main/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/distangsd-main/.} +setenv DISTANGSD_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/distangsd-main-mzqgowueg4hrolxye6xqdtvsyjr5vdw7} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/dotnet-core-sdk/8.0.4 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/dotnet-core-sdk/8.0.4 new file mode 100644 index 00000000..337167de --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/dotnet-core-sdk/8.0.4 @@ -0,0 +1,64 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:33.425336 +## +## dotnet-core-sdk@8.0.4%gcc@13.2.0~telemetry build_system=generic arch=linux-ubuntu22.04-x86_64_v3/2hdnj3g +## + + +module-whatis {The .NET Core SDK is a powerful development environment to write applications for all types of infrastructure.} + +proc ModulesHelp { } { + puts stderr {Name : dotnet-core-sdk} + puts stderr {Version: 8.0.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The .NET Core SDK is a powerful development environment to write} + puts stderr {applications for all types of infrastructure.} +} + +conflict dotnet-core-sdk + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/dotnet-core-sdk-8.0.4/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/dotnet-core-sdk-8.0.4/.} +setenv DOTNET_CLI_TELEMETRY_OPTOUT {1} +setenv DOTNET_CORE_SDK_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/dotnet-core-sdk-8.0.4-2hdnj3gtkwnzv5cpno3h36p6w3ufbyr6} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/double-conversion/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/double-conversion/.modulerc new file mode 100644 index 00000000..c4d0a022 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/double-conversion/.modulerc @@ -0,0 +1,4 @@ +#%Module4.7 +module-hide --soft --hidden-loaded double-conversion/3.3.0-zf3ao2s +module-hide --soft --hidden-loaded double-conversion/3.3.0-rp2st4z +module-hide --soft --hidden-loaded double-conversion/3.3.0-3s2a2vy diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/double-conversion/3.3.0-3s2a2vy b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/double-conversion/3.3.0-3s2a2vy new file mode 100644 index 00000000..4b480a4a --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/double-conversion/3.3.0-3s2a2vy @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2024-12-19 13:36:32.702860 +## +## double-conversion@3.3.0%gcc@13.2.0~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/3s2a2vy +## +## Configure options: -DCMAKE_POSITION_INDEPENDENT_CODE:BOOL=true +## + + +module-whatis {This project (double-conversion) provides binary-decimal and decimal-binary routines for IEEE doubles.} + +proc ModulesHelp { } { + puts stderr {Name : double-conversion} + puts stderr {Version: 3.3.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {This project (double-conversion) provides binary-decimal and decimal-} + puts stderr {binary routines for IEEE doubles. The library consists of efficient} + puts stderr {conversion routines that have been extracted from the V8 JavaScript} + puts stderr {engine. The code has been refactored and improved so that it can be used} + puts stderr {more easily in other projects. There is extensive documentation in} + puts stderr {src/double-conversion.h. Other examples can be found in} + puts stderr {test/cctest/test-conversions.cc.} +} + +conflict double-conversion + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/double-conversion-3.3.0-3s2a2vysw3ls3kistal2vvyljo5hdgnu/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/double-conversion-3.3.0-3s2a2vysw3ls3kistal2vvyljo5hdgnu/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/double-conversion-3.3.0-3s2a2vysw3ls3kistal2vvyljo5hdgnu/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/double-conversion-3.3.0-3s2a2vysw3ls3kistal2vvyljo5hdgnu/include} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/double-conversion-3.3.0-3s2a2vysw3ls3kistal2vvyljo5hdgnu/.} +setenv DOUBLE_CONVERSION_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/double-conversion-3.3.0-3s2a2vysw3ls3kistal2vvyljo5hdgnu} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/double-conversion/3.3.0-rp2st4z b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/double-conversion/3.3.0-rp2st4z new file mode 100644 index 00000000..101cdf36 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/double-conversion/3.3.0-rp2st4z @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:33.467641 +## +## double-conversion@3.3.0%gcc@13.2.0~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/rp2st4z +## +## Configure options: -DCMAKE_POSITION_INDEPENDENT_CODE:BOOL=true +## + + +module-whatis {This project (double-conversion) provides binary-decimal and decimal-binary routines for IEEE doubles.} + +proc ModulesHelp { } { + puts stderr {Name : double-conversion} + puts stderr {Version: 3.3.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {This project (double-conversion) provides binary-decimal and decimal-} + puts stderr {binary routines for IEEE doubles. The library consists of efficient} + puts stderr {conversion routines that have been extracted from the V8 JavaScript} + puts stderr {engine. The code has been refactored and improved so that it can be used} + puts stderr {more easily in other projects. There is extensive documentation in} + puts stderr {src/double-conversion.h. Other examples can be found in} + puts stderr {test/cctest/test-conversions.cc.} +} + +conflict double-conversion + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/double-conversion-3.3.0-rp2st4zfe67n6qitlwoyb7gsui5x73jc/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/double-conversion-3.3.0-rp2st4zfe67n6qitlwoyb7gsui5x73jc/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/double-conversion-3.3.0-rp2st4zfe67n6qitlwoyb7gsui5x73jc/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/double-conversion-3.3.0-rp2st4zfe67n6qitlwoyb7gsui5x73jc/include} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/double-conversion-3.3.0-rp2st4zfe67n6qitlwoyb7gsui5x73jc/.} +setenv DOUBLE_CONVERSION_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/double-conversion-3.3.0-rp2st4zfe67n6qitlwoyb7gsui5x73jc} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/double-conversion/3.3.0-zf3ao2s b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/double-conversion/3.3.0-zf3ao2s new file mode 100644 index 00000000..ee96cc8d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/double-conversion/3.3.0-zf3ao2s @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:33.447402 +## +## double-conversion@3.3.0%gcc@11.4.0~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/zf3ao2s +## +## Configure options: -DCMAKE_POSITION_INDEPENDENT_CODE:BOOL=true +## + + +module-whatis {This project (double-conversion) provides binary-decimal and decimal-binary routines for IEEE doubles.} + +proc ModulesHelp { } { + puts stderr {Name : double-conversion} + puts stderr {Version: 3.3.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {This project (double-conversion) provides binary-decimal and decimal-} + puts stderr {binary routines for IEEE doubles. The library consists of efficient} + puts stderr {conversion routines that have been extracted from the V8 JavaScript} + puts stderr {engine. The code has been refactored and improved so that it can be used} + puts stderr {more easily in other projects. There is extensive documentation in} + puts stderr {src/double-conversion.h. Other examples can be found in} + puts stderr {test/cctest/test-conversions.cc.} +} + +conflict double-conversion + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/double-conversion-3.3.0-zf3ao2sccexyrg3yc6z2o3bz5mpjgwk5/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/double-conversion-3.3.0-zf3ao2sccexyrg3yc6z2o3bz5mpjgwk5/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/double-conversion-3.3.0-zf3ao2sccexyrg3yc6z2o3bz5mpjgwk5/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/double-conversion-3.3.0-zf3ao2sccexyrg3yc6z2o3bz5mpjgwk5/include} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/double-conversion-3.3.0-zf3ao2sccexyrg3yc6z2o3bz5mpjgwk5/.} +setenv DOUBLE_CONVERSION_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/double-conversion-3.3.0-zf3ao2sccexyrg3yc6z2o3bz5mpjgwk5} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/dssp/3.1.4 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/dssp/3.1.4 new file mode 100644 index 00000000..b2d59239 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/dssp/3.1.4 @@ -0,0 +1,64 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:33.490072 +## +## dssp@3.1.4%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/if6hpq6 +## +## Configure options: --with-boost=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.86.0-mydu4ujx7m3hxz64434wxfkefb3swvef +## + + +module-whatis {'mkdssp' utility. (dictionary of protein secondary structure)} + +proc ModulesHelp { } { + puts stderr {Name : dssp} + puts stderr {Version: 3.1.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {'mkdssp' utility. (dictionary of protein secondary structure)} +} + +conflict dssp + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/dssp-3.1.4/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/dssp-3.1.4/.} +setenv DSSP_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/dssp-3.1.4-if6hpq6f4tizwuzus32kzrs3webkbj4r} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/e2fsprogs/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/e2fsprogs/.modulerc new file mode 100644 index 00000000..e841d570 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/e2fsprogs/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded e2fsprogs/1.47.1-u2z2ayx diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/e2fsprogs/1.47.1-u2z2ayx b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/e2fsprogs/1.47.1-u2z2ayx new file mode 100644 index 00000000..b7f06b3e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/e2fsprogs/1.47.1-u2z2ayx @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:33.525059 +## +## e2fsprogs@1.47.1%gcc@13.2.0+fuse2fs build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/u2z2ayx +## +## Configure options: --without-udev-rules-dir --without-crond-dir --without-systemd-unit-dir --enable-fuse2fs +## + + +module-whatis {It provides the filesystem utilities for use with the ext2 filesystem. It also supports the ext3 and ext4 filesystems.} + +proc ModulesHelp { } { + puts stderr {Name : e2fsprogs} + puts stderr {Version: 1.47.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {It provides the filesystem utilities for use with the ext2 filesystem.} + puts stderr {It also supports the ext3 and ext4 filesystems.} +} + +conflict e2fsprogs + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/e2fsprogs-1.47.1-u2z2ayx75kv63fmws2njfkcewolt7ckc/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/e2fsprogs-1.47.1-u2z2ayx75kv63fmws2njfkcewolt7ckc/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/e2fsprogs-1.47.1-u2z2ayx75kv63fmws2njfkcewolt7ckc/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/e2fsprogs-1.47.1-u2z2ayx75kv63fmws2njfkcewolt7ckc/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/e2fsprogs-1.47.1-u2z2ayx75kv63fmws2njfkcewolt7ckc/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/e2fsprogs-1.47.1-u2z2ayx75kv63fmws2njfkcewolt7ckc/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/e2fsprogs-1.47.1-u2z2ayx75kv63fmws2njfkcewolt7ckc/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/e2fsprogs-1.47.1-u2z2ayx75kv63fmws2njfkcewolt7ckc/.} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/e2fsprogs-1.47.1-u2z2ayx75kv63fmws2njfkcewolt7ckc/sbin} +setenv E2FSPROGS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/e2fsprogs-1.47.1-u2z2ayx75kv63fmws2njfkcewolt7ckc} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ea-utils/2021-10-20 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ea-utils/2021-10-20 new file mode 100644 index 00000000..920d53a6 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ea-utils/2021-10-20 @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:33.535554 +## +## ea-utils@2021-10-20%gcc@13.2.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/xsqg4ti +## + + +module-whatis {Command-line tools for processing biological sequencing data. Barcode demultiplexing, adapter trimming, etc. Primarily written to support an Illumina based pipeline - but should work with any FASTQs.} + +proc ModulesHelp { } { + puts stderr {Name : ea-utils} + puts stderr {Version: 2021-10-20} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Command-line tools for processing biological sequencing data. Barcode} + puts stderr {demultiplexing, adapter trimming, etc. Primarily written to support an} + puts stderr {Illumina based pipeline - but should work with any FASTQs.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict ea-utils + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/ea-utils-2021-10-20/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/ea-utils-2021-10-20/.} +setenv EA_UTILS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/ea-utils-2021-10-20-xsqg4timnssryissairxmsbctl32ilci} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/eccodes/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/eccodes/.modulerc new file mode 100644 index 00000000..a6ae52a5 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/eccodes/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded eccodes/2.34.0-tigyndy diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/eccodes/2.34.0-tigyndy b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/eccodes/2.34.0-tigyndy new file mode 100644 index 00000000..cfec4d42 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/eccodes/2.34.0-tigyndy @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:33.587781 +## +## eccodes@2.34.0%gcc@13.2.0+aec~fortran~ipo~memfs~netcdf~openmp~png~pthreads+shared~tools build_system=cmake build_type=Release extra_definitions=none generator=make jp2k=openjpeg arch=linux-ubuntu22.04-x86_64_v3/tigyndy +## +## Configure options: -DENABLE_BUILD_TOOLS:BOOL=OFF -DENABLE_NETCDF:BOOL=OFF -DENABLE_JPG:BOOL=ON -DENABLE_JPG_LIBJASPER:BOOL=OFF -DENABLE_JPG_LIBOPENJPEG:BOOL=ON -DENABLE_PNG:BOOL=OFF -DENABLE_AEC:BOOL=ON -DENABLE_ECCODES_THREADS:BOOL=OFF -DENABLE_ECCODES_OMP_THREADS:BOOL=OFF -DENABLE_MEMFS:BOOL=OFF -DENABLE_PYTHON2:BOOL=OFF -DENABLE_FORTRAN:BOOL=OFF -DBUILD_SHARED_LIBS:STRING=BOTH -DENABLE_TESTS:BOOL=OFF -DENABLE_EXAMPLES:BOOL=OFF -DENABLE_EXTRA_TESTS:BOOL=OFF -DOPENJPEG_PATH:STRING=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openjpeg-2.3.1-52jyfajo22zk7xi34arfnaichcpm3y7t -DAEC_DIR:STRING=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libaec-1.0.6-j6vsk27rnowtkndtomw3fovt6wwxilya +## + + +module-whatis {ecCodes is a package developed by ECMWF for processing meteorological data in GRIB (1/2), BUFR (3/4) and GTS header formats.} + +proc ModulesHelp { } { + puts stderr {Name : eccodes} + puts stderr {Version: 2.34.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {ecCodes is a package developed by ECMWF for processing meteorological} + puts stderr {data in GRIB (1/2), BUFR (3/4) and GTS header formats.} +} + +conflict eccodes + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/eccodes-2.34.0-tigyndyy2dwv3tgg5gbkqij4hgzbjg34/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/eccodes-2.34.0-tigyndyy2dwv3tgg5gbkqij4hgzbjg34/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/eccodes-2.34.0-tigyndyy2dwv3tgg5gbkqij4hgzbjg34/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/eccodes-2.34.0-tigyndyy2dwv3tgg5gbkqij4hgzbjg34/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/eccodes-2.34.0-tigyndyy2dwv3tgg5gbkqij4hgzbjg34/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/eccodes-2.34.0-tigyndyy2dwv3tgg5gbkqij4hgzbjg34/.} +setenv ECCODES_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/eccodes-2.34.0-tigyndyy2dwv3tgg5gbkqij4hgzbjg34} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/eigen/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/eigen/.modulerc new file mode 100644 index 00000000..51254f5c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/eigen/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded eigen/3.4.0-dqcivv7 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/eigen/3.4.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/eigen/3.4.0 new file mode 100644 index 00000000..2224c959 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/eigen/3.4.0 @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:33.617341 +## +## eigen@3.4.0%gcc@13.2.0~ipo build_system=cmake build_type=RelWithDebInfo generator=make arch=linux-ubuntu22.04-x86_64_v3/jwv6po4 +## +## Configure options: -DBUILD_TESTING:STRING=ON +## + + +module-whatis {Eigen is a C++ template library for linear algebra matrices, vectors, numerical solvers, and related algorithms. } + +proc ModulesHelp { } { + puts stderr {Name : eigen} + puts stderr {Version: 3.4.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Eigen is a C++ template library for linear algebra matrices, vectors,} + puts stderr {numerical solvers, and related algorithms.} +} + +conflict eigen + +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/eigen-3.4.0/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/eigen-3.4.0/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/eigen-3.4.0/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/eigen-3.4.0/share/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/eigen-3.4.0/.} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/eigen-3.4.0/include/eigen3} +setenv EIGEN_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/eigen-3.4.0-jwv6po4mr7yjd4k7khnxyfa3okxvuf5j} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/eigen/3.4.0-dqcivv7 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/eigen/3.4.0-dqcivv7 new file mode 100644 index 00000000..4eeef0de --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/eigen/3.4.0-dqcivv7 @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:33.596881 +## +## eigen@3.4.0%gcc@11.4.0~ipo build_system=cmake build_type=RelWithDebInfo generator=make arch=linux-ubuntu22.04-x86_64_v3/dqcivv7 +## +## Configure options: -DBUILD_TESTING:STRING=ON +## + + +module-whatis {Eigen is a C++ template library for linear algebra matrices, vectors, numerical solvers, and related algorithms. } + +proc ModulesHelp { } { + puts stderr {Name : eigen} + puts stderr {Version: 3.4.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Eigen is a C++ template library for linear algebra matrices, vectors,} + puts stderr {numerical solvers, and related algorithms.} +} + +conflict eigen + +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/eigen-3.4.0-dqcivv7q5buzcosyyz55bkthdhdr2e42/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/eigen-3.4.0-dqcivv7q5buzcosyyz55bkthdhdr2e42/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/eigen-3.4.0-dqcivv7q5buzcosyyz55bkthdhdr2e42/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/eigen-3.4.0-dqcivv7q5buzcosyyz55bkthdhdr2e42/share/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/eigen-3.4.0-dqcivv7q5buzcosyyz55bkthdhdr2e42/.} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/eigen-3.4.0-dqcivv7q5buzcosyyz55bkthdhdr2e42/include/eigen3} +setenv EIGEN_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/eigen-3.4.0-dqcivv7q5buzcosyyz55bkthdhdr2e42} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/elfutils/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/elfutils/.modulerc new file mode 100644 index 00000000..99b03abf --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/elfutils/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded elfutils/0.191-36ztiux diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/elfutils/0.191-36ztiux b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/elfutils/0.191-36ztiux new file mode 100644 index 00000000..463afee7 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/elfutils/0.191-36ztiux @@ -0,0 +1,75 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:33.644617 +## +## elfutils@0.191%gcc@13.2.0~debuginfod+exeprefix+nls build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/36ztiux +## +## Configure options: --with-bzlib=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/bzip2-1.0.8-qknztbakgnayrsc4iql53yss5tv4yslr --with-lzma=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xz-5.4.6-szk4ytk6wy4nan4q4ep7zhdcoavftlct --with-zlib=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zlib-ng-2.2.1-ci2x2tjfpbdihazwtuwsat2anrc47e6u --program-prefix='eu-' --with-zstd=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zstd-1.5.6-vuo5mbe3zuzkcvisvn77uccdvqr3o2q2 --with-libiconv-prefix=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libiconv-1.17-6o2z744tb5afz6tfp5pgeffkiinbhvpd --with-libintl-prefix=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gettext-0.22.5-rwigy6xo43decqeaw4y2wdvw3phgi6ru --disable-debuginfod --disable-libdebuginfod +## + + +module-whatis {elfutils is a collection of various binary tools such as eu-objdump, eu-readelf, and other utilities that allow you to inspect and manipulate ELF files. Refer to Table 5.Tools Included in elfutils for Red Hat Developer for a complete list of binary tools that are distributed with the Red Hat Developer Toolset version of elfutils.} + +proc ModulesHelp { } { + puts stderr {Name : elfutils} + puts stderr {Version: 0.191} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {elfutils is a collection of various binary tools such as eu-objdump, eu-} + puts stderr {readelf, and other utilities that allow you to inspect and manipulate} + puts stderr {ELF files. Refer to Table 5.Tools Included in elfutils for Red Hat} + puts stderr {Developer for a complete list of binary tools that are distributed with} + puts stderr {the Red Hat Developer Toolset version of elfutils.} +} + +conflict elfutils + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/elfutils-0.191-36ztiuxz3xygy7mvcpjz2eybeqb2oasl/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/elfutils-0.191-36ztiuxz3xygy7mvcpjz2eybeqb2oasl/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/elfutils-0.191-36ztiuxz3xygy7mvcpjz2eybeqb2oasl/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/elfutils-0.191-36ztiuxz3xygy7mvcpjz2eybeqb2oasl/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/elfutils-0.191-36ztiuxz3xygy7mvcpjz2eybeqb2oasl/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/elfutils-0.191-36ztiuxz3xygy7mvcpjz2eybeqb2oasl/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/elfutils-0.191-36ztiuxz3xygy7mvcpjz2eybeqb2oasl/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/elfutils-0.191-36ztiuxz3xygy7mvcpjz2eybeqb2oasl/.} +setenv ELFUTILS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/elfutils-0.191-36ztiuxz3xygy7mvcpjz2eybeqb2oasl} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/emboss/6.6.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/emboss/6.6.0 new file mode 100644 index 00000000..d605a145 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/emboss/6.6.0 @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:33.657941 +## +## emboss@6.6.0%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/7tksr4l +## + + +module-whatis {EMBOSS is a free Open Source software analysis package specially developed for the needs of the molecular biology (e.g. EMBnet) user community} + +proc ModulesHelp { } { + puts stderr {Name : emboss} + puts stderr {Version: 6.6.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {EMBOSS is a free Open Source software analysis package specially} + puts stderr {developed for the needs of the molecular biology (e.g. EMBnet) user} + puts stderr {community} +} + +conflict emboss + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/emboss-6.6.0/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/emboss-6.6.0/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/emboss-6.6.0/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/emboss-6.6.0/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/emboss-6.6.0/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/emboss-6.6.0/.} +setenv EMBOSS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/emboss-6.6.0-7tksr4lqdrevu4o5xufsdjffldy7lvve} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/exonerate-gff3/2.3.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/exonerate-gff3/2.3.0 new file mode 100644 index 00000000..9ea7f2ec --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/exonerate-gff3/2.3.0 @@ -0,0 +1,65 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:33.824746 +## +## exonerate-gff3@2.3.0%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/bnzvuey +## + + +module-whatis {This is an exonerate fork with added gff3 support. Original website with user guides: http://www.ebi.ac.uk/~guy/exonerate/} + +proc ModulesHelp { } { + puts stderr {Name : exonerate-gff3} + puts stderr {Version: 2.3.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {This is an exonerate fork with added gff3 support. Original website with} + puts stderr {user guides: http://www.ebi.ac.uk/~guy/exonerate/} +} + +conflict exonerate-gff3 + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/exonerate-gff3-2.3.0/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/exonerate-gff3-2.3.0/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/exonerate-gff3-2.3.0/.} +setenv EXONERATE_GFF3_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/exonerate-gff3-2.3.0-bnzvueyheixvq66hnao3mdwz7tjgarvx} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/exonerate/2.4.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/exonerate/2.4.0 new file mode 100644 index 00000000..9db28f55 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/exonerate/2.4.0 @@ -0,0 +1,66 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:33.763438 +## +## exonerate@2.4.0%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/ycbqccw +## +## Configure options: --disable-debug --disable-dependency-tracking +## + + +module-whatis {Pairwise sequence alignment of DNA and proteins} + +proc ModulesHelp { } { + puts stderr {Name : exonerate} + puts stderr {Version: 2.4.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Pairwise sequence alignment of DNA and proteins} +} + +conflict exonerate + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/exonerate-2.4.0/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/exonerate-2.4.0/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/exonerate-2.4.0/.} +setenv EXONERATE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/exonerate-2.4.0-ycbqccwu5cachado4xiabpz6wb2aoyye} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/expat/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/expat/.modulerc new file mode 100644 index 00000000..411b79ca --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/expat/.modulerc @@ -0,0 +1,4 @@ +#%Module4.7 +module-hide --soft --hidden-loaded expat/2.6.4-hj6jtyr +module-hide --soft --hidden-loaded expat/2.6.4-zrieuke +module-hide --soft --hidden-loaded expat/2.6.4-dkfj5sl diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/expat/2.6.4-dkfj5sl b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/expat/2.6.4-dkfj5sl new file mode 100644 index 00000000..7427691a --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/expat/2.6.4-dkfj5sl @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:33.885257 +## +## expat@2.6.4%gcc@7.5.0+libbsd build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/dkfj5sl +## + + +module-whatis {Expat is an XML parser library written in C.} + +proc ModulesHelp { } { + puts stderr {Name : expat} + puts stderr {Version: 2.6.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Expat is an XML parser library written in C.} +} + +conflict expat + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/expat-2.6.4-dkfj5slnwosbrhrz7uuxf7iitlenvuda/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/expat-2.6.4-dkfj5slnwosbrhrz7uuxf7iitlenvuda/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/expat-2.6.4-dkfj5slnwosbrhrz7uuxf7iitlenvuda/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/expat-2.6.4-dkfj5slnwosbrhrz7uuxf7iitlenvuda/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/expat-2.6.4-dkfj5slnwosbrhrz7uuxf7iitlenvuda/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/expat-2.6.4-dkfj5slnwosbrhrz7uuxf7iitlenvuda/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/expat-2.6.4-dkfj5slnwosbrhrz7uuxf7iitlenvuda/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/expat-2.6.4-dkfj5slnwosbrhrz7uuxf7iitlenvuda/.} +setenv EXPAT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/expat-2.6.4-dkfj5slnwosbrhrz7uuxf7iitlenvuda} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/expat/2.6.4-hj6jtyr b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/expat/2.6.4-hj6jtyr new file mode 100644 index 00000000..6a9bafd5 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/expat/2.6.4-hj6jtyr @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:33.931918 +## +## expat@2.6.4%gcc@11.4.0+libbsd build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/hj6jtyr +## + + +module-whatis {Expat is an XML parser library written in C.} + +proc ModulesHelp { } { + puts stderr {Name : expat} + puts stderr {Version: 2.6.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Expat is an XML parser library written in C.} +} + +conflict expat + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/expat-2.6.4-hj6jtyrxtqabnjznbntx6oeclctubpxq/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/expat-2.6.4-hj6jtyrxtqabnjznbntx6oeclctubpxq/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/expat-2.6.4-hj6jtyrxtqabnjznbntx6oeclctubpxq/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/expat-2.6.4-hj6jtyrxtqabnjznbntx6oeclctubpxq/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/expat-2.6.4-hj6jtyrxtqabnjznbntx6oeclctubpxq/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/expat-2.6.4-hj6jtyrxtqabnjznbntx6oeclctubpxq/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/expat-2.6.4-hj6jtyrxtqabnjznbntx6oeclctubpxq/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/expat-2.6.4-hj6jtyrxtqabnjznbntx6oeclctubpxq/.} +setenv EXPAT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/expat-2.6.4-hj6jtyrxtqabnjznbntx6oeclctubpxq} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/expat/2.6.4-zrieuke b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/expat/2.6.4-zrieuke new file mode 100644 index 00000000..d3783557 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/expat/2.6.4-zrieuke @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:33.978311 +## +## expat@2.6.4%gcc@13.2.0+libbsd build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/zrieuke +## + + +module-whatis {Expat is an XML parser library written in C.} + +proc ModulesHelp { } { + puts stderr {Name : expat} + puts stderr {Version: 2.6.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Expat is an XML parser library written in C.} +} + +conflict expat + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/expat-2.6.4-zrieukekssfaket6eoftkam5jh6n2w23/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/expat-2.6.4-zrieukekssfaket6eoftkam5jh6n2w23/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/expat-2.6.4-zrieukekssfaket6eoftkam5jh6n2w23/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/expat-2.6.4-zrieukekssfaket6eoftkam5jh6n2w23/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/expat-2.6.4-zrieukekssfaket6eoftkam5jh6n2w23/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/expat-2.6.4-zrieukekssfaket6eoftkam5jh6n2w23/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/expat-2.6.4-zrieukekssfaket6eoftkam5jh6n2w23/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/expat-2.6.4-zrieukekssfaket6eoftkam5jh6n2w23/.} +setenv EXPAT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/expat-2.6.4-zrieukekssfaket6eoftkam5jh6n2w23} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/expect/5.45.4 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/expect/5.45.4 new file mode 100644 index 00000000..d7c833fa --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/expect/5.45.4 @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:34.083789 +## +## expect@5.45.4%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/7lkppce +## +## Configure options: --exec-prefix=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/expect-5.45.4-7lkppcexssx3slryu3hwg2xdpeq454f7 --enable-threads --enable-shared --enable-64bit --with-tcl=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/tcl-8.6.12-qsyzvsewmv2xms6zqytgrt6rpqlrxpx7/lib --with-tclinclude=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/tcl-8.6.12-qsyzvsewmv2xms6zqytgrt6rpqlrxpx7/include +## + + +module-whatis {Expect is a tool for automating interactive applications such as telnet, ftp, passwd, fsck, rlogin, tip, etc.} + +proc ModulesHelp { } { + puts stderr {Name : expect} + puts stderr {Version: 5.45.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Expect is a tool for automating interactive applications such as telnet,} + puts stderr {ftp, passwd, fsck, rlogin, tip, etc.} +} + +conflict expect + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/expect-5.45.4/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/expect-5.45.4/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/expect-5.45.4/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/expect-5.45.4/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/expect-5.45.4/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/expect-5.45.4/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/expect-5.45.4/.} +setenv EXPECT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/expect-5.45.4-7lkppcexssx3slryu3hwg2xdpeq454f7} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/fastani/1.33 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/fastani/1.33 new file mode 100644 index 00000000..50a53129 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/fastani/1.33 @@ -0,0 +1,63 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:34.125703 +## +## fastani@1.33%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/4rgdfcr +## + + +module-whatis {Fast, alignment-free computation of whole-genome Average Nucleotide Identity (ANI)} + +proc ModulesHelp { } { + puts stderr {Name : fastani} + puts stderr {Version: 1.33} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Fast, alignment-free computation of whole-genome Average Nucleotide} + puts stderr {Identity (ANI)} +} + +conflict fastani + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/fastani-1.33/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/fastani-1.33/.} +setenv FASTANI_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fastani-1.33-4rgdfcrvcz4o2ddadraqnucbhkpeicoa} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/fastme/2.1.5.1 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/fastme/2.1.5.1 new file mode 100644 index 00000000..83e4ff31 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/fastme/2.1.5.1 @@ -0,0 +1,63 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:34.151417 +## +## fastme@2.1.5.1%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/e5ra2ed +## + + +module-whatis {FastME is a distance based phylogeny reconstruction program that works on distance matrices and, as of v2.0, sequence data.} + +proc ModulesHelp { } { + puts stderr {Name : fastme} + puts stderr {Version: 2.1.5.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {FastME is a distance based phylogeny reconstruction program that works} + puts stderr {on distance matrices and, as of v2.0, sequence data.} +} + +conflict fastme + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/fastme-2.1.5.1/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/fastme-2.1.5.1/.} +setenv FASTME_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fastme-2.1.5.1-e5ra2ed64pyfxxotn4sgk2i7bm4pnk6m} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/fastq-screen/0.15.3 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/fastq-screen/0.15.3 new file mode 100644 index 00000000..507d3027 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/fastq-screen/0.15.3 @@ -0,0 +1,75 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:34.174980 +## +## fastq-screen@0.15.3%gcc@13.2.0~bismark~bowtie~bwa build_system=generic arch=linux-ubuntu22.04-x86_64_v3/mafv3ge +## + + +module-whatis {FastQ Screen allows you to screen a library of sequences in FastQ format against a set of sequence databases so you can see if the composition of the library matches with what you expect.} + +proc ModulesHelp { } { + puts stderr {Name : fastq-screen} + puts stderr {Version: 0.15.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {FastQ Screen allows you to screen a library of sequences in FastQ format} + puts stderr {against a set of sequence databases so you can see if the composition of} + puts stderr {the library matches with what you expect.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load bowtie2/2.5.2 + module load perl/5.40.0-lzbctij + module load perl-gdgraph/1.4308-oubxxrv + module load samtools/1.19.2-r7cwl2c +} else { + depends-on bowtie2/2.5.2 + depends-on perl/5.40.0-lzbctij + depends-on perl-gdgraph/1.4308-oubxxrv + depends-on samtools/1.19.2-r7cwl2c +} +conflict fastq-screen + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/fastq-screen-0.15.3/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/fastq-screen-0.15.3/.} +setenv FASTQ_SCREEN_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fastq-screen-0.15.3-mafv3ges2gz4uxsg356scr2zermxw7v3} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/fastqc/0.12.1 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/fastqc/0.12.1 new file mode 100644 index 00000000..ecd2b25c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/fastqc/0.12.1 @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:34.362983 +## +## fastqc@0.12.1%gcc@13.2.0 build_system=generic patches=886aba9 arch=linux-ubuntu22.04-x86_64_v3/ihu2kwv +## + + +module-whatis {A quality control tool for high throughput sequence data.} + +proc ModulesHelp { } { + puts stderr {Name : fastqc} + puts stderr {Version: 0.12.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A quality control tool for high throughput sequence data.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load openjdk/17.0.11_9 +} else { + depends-on openjdk/17.0.11_9 +} +conflict fastqc + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/fastqc-0.12.1/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/fastqc-0.12.1/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/fastqc-0.12.1/.} +setenv FASTQC_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fastqc-0.12.1-ihu2kwvfqokncvvpz5txyjkfp7rfkgvh} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/fasttree/2.1.11 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/fasttree/2.1.11 new file mode 100644 index 00000000..1fe677fd --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/fasttree/2.1.11 @@ -0,0 +1,63 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:34.394741 +## +## fasttree@2.1.11%gcc@13.2.0+openmp build_system=generic arch=linux-ubuntu22.04-x86_64_v3/ofayor5 +## + + +module-whatis {FastTree infers approximately-maximum-likelihood phylogenetic trees from alignments of nucleotide or protein sequences. } + +proc ModulesHelp { } { + puts stderr {Name : fasttree} + puts stderr {Version: 2.1.11} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {FastTree infers approximately-maximum-likelihood phylogenetic trees from} + puts stderr {alignments of nucleotide or protein sequences.} +} + +conflict fasttree + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/fasttree-2.1.11/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/fasttree-2.1.11/.} +setenv FASTTREE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fasttree-2.1.11-ofayor5cnhzyu3u7bifhjz3fyyhm2sq5} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/fastx-toolkit/0.0.14 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/fastx-toolkit/0.0.14 new file mode 100644 index 00000000..b9f6e44b --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/fastx-toolkit/0.0.14 @@ -0,0 +1,64 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:34.417019 +## +## fastx-toolkit@0.0.14%gcc@13.2.0 build_system=autotools patches=915bdfc arch=linux-ubuntu22.04-x86_64_v3/rtzdz2z +## + + +module-whatis {The FASTX-Toolkit is a collection of command line tools for Short-Reads FASTA/FASTQ files preprocessing.} + +proc ModulesHelp { } { + puts stderr {Name : fastx-toolkit} + puts stderr {Version: 0.0.14} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The FASTX-Toolkit is a collection of command line tools for Short-Reads} + puts stderr {FASTA/FASTQ files preprocessing.} +} + +conflict fastx-toolkit + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/fastx-toolkit-0.0.14/bin} +prepend-path ACLOCAL_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/fastx-toolkit-0.0.14/share/aclocal} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/fastx-toolkit-0.0.14/.} +setenv FASTX_TOOLKIT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fastx-toolkit-0.0.14-rtzdz2zcbgvrzotjrx4abdvcfqq3ecuu} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/feh/3.10 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/feh/3.10 new file mode 100644 index 00000000..8cb81eec --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/feh/3.10 @@ -0,0 +1,67 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:34.453909 +## +## feh@3.10%gcc@13.2.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/obz5gff +## + + +module-whatis { feh is an X11 image viewer aimed mostly at console users. Unlike most other viewers, it does not have a fancy GUI, but simply displays images. It is controlled via commandline arguments and configurable key/mouse actions. } + +proc ModulesHelp { } { + puts stderr {Name : feh} + puts stderr {Version: 3.10} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr { feh is an X11 image viewer aimed mostly at console users. Unlike most} + puts stderr {other viewers, it does not have a fancy GUI, but simply displays images.} + puts stderr {It is controlled via commandline arguments and configurable key/mouse} + puts stderr {actions.} +} + +conflict feh + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/feh-3.10/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/feh-3.10/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/feh-3.10/.} +setenv FEH_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/feh-3.10-obz5gffwrpsvtrprotekvcxf6o5ttvln} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/fftw/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/fftw/.modulerc new file mode 100644 index 00000000..27c2aebb --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/fftw/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded fftw/3.3.10-um7lbgo +module-hide --soft --hidden-loaded fftw/3.3.10-zsqseck diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/fftw/3.3.10 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/fftw/3.3.10 new file mode 100644 index 00000000..7880cf18 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/fftw/3.3.10 @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:34.723722 +## +## fftw@3.3.10%gcc@13.2.0~mpi+openmp~pfft_patches+shared build_system=autotools patches=872cff9 precision=double,float arch=linux-ubuntu22.04-x86_64_v3/7thbsoo +## + + +module-whatis {FFTW is a C subroutine library for computing the discrete Fourier transform (DFT) in one or more dimensions, of arbitrary input size, and of both real and complex data (as well as of even/odd data, i.e. the discrete cosine/sine transforms or DCT/DST). We believe that FFTW, which is free software, should become the FFT library of choice for most applications.} + +proc ModulesHelp { } { + puts stderr {Name : fftw} + puts stderr {Version: 3.3.10} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {FFTW is a C subroutine library for computing the discrete Fourier} + puts stderr {transform (DFT) in one or more dimensions, of arbitrary input size, and} + puts stderr {of both real and complex data (as well as of even/odd data, i.e. the} + puts stderr {discrete cosine/sine transforms or DCT/DST). We believe that FFTW, which} + puts stderr {is free software, should become the FFT library of choice for most} + puts stderr {applications.} +} + +conflict fftw + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/fftw-3.3.10/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/fftw-3.3.10/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/fftw-3.3.10/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/fftw-3.3.10/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/fftw-3.3.10/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/fftw-3.3.10/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/fftw-3.3.10/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/fftw-3.3.10/.} +setenv FFTW_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fftw-3.3.10-7thbsooeztaafunsgeylz6yyik7jlxmo} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/fftw/3.3.10-um7lbgo b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/fftw/3.3.10-um7lbgo new file mode 100644 index 00000000..053d19fd --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/fftw/3.3.10-um7lbgo @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:34.715494 +## +## fftw@3.3.10%gcc@13.2.0~mpi~openmp~pfft_patches+shared build_system=autotools patches=872cff9 precision=double,float arch=linux-ubuntu22.04-x86_64_v3/um7lbgo +## + + +module-whatis {FFTW is a C subroutine library for computing the discrete Fourier transform (DFT) in one or more dimensions, of arbitrary input size, and of both real and complex data (as well as of even/odd data, i.e. the discrete cosine/sine transforms or DCT/DST). We believe that FFTW, which is free software, should become the FFT library of choice for most applications.} + +proc ModulesHelp { } { + puts stderr {Name : fftw} + puts stderr {Version: 3.3.10} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {FFTW is a C subroutine library for computing the discrete Fourier} + puts stderr {transform (DFT) in one or more dimensions, of arbitrary input size, and} + puts stderr {of both real and complex data (as well as of even/odd data, i.e. the} + puts stderr {discrete cosine/sine transforms or DCT/DST). We believe that FFTW, which} + puts stderr {is free software, should become the FFT library of choice for most} + puts stderr {applications.} +} + +conflict fftw + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fftw-3.3.10-um7lbgonpwmxbqag2odwrkldnbcazpmt/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fftw-3.3.10-um7lbgonpwmxbqag2odwrkldnbcazpmt/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fftw-3.3.10-um7lbgonpwmxbqag2odwrkldnbcazpmt/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fftw-3.3.10-um7lbgonpwmxbqag2odwrkldnbcazpmt/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fftw-3.3.10-um7lbgonpwmxbqag2odwrkldnbcazpmt/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fftw-3.3.10-um7lbgonpwmxbqag2odwrkldnbcazpmt/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fftw-3.3.10-um7lbgonpwmxbqag2odwrkldnbcazpmt/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fftw-3.3.10-um7lbgonpwmxbqag2odwrkldnbcazpmt/.} +setenv FFTW_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fftw-3.3.10-um7lbgonpwmxbqag2odwrkldnbcazpmt} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/fftw/3.3.10-zsqseck b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/fftw/3.3.10-zsqseck new file mode 100644 index 00000000..90fcf861 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/fftw/3.3.10-zsqseck @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:34.788317 +## +## fftw@3.3.10%gcc@11.4.0~mpi+openmp~pfft_patches+shared build_system=autotools precision=double,float arch=linux-ubuntu22.04-x86_64_v3/zsqseck +## + + +module-whatis {FFTW is a C subroutine library for computing the discrete Fourier transform (DFT) in one or more dimensions, of arbitrary input size, and of both real and complex data (as well as of even/odd data, i.e. the discrete cosine/sine transforms or DCT/DST). We believe that FFTW, which is free software, should become the FFT library of choice for most applications.} + +proc ModulesHelp { } { + puts stderr {Name : fftw} + puts stderr {Version: 3.3.10} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {FFTW is a C subroutine library for computing the discrete Fourier} + puts stderr {transform (DFT) in one or more dimensions, of arbitrary input size, and} + puts stderr {of both real and complex data (as well as of even/odd data, i.e. the} + puts stderr {discrete cosine/sine transforms or DCT/DST). We believe that FFTW, which} + puts stderr {is free software, should become the FFT library of choice for most} + puts stderr {applications.} +} + +conflict fftw + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/fftw-3.3.10-zsqseck3cuulnzai2rymyzxw5ejxy4gp/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/fftw-3.3.10-zsqseck3cuulnzai2rymyzxw5ejxy4gp/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/fftw-3.3.10-zsqseck3cuulnzai2rymyzxw5ejxy4gp/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/fftw-3.3.10-zsqseck3cuulnzai2rymyzxw5ejxy4gp/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/fftw-3.3.10-zsqseck3cuulnzai2rymyzxw5ejxy4gp/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/fftw-3.3.10-zsqseck3cuulnzai2rymyzxw5ejxy4gp/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/fftw-3.3.10-zsqseck3cuulnzai2rymyzxw5ejxy4gp/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/fftw-3.3.10-zsqseck3cuulnzai2rymyzxw5ejxy4gp/.} +setenv FFTW_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/fftw-3.3.10-zsqseck3cuulnzai2rymyzxw5ejxy4gp} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/flex/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/flex/.modulerc new file mode 100644 index 00000000..cfc4e8ab --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/flex/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded flex/2.6.3-rl7kg46 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/flex/2.6.3-rl7kg46 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/flex/2.6.3-rl7kg46 new file mode 100644 index 00000000..e9dd1a17 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/flex/2.6.3-rl7kg46 @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:34.798542 +## +## flex@2.6.3%gcc@13.2.0+lex~nls build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/rl7kg46 +## +## Configure options: --disable-nls +## + + +module-whatis {Flex is a tool for generating scanners.} + +proc ModulesHelp { } { + puts stderr {Name : flex} + puts stderr {Version: 2.6.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Flex is a tool for generating scanners.} +} + +conflict flex + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/flex-2.6.3-rl7kg467g56i74ahu5uwcxg4g5sdehii/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/flex-2.6.3-rl7kg467g56i74ahu5uwcxg4g5sdehii/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/flex-2.6.3-rl7kg467g56i74ahu5uwcxg4g5sdehii/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/flex-2.6.3-rl7kg467g56i74ahu5uwcxg4g5sdehii/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/flex-2.6.3-rl7kg467g56i74ahu5uwcxg4g5sdehii/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/flex-2.6.3-rl7kg467g56i74ahu5uwcxg4g5sdehii/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/flex-2.6.3-rl7kg467g56i74ahu5uwcxg4g5sdehii/.} +setenv FLEX_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/flex-2.6.3-rl7kg467g56i74ahu5uwcxg4g5sdehii} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/font-util/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/font-util/.modulerc new file mode 100644 index 00000000..65c41b43 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/font-util/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded font-util/1.4.1-3tjfzwc +module-hide --soft --hidden-loaded font-util/1.4.1-ivn2khr diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/font-util/1.4.1-3tjfzwc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/font-util/1.4.1-3tjfzwc new file mode 100644 index 00000000..0f5340f7 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/font-util/1.4.1-3tjfzwc @@ -0,0 +1,67 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2024-12-19 13:36:34.349618 +## +## font-util@1.4.1%gcc@13.2.0 build_system=autotools fonts=encodings,font-adobe-100dpi,font-adobe-75dpi,font-adobe-utopia-100dpi,font-adobe-utopia-75dpi,font-adobe-utopia-type1,font-alias,font-arabic-misc,font-bh-100dpi,font-bh-75dpi,font-bh-lucidatypewriter-100dpi,font-bh-lucidatypewriter-75dpi,font-bh-type1,font-bitstream-100dpi,font-bitstream-75dpi,font-bitstream-speedo,font-bitstream-type1,font-cronyx-cyrillic,font-cursor-misc,font-daewoo-misc,font-dec-misc,font-ibm-type1,font-isas-misc,font-jis-misc,font-micro-misc,font-misc-cyrillic,font-misc-ethiopic,font-misc-meltho,font-misc-misc,font-mutt-misc,font-schumacher-misc,font-screen-cyrillic,font-sun-misc,font-winitzki-cyrillic,font-xfree86-type1 arch=linux-ubuntu22.04-x86_64_v3/3tjfzwc +## + + +module-whatis {X.Org font package creation/installation utilities and fonts.} + +proc ModulesHelp { } { + puts stderr {Name : font-util} + puts stderr {Version: 1.4.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {X.Org font package creation/installation utilities and fonts.} +} + +conflict font-util + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/font-util-1.4.1-3tjfzwc4zfj4mrjg47754krm2yzjxf46/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/font-util-1.4.1-3tjfzwc4zfj4mrjg47754krm2yzjxf46/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/font-util-1.4.1-3tjfzwc4zfj4mrjg47754krm2yzjxf46/share/man} +prepend-path ACLOCAL_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/font-util-1.4.1-3tjfzwc4zfj4mrjg47754krm2yzjxf46/share/aclocal} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/font-util-1.4.1-3tjfzwc4zfj4mrjg47754krm2yzjxf46/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/font-util-1.4.1-3tjfzwc4zfj4mrjg47754krm2yzjxf46/.} +setenv FONT_UTIL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/font-util-1.4.1-3tjfzwc4zfj4mrjg47754krm2yzjxf46} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/font-util/1.4.1-ivn2khr b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/font-util/1.4.1-ivn2khr new file mode 100644 index 00000000..27cda5ad --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/font-util/1.4.1-ivn2khr @@ -0,0 +1,67 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:34.819563 +## +## font-util@1.4.1%gcc@13.2.0 build_system=autotools fonts=encodings,font-adobe-100dpi,font-adobe-75dpi,font-adobe-utopia-100dpi,font-adobe-utopia-75dpi,font-adobe-utopia-type1,font-alias,font-arabic-misc,font-bh-100dpi,font-bh-75dpi,font-bh-lucidatypewriter-100dpi,font-bh-lucidatypewriter-75dpi,font-bh-type1,font-bitstream-100dpi,font-bitstream-75dpi,font-bitstream-speedo,font-bitstream-type1,font-cronyx-cyrillic,font-cursor-misc,font-daewoo-misc,font-dec-misc,font-ibm-type1,font-isas-misc,font-jis-misc,font-micro-misc,font-misc-cyrillic,font-misc-ethiopic,font-misc-meltho,font-misc-misc,font-mutt-misc,font-schumacher-misc,font-screen-cyrillic,font-sun-misc,font-winitzki-cyrillic,font-xfree86-type1 arch=linux-ubuntu22.04-x86_64_v3/ivn2khr +## + + +module-whatis {X.Org font package creation/installation utilities and fonts.} + +proc ModulesHelp { } { + puts stderr {Name : font-util} + puts stderr {Version: 1.4.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {X.Org font package creation/installation utilities and fonts.} +} + +conflict font-util + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/font-util-1.4.1-ivn2khr5ndr2pmvgcygfw2ifvgjazvd4/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/font-util-1.4.1-ivn2khr5ndr2pmvgcygfw2ifvgjazvd4/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/font-util-1.4.1-ivn2khr5ndr2pmvgcygfw2ifvgjazvd4/share/man} +prepend-path ACLOCAL_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/font-util-1.4.1-ivn2khr5ndr2pmvgcygfw2ifvgjazvd4/share/aclocal} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/font-util-1.4.1-ivn2khr5ndr2pmvgcygfw2ifvgjazvd4/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/font-util-1.4.1-ivn2khr5ndr2pmvgcygfw2ifvgjazvd4/.} +setenv FONT_UTIL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/font-util-1.4.1-ivn2khr5ndr2pmvgcygfw2ifvgjazvd4} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/fontconfig/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/fontconfig/.modulerc new file mode 100644 index 00000000..7a8a9a2d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/fontconfig/.modulerc @@ -0,0 +1,5 @@ +#%Module4.7 +module-hide --soft --hidden-loaded fontconfig/2.15.0-2gn4bhi +module-hide --soft --hidden-loaded fontconfig/2.15.0-6lr2lkh +module-hide --soft --hidden-loaded fontconfig/2.15.0-p2ne7on +module-hide --soft --hidden-loaded fontconfig/2.15.0-b4kwp24 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/fontconfig/2.15.0-2gn4bhi b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/fontconfig/2.15.0-2gn4bhi new file mode 100644 index 00000000..3855f35a --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/fontconfig/2.15.0-2gn4bhi @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:34.827551 +## +## fontconfig@2.15.0%gcc@13.2.0~pic build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/2gn4bhi +## +## Configure options: --enable-libxml2 --disable-docs --with-default-fonts=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/font-util-1.4.1-ivn2khr5ndr2pmvgcygfw2ifvgjazvd4/share/fonts +## + + +module-whatis {Fontconfig is a library for configuring/customizing font access} + +proc ModulesHelp { } { + puts stderr {Name : fontconfig} + puts stderr {Version: 2.15.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Fontconfig is a library for configuring/customizing font access} +} + +conflict fontconfig + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fontconfig-2.15.0-2gn4bhizkdmpvdm37poxmho5cn4idogy/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fontconfig-2.15.0-2gn4bhizkdmpvdm37poxmho5cn4idogy/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fontconfig-2.15.0-2gn4bhizkdmpvdm37poxmho5cn4idogy/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fontconfig-2.15.0-2gn4bhizkdmpvdm37poxmho5cn4idogy/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fontconfig-2.15.0-2gn4bhizkdmpvdm37poxmho5cn4idogy/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fontconfig-2.15.0-2gn4bhizkdmpvdm37poxmho5cn4idogy/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fontconfig-2.15.0-2gn4bhizkdmpvdm37poxmho5cn4idogy/.} +setenv FONTCONFIG_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fontconfig-2.15.0-2gn4bhizkdmpvdm37poxmho5cn4idogy} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/fontconfig/2.15.0-6lr2lkh b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/fontconfig/2.15.0-6lr2lkh new file mode 100644 index 00000000..7095fe45 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/fontconfig/2.15.0-6lr2lkh @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:34.838590 +## +## fontconfig@2.15.0%gcc@13.2.0~pic build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/6lr2lkh +## +## Configure options: --enable-libxml2 --disable-docs --with-default-fonts=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/font-util-1.4.1-ivn2khr5ndr2pmvgcygfw2ifvgjazvd4/share/fonts +## + + +module-whatis {Fontconfig is a library for configuring/customizing font access} + +proc ModulesHelp { } { + puts stderr {Name : fontconfig} + puts stderr {Version: 2.15.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Fontconfig is a library for configuring/customizing font access} +} + +conflict fontconfig + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fontconfig-2.15.0-6lr2lkhmzrhbi5pvk3cuguexjchr5ts4/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fontconfig-2.15.0-6lr2lkhmzrhbi5pvk3cuguexjchr5ts4/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fontconfig-2.15.0-6lr2lkhmzrhbi5pvk3cuguexjchr5ts4/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fontconfig-2.15.0-6lr2lkhmzrhbi5pvk3cuguexjchr5ts4/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fontconfig-2.15.0-6lr2lkhmzrhbi5pvk3cuguexjchr5ts4/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fontconfig-2.15.0-6lr2lkhmzrhbi5pvk3cuguexjchr5ts4/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fontconfig-2.15.0-6lr2lkhmzrhbi5pvk3cuguexjchr5ts4/.} +setenv FONTCONFIG_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fontconfig-2.15.0-6lr2lkhmzrhbi5pvk3cuguexjchr5ts4} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/fontconfig/2.15.0-b4kwp24 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/fontconfig/2.15.0-b4kwp24 new file mode 100644 index 00000000..196c0a4e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/fontconfig/2.15.0-b4kwp24 @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:34.849287 +## +## fontconfig@2.15.0%gcc@13.2.0~pic build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/b4kwp24 +## +## Configure options: --enable-libxml2 --disable-docs --with-default-fonts=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/font-util-1.4.1-ivn2khr5ndr2pmvgcygfw2ifvgjazvd4/share/fonts +## + + +module-whatis {Fontconfig is a library for configuring/customizing font access} + +proc ModulesHelp { } { + puts stderr {Name : fontconfig} + puts stderr {Version: 2.15.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Fontconfig is a library for configuring/customizing font access} +} + +conflict fontconfig + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fontconfig-2.15.0-b4kwp24eezgqoyoehpaexryaz7wb7mni/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fontconfig-2.15.0-b4kwp24eezgqoyoehpaexryaz7wb7mni/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fontconfig-2.15.0-b4kwp24eezgqoyoehpaexryaz7wb7mni/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fontconfig-2.15.0-b4kwp24eezgqoyoehpaexryaz7wb7mni/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fontconfig-2.15.0-b4kwp24eezgqoyoehpaexryaz7wb7mni/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fontconfig-2.15.0-b4kwp24eezgqoyoehpaexryaz7wb7mni/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fontconfig-2.15.0-b4kwp24eezgqoyoehpaexryaz7wb7mni/.} +setenv FONTCONFIG_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fontconfig-2.15.0-b4kwp24eezgqoyoehpaexryaz7wb7mni} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/fontconfig/2.15.0-p2ne7on b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/fontconfig/2.15.0-p2ne7on new file mode 100644 index 00000000..12cc2d3f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/fontconfig/2.15.0-p2ne7on @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2024-12-19 13:36:34.388977 +## +## fontconfig@2.15.0%gcc@13.2.0~pic build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/p2ne7on +## +## Configure options: --enable-libxml2 --disable-docs --with-default-fonts=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/font-util-1.4.1-3tjfzwc4zfj4mrjg47754krm2yzjxf46/share/fonts +## + + +module-whatis {Fontconfig is a library for configuring/customizing font access} + +proc ModulesHelp { } { + puts stderr {Name : fontconfig} + puts stderr {Version: 2.15.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Fontconfig is a library for configuring/customizing font access} +} + +conflict fontconfig + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fontconfig-2.15.0-p2ne7onqbk73cmearogccguj3nzqid6c/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fontconfig-2.15.0-p2ne7onqbk73cmearogccguj3nzqid6c/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fontconfig-2.15.0-p2ne7onqbk73cmearogccguj3nzqid6c/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fontconfig-2.15.0-p2ne7onqbk73cmearogccguj3nzqid6c/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fontconfig-2.15.0-p2ne7onqbk73cmearogccguj3nzqid6c/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fontconfig-2.15.0-p2ne7onqbk73cmearogccguj3nzqid6c/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fontconfig-2.15.0-p2ne7onqbk73cmearogccguj3nzqid6c/.} +setenv FONTCONFIG_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fontconfig-2.15.0-p2ne7onqbk73cmearogccguj3nzqid6c} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/fpart/1.6.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/fpart/1.6.0 new file mode 100644 index 00000000..12c0d8d9 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/fpart/1.6.0 @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:34.861699 +## +## fpart@1.6.0%gcc@13.2.0~debug~embfts~static build_system=autotools fpsynctools=rsync arch=linux-ubuntu22.04-x86_64_v3/4sy6ec6 +## +## Configure options: --disable-embfts --disable-static --disable-debug +## + + +module-whatis {Fpart is a filesystem partitioner. It helps you sort file trees and pack them into bags (called 'partitions'). Fpsync wraps fpart and rsync, tar, or cpio to launch several synchronization jobs in parallel.} + +proc ModulesHelp { } { + puts stderr {Name : fpart} + puts stderr {Version: 1.6.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Fpart is a filesystem partitioner. It helps you sort file trees and pack} + puts stderr {them into bags (called "partitions"). Fpsync wraps fpart and rsync, tar,} + puts stderr {or cpio to launch several synchronization jobs in parallel.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load rsync/3.3.0-wj47ptq +} else { + depends-on rsync/3.3.0-wj47ptq +} +conflict fpart + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/fpart-1.6.0/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/fpart-1.6.0/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/fpart-1.6.0/.} +setenv FPART_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fpart-1.6.0-4sy6ec6k46msny3d5mwxfkpzhb6ckezz} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/freebayes/1.3.6 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/freebayes/1.3.6 new file mode 100644 index 00000000..92a64cea --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/freebayes/1.3.6 @@ -0,0 +1,62 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:34.938217 +## +## freebayes@1.3.6%gcc@13.2.0~strip build_system=meson buildtype=release default_library=shared arch=linux-ubuntu22.04-x86_64_v3/twvoejx +## + + +module-whatis {Bayesian haplotype-based genetic polymorphism discovery and genotyping.} + +proc ModulesHelp { } { + puts stderr {Name : freebayes} + puts stderr {Version: 1.3.6} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Bayesian haplotype-based genetic polymorphism discovery and genotyping.} +} + +conflict freebayes + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/freebayes-1.3.6/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/freebayes-1.3.6/.} +setenv FREEBAYES_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/freebayes-1.3.6-twvoejxtr52f4obwehvo4osqdxlwa2e5} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/freesurfer/7.4.1 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/freesurfer/7.4.1 new file mode 100644 index 00000000..c0c9ecaa --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/freesurfer/7.4.1 @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:35.035764 +## +## freesurfer@7.4.1%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/cfecvyg +## + + +module-whatis {Freesurfer is an open source software suite for processing and analyzing (human) brain MRI images.} + +proc ModulesHelp { } { + puts stderr {Name : freesurfer} + puts stderr {Version: 7.4.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Freesurfer is an open source software suite for processing and analyzing} + puts stderr {(human) brain MRI images.} +} + +conflict freesurfer + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/freesurfer-7.4.1/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/freesurfer-7.4.1/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/freesurfer-7.4.1/.} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/freesurfer-7.4.1/bin} +setenv FREESURFER_HOME {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/freesurfer-7.4.1} +setenv SUBJECTS_DIR {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/freesurfer-7.4.1/subjects} +setenv FUNCTIONALS_DIR {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/freesurfer-7.4.1/sessions} +append-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/freesurfer-7.4.1/mni/share/perl5} +append-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/freesurfer-7.4.1/mni/bin} +setenv FREESURFER_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/freesurfer-7.4.1-cfecvyg72sbsqbant7gjz5bqwm2oetxq} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/freetype/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/freetype/.modulerc new file mode 100644 index 00000000..10681f56 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/freetype/.modulerc @@ -0,0 +1,4 @@ +#%Module4.7 +module-hide --soft --hidden-loaded freetype/2.13.2-iclatib +module-hide --soft --hidden-loaded freetype/2.13.2-rmvva6u +module-hide --soft --hidden-loaded freetype/2.13.2-e262vgd diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/freetype/2.13.2-e262vgd b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/freetype/2.13.2-e262vgd new file mode 100644 index 00000000..ab61e627 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/freetype/2.13.2-e262vgd @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:35.734301 +## +## freetype@2.13.2%gcc@13.2.0+pic+shared build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/e262vgd +## + + +module-whatis {FreeType is a freely available software library to render fonts. It is written in C, designed to be small, efficient, highly customizable, and portable while capable of producing high-quality output (glyph images) of most vector and bitmap font formats.} + +proc ModulesHelp { } { + puts stderr {Name : freetype} + puts stderr {Version: 2.13.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {FreeType is a freely available software library to render fonts. It is} + puts stderr {written in C, designed to be small, efficient, highly customizable, and} + puts stderr {portable while capable of producing high-quality output (glyph images)} + puts stderr {of most vector and bitmap font formats.} +} + +conflict freetype + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/freetype-2.13.2-e262vgdg35uw63egahg2dzuqtha63o7r/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/freetype-2.13.2-e262vgdg35uw63egahg2dzuqtha63o7r/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/freetype-2.13.2-e262vgdg35uw63egahg2dzuqtha63o7r/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/freetype-2.13.2-e262vgdg35uw63egahg2dzuqtha63o7r/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/freetype-2.13.2-e262vgdg35uw63egahg2dzuqtha63o7r/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/freetype-2.13.2-e262vgdg35uw63egahg2dzuqtha63o7r/share/man} +prepend-path ACLOCAL_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/freetype-2.13.2-e262vgdg35uw63egahg2dzuqtha63o7r/share/aclocal} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/freetype-2.13.2-e262vgdg35uw63egahg2dzuqtha63o7r/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/freetype-2.13.2-e262vgdg35uw63egahg2dzuqtha63o7r/.} +setenv FREETYPE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/freetype-2.13.2-e262vgdg35uw63egahg2dzuqtha63o7r} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/freetype/2.13.2-iclatib b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/freetype/2.13.2-iclatib new file mode 100644 index 00000000..443f2d12 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/freetype/2.13.2-iclatib @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:35.700011 +## +## freetype@2.13.2%gcc@11.4.0+pic+shared build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/iclatib +## + + +module-whatis {FreeType is a freely available software library to render fonts. It is written in C, designed to be small, efficient, highly customizable, and portable while capable of producing high-quality output (glyph images) of most vector and bitmap font formats.} + +proc ModulesHelp { } { + puts stderr {Name : freetype} + puts stderr {Version: 2.13.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {FreeType is a freely available software library to render fonts. It is} + puts stderr {written in C, designed to be small, efficient, highly customizable, and} + puts stderr {portable while capable of producing high-quality output (glyph images)} + puts stderr {of most vector and bitmap font formats.} +} + +conflict freetype + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/freetype-2.13.2-iclatiba4duibdtvu4ag3vs334zyp4qi/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/freetype-2.13.2-iclatiba4duibdtvu4ag3vs334zyp4qi/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/freetype-2.13.2-iclatiba4duibdtvu4ag3vs334zyp4qi/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/freetype-2.13.2-iclatiba4duibdtvu4ag3vs334zyp4qi/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/freetype-2.13.2-iclatiba4duibdtvu4ag3vs334zyp4qi/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/freetype-2.13.2-iclatiba4duibdtvu4ag3vs334zyp4qi/share/man} +prepend-path ACLOCAL_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/freetype-2.13.2-iclatiba4duibdtvu4ag3vs334zyp4qi/share/aclocal} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/freetype-2.13.2-iclatiba4duibdtvu4ag3vs334zyp4qi/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/freetype-2.13.2-iclatiba4duibdtvu4ag3vs334zyp4qi/.} +setenv FREETYPE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/freetype-2.13.2-iclatiba4duibdtvu4ag3vs334zyp4qi} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/freetype/2.13.2-rmvva6u b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/freetype/2.13.2-rmvva6u new file mode 100644 index 00000000..04997242 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/freetype/2.13.2-rmvva6u @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2024-12-19 13:36:35.287751 +## +## freetype@2.13.2%gcc@13.2.0+pic+shared build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/rmvva6u +## + + +module-whatis {FreeType is a freely available software library to render fonts. It is written in C, designed to be small, efficient, highly customizable, and portable while capable of producing high-quality output (glyph images) of most vector and bitmap font formats.} + +proc ModulesHelp { } { + puts stderr {Name : freetype} + puts stderr {Version: 2.13.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {FreeType is a freely available software library to render fonts. It is} + puts stderr {written in C, designed to be small, efficient, highly customizable, and} + puts stderr {portable while capable of producing high-quality output (glyph images)} + puts stderr {of most vector and bitmap font formats.} +} + +conflict freetype + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/freetype-2.13.2-rmvva6uoynprpemmiwlp7na5yu2rufvr/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/freetype-2.13.2-rmvva6uoynprpemmiwlp7na5yu2rufvr/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/freetype-2.13.2-rmvva6uoynprpemmiwlp7na5yu2rufvr/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/freetype-2.13.2-rmvva6uoynprpemmiwlp7na5yu2rufvr/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/freetype-2.13.2-rmvva6uoynprpemmiwlp7na5yu2rufvr/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/freetype-2.13.2-rmvva6uoynprpemmiwlp7na5yu2rufvr/share/man} +prepend-path ACLOCAL_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/freetype-2.13.2-rmvva6uoynprpemmiwlp7na5yu2rufvr/share/aclocal} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/freetype-2.13.2-rmvva6uoynprpemmiwlp7na5yu2rufvr/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/freetype-2.13.2-rmvva6uoynprpemmiwlp7na5yu2rufvr/.} +setenv FREETYPE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/freetype-2.13.2-rmvva6uoynprpemmiwlp7na5yu2rufvr} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/fribidi/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/fribidi/.modulerc new file mode 100644 index 00000000..8b9ef3ec --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/fribidi/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded fribidi/1.0.12-ea6nkcw diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/fribidi/1.0.12-ea6nkcw b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/fribidi/1.0.12-ea6nkcw new file mode 100644 index 00000000..63af6cfc --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/fribidi/1.0.12-ea6nkcw @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:35.745905 +## +## fribidi@1.0.12%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/ea6nkcw +## + + +module-whatis {GNU FriBidi: The Free Implementation of the Unicode Bidirectional Algorithm.} + +proc ModulesHelp { } { + puts stderr {Name : fribidi} + puts stderr {Version: 1.0.12} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {GNU FriBidi: The Free Implementation of the Unicode Bidirectional} + puts stderr {Algorithm.} +} + +conflict fribidi + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fribidi-1.0.12-ea6nkcw4q2ayhhkigofnorlyfijnjetn/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fribidi-1.0.12-ea6nkcw4q2ayhhkigofnorlyfijnjetn/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fribidi-1.0.12-ea6nkcw4q2ayhhkigofnorlyfijnjetn/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fribidi-1.0.12-ea6nkcw4q2ayhhkigofnorlyfijnjetn/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fribidi-1.0.12-ea6nkcw4q2ayhhkigofnorlyfijnjetn/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fribidi-1.0.12-ea6nkcw4q2ayhhkigofnorlyfijnjetn/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fribidi-1.0.12-ea6nkcw4q2ayhhkigofnorlyfijnjetn/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fribidi-1.0.12-ea6nkcw4q2ayhhkigofnorlyfijnjetn/.} +setenv FRIBIDI_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fribidi-1.0.12-ea6nkcw4q2ayhhkigofnorlyfijnjetn} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/fuse-overlayfs/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/fuse-overlayfs/.modulerc new file mode 100644 index 00000000..ddf7eccf --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/fuse-overlayfs/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded fuse-overlayfs/1.13-wuljqqn diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/fuse-overlayfs/1.13-wuljqqn b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/fuse-overlayfs/1.13-wuljqqn new file mode 100644 index 00000000..912527fb --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/fuse-overlayfs/1.13-wuljqqn @@ -0,0 +1,64 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:35.766651 +## +## fuse-overlayfs@1.13%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/wuljqqn +## + + +module-whatis {An implementation of overlay+shiftfs in FUSE for rootless containers.} + +proc ModulesHelp { } { + puts stderr {Name : fuse-overlayfs} + puts stderr {Version: 1.13} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {An implementation of overlay+shiftfs in FUSE for rootless containers.} +} + +conflict fuse-overlayfs + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fuse-overlayfs-1.13-wuljqqneknx576wqucpomf6l765pj43x/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fuse-overlayfs-1.13-wuljqqneknx576wqucpomf6l765pj43x/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fuse-overlayfs-1.13-wuljqqneknx576wqucpomf6l765pj43x/.} +setenv FUSE_OVERLAYFS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fuse-overlayfs-1.13-wuljqqneknx576wqucpomf6l765pj43x} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4abla/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4abla/.modulerc new file mode 100644 index 00000000..564fb9ac --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4abla/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded g4abla/3.3-g6qwumx diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4abla/3.3-g6qwumx b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4abla/3.3-g6qwumx new file mode 100644 index 00000000..b5c360c6 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4abla/3.3-g6qwumx @@ -0,0 +1,61 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:35.775150 +## +## g4abla@3.3%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/g6qwumx +## + + +module-whatis {Geant4 data for nuclear shell effects in INCL/ABLA hadronic mode} + +proc ModulesHelp { } { + puts stderr {Name : g4abla} + puts stderr {Version: 3.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Geant4 data for nuclear shell effects in INCL/ABLA hadronic mode} +} + +conflict g4abla + +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/g4abla-3.3-g6qwumxkojgygxckme7j3w6mtyw5fivz/.} +setenv G4ABLA_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/g4abla-3.3-g6qwumxkojgygxckme7j3w6mtyw5fivz} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4emlow/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4emlow/.modulerc new file mode 100644 index 00000000..321265ab --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4emlow/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded g4emlow/8.5-gp7zwup diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4emlow/8.5-gp7zwup b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4emlow/8.5-gp7zwup new file mode 100644 index 00000000..e73b1b11 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4emlow/8.5-gp7zwup @@ -0,0 +1,61 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:35.796203 +## +## g4emlow@8.5%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/gp7zwup +## + + +module-whatis {Geant4 data files for low energy electromagnetic processes.} + +proc ModulesHelp { } { + puts stderr {Name : g4emlow} + puts stderr {Version: 8.5} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Geant4 data files for low energy electromagnetic processes.} +} + +conflict g4emlow + +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/g4emlow-8.5-gp7zwupxdj3r2tzitmdbrgz4altxykxi/.} +setenv G4EMLOW_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/g4emlow-8.5-gp7zwupxdj3r2tzitmdbrgz4altxykxi} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4ensdfstate/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4ensdfstate/.modulerc new file mode 100644 index 00000000..9087d189 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4ensdfstate/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded g4ensdfstate/2.3-fz63cw2 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4ensdfstate/2.3-fz63cw2 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4ensdfstate/2.3-fz63cw2 new file mode 100644 index 00000000..b6fc7838 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4ensdfstate/2.3-fz63cw2 @@ -0,0 +1,61 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:35.817432 +## +## g4ensdfstate@2.3%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/fz63cw2 +## + + +module-whatis {Geant4 data for nuclides properties} + +proc ModulesHelp { } { + puts stderr {Name : g4ensdfstate} + puts stderr {Version: 2.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Geant4 data for nuclides properties} +} + +conflict g4ensdfstate + +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/g4ensdfstate-2.3-fz63cw2fphjul5exvw55jehimmkxswht/.} +setenv G4ENSDFSTATE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/g4ensdfstate-2.3-fz63cw2fphjul5exvw55jehimmkxswht} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4incl/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4incl/.modulerc new file mode 100644 index 00000000..45199aa3 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4incl/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded g4incl/1.2-rlei3we diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4incl/1.2-rlei3we b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4incl/1.2-rlei3we new file mode 100644 index 00000000..63644b2e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4incl/1.2-rlei3we @@ -0,0 +1,62 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:35.838532 +## +## g4incl@1.2%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/rlei3we +## + + +module-whatis {Geant4 data for evaluated particle cross-sections on natural composition of elements} + +proc ModulesHelp { } { + puts stderr {Name : g4incl} + puts stderr {Version: 1.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Geant4 data for evaluated particle cross-sections on natural composition} + puts stderr {of elements} +} + +conflict g4incl + +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/g4incl-1.2-rlei3we2fyxw7atx3ltu4h35iid5vrqq/.} +setenv G4INCL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/g4incl-1.2-rlei3we2fyxw7atx3ltu4h35iid5vrqq} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4ndl/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4ndl/.modulerc new file mode 100644 index 00000000..aefca9ed --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4ndl/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded g4ndl/4.7-crqpnhy diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4ndl/4.7-crqpnhy b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4ndl/4.7-crqpnhy new file mode 100644 index 00000000..14400c89 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4ndl/4.7-crqpnhy @@ -0,0 +1,61 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:35.859503 +## +## g4ndl@4.7%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/crqpnhy +## + + +module-whatis {Geant4 Neutron data files with thermal cross sections} + +proc ModulesHelp { } { + puts stderr {Name : g4ndl} + puts stderr {Version: 4.7} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Geant4 Neutron data files with thermal cross sections} +} + +conflict g4ndl + +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/g4ndl-4.7-crqpnhyqnlt7pxdd5fh2kjjtqljmnk4t/.} +setenv G4NDL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/g4ndl-4.7-crqpnhyqnlt7pxdd5fh2kjjtqljmnk4t} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4particlexs/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4particlexs/.modulerc new file mode 100644 index 00000000..e0285e29 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4particlexs/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded g4particlexs/4.0-y5hvfwp diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4particlexs/4.0-y5hvfwp b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4particlexs/4.0-y5hvfwp new file mode 100644 index 00000000..8160cc25 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4particlexs/4.0-y5hvfwp @@ -0,0 +1,62 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:35.880725 +## +## g4particlexs@4.0%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/y5hvfwp +## + + +module-whatis {Geant4 data for evaluated particle cross-sections on natural composition of elements} + +proc ModulesHelp { } { + puts stderr {Name : g4particlexs} + puts stderr {Version: 4.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Geant4 data for evaluated particle cross-sections on natural composition} + puts stderr {of elements} +} + +conflict g4particlexs + +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/g4particlexs-4.0-y5hvfwp2rdlvwt3577lpe7xdkar53uim/.} +setenv G4PARTICLEXS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/g4particlexs-4.0-y5hvfwp2rdlvwt3577lpe7xdkar53uim} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4photonevaporation/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4photonevaporation/.modulerc new file mode 100644 index 00000000..26e4492f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4photonevaporation/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded g4photonevaporation/5.7-t6wuglj diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4photonevaporation/5.7-t6wuglj b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4photonevaporation/5.7-t6wuglj new file mode 100644 index 00000000..4bd9c15d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4photonevaporation/5.7-t6wuglj @@ -0,0 +1,61 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:35.901808 +## +## g4photonevaporation@5.7%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/t6wuglj +## + + +module-whatis {Geant4 data for photon evaporation} + +proc ModulesHelp { } { + puts stderr {Name : g4photonevaporation} + puts stderr {Version: 5.7} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Geant4 data for photon evaporation} +} + +conflict g4photonevaporation + +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/g4photonevaporation-5.7-t6wugljmqdiemn45fhbvxctrfpptnmoa/.} +setenv G4PHOTONEVAPORATION_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/g4photonevaporation-5.7-t6wugljmqdiemn45fhbvxctrfpptnmoa} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4pii/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4pii/.modulerc new file mode 100644 index 00000000..0ea3ea2f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4pii/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded g4pii/1.3-ybxnrrd diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4pii/1.3-ybxnrrd b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4pii/1.3-ybxnrrd new file mode 100644 index 00000000..a91880ff --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4pii/1.3-ybxnrrd @@ -0,0 +1,61 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:35.923131 +## +## g4pii@1.3%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/ybxnrrd +## + + +module-whatis {Geant4 data for shell ionisation cross-sections} + +proc ModulesHelp { } { + puts stderr {Name : g4pii} + puts stderr {Version: 1.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Geant4 data for shell ionisation cross-sections} +} + +conflict g4pii + +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/g4pii-1.3-ybxnrrd2si27qmwof6gh3uewdvvprfik/.} +setenv G4PII_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/g4pii-1.3-ybxnrrd2si27qmwof6gh3uewdvvprfik} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4radioactivedecay/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4radioactivedecay/.modulerc new file mode 100644 index 00000000..41ea6a67 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4radioactivedecay/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded g4radioactivedecay/5.6-wmmgfqb diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4radioactivedecay/5.6-wmmgfqb b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4radioactivedecay/5.6-wmmgfqb new file mode 100644 index 00000000..5e97780a --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4radioactivedecay/5.6-wmmgfqb @@ -0,0 +1,61 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:35.944131 +## +## g4radioactivedecay@5.6%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/wmmgfqb +## + + +module-whatis {Geant4 data files for radio-active decay hadronic processes} + +proc ModulesHelp { } { + puts stderr {Name : g4radioactivedecay} + puts stderr {Version: 5.6} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Geant4 data files for radio-active decay hadronic processes} +} + +conflict g4radioactivedecay + +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/g4radioactivedecay-5.6-wmmgfqb6tjuxfsyz63ftnlign6oivfxi/.} +setenv G4RADIOACTIVEDECAY_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/g4radioactivedecay-5.6-wmmgfqb6tjuxfsyz63ftnlign6oivfxi} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4realsurface/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4realsurface/.modulerc new file mode 100644 index 00000000..3fbb282c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4realsurface/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded g4realsurface/2.2-zi343if diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4realsurface/2.2-zi343if b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4realsurface/2.2-zi343if new file mode 100644 index 00000000..1cba7843 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4realsurface/2.2-zi343if @@ -0,0 +1,61 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:35.965469 +## +## g4realsurface@2.2%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/zi343if +## + + +module-whatis {Geant4 data for measured optical surface reflectance} + +proc ModulesHelp { } { + puts stderr {Name : g4realsurface} + puts stderr {Version: 2.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Geant4 data for measured optical surface reflectance} +} + +conflict g4realsurface + +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/g4realsurface-2.2-zi343ifmbhnecsfsjbeulo6ys3met5dx/.} +setenv G4REALSURFACE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/g4realsurface-2.2-zi343ifmbhnecsfsjbeulo6ys3met5dx} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4saiddata/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4saiddata/.modulerc new file mode 100644 index 00000000..b2954a38 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4saiddata/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded g4saiddata/2.0-spkjojk diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4saiddata/2.0-spkjojk b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4saiddata/2.0-spkjojk new file mode 100644 index 00000000..af5b2c6f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/g4saiddata/2.0-spkjojk @@ -0,0 +1,61 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:35.986471 +## +## g4saiddata@2.0%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/spkjojk +## + + +module-whatis {Geant4 data from evaluated cross-sections in SAID data-base} + +proc ModulesHelp { } { + puts stderr {Name : g4saiddata} + puts stderr {Version: 2.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Geant4 data from evaluated cross-sections in SAID data-base} +} + +conflict g4saiddata + +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/g4saiddata-2.0-spkjojk7gzwz5pqxnkrjlcfglec6mngq/.} +setenv G4SAIDDATA_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/g4saiddata-2.0-spkjojk7gzwz5pqxnkrjlcfglec6mngq} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gatk/4.5.0.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gatk/4.5.0.0 new file mode 100644 index 00000000..ffccdfb6 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gatk/4.5.0.0 @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:36.008626 +## +## gatk@4.5.0.0%gcc@13.2.0~r build_system=generic arch=linux-ubuntu22.04-x86_64_v3/jqykbdf +## + + +module-whatis { Genome Analysis Toolkit Variant Discovery in High-Throughput Sequencing Data } + +proc ModulesHelp { } { + puts stderr {Name : gatk} + puts stderr {Version: 4.5.0.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr { Genome Analysis Toolkit Variant Discovery in High-Throughput Sequencing} + puts stderr {Data} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load openjdk/17.0.11_9 + module load python/3.13.0-67ujzlz +} else { + depends-on openjdk/17.0.11_9 + depends-on python/3.13.0-67ujzlz +} +conflict gatk + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/gatk-4.5.0.0/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/gatk-4.5.0.0/.} +prepend-path GATK {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/gatk-4.5.0.0/bin/GenomeAnalysisTK.jar} +setenv GATK_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gatk-4.5.0.0-jqykbdfkseohgulqpf33imbzfxyam4h4} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gcc-runtime/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gcc-runtime/.modulerc new file mode 100644 index 00000000..a32f0246 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gcc-runtime/.modulerc @@ -0,0 +1,7 @@ +#%Module4.7 +module-hide --soft --hidden-loaded gcc-runtime/7.5.0-af2jk6h +module-hide --soft --hidden-loaded gcc-runtime/9.5.0-qbxddrp +module-hide --soft --hidden-loaded gcc-runtime/11.4.0-f47qm6q +module-hide --soft --hidden-loaded gcc-runtime/11.4.0-hshzy76 +module-hide --soft --hidden-loaded gcc-runtime/13.2.0-vo5ffgy +module-hide --soft --hidden-loaded gcc-runtime/13.2.0-y4ja4tr diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gcc-runtime/11.4.0-f47qm6q b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gcc-runtime/11.4.0-f47qm6q new file mode 100644 index 00000000..3c4e5d1c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gcc-runtime/11.4.0-f47qm6q @@ -0,0 +1,62 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:36.621294 +## +## gcc-runtime@11.4.0%gcc@11.4.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/f47qm6q +## + + +module-whatis {Package for GCC compiler runtime libraries} + +proc ModulesHelp { } { + puts stderr {Name : gcc-runtime} + puts stderr {Version: 11.4.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Package for GCC compiler runtime libraries} +} + +conflict gcc-runtime + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-runtime-11.4.0-f47qm6qeplqyahc4zhfpfdnf5mo6gxvd/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-runtime-11.4.0-f47qm6qeplqyahc4zhfpfdnf5mo6gxvd/.} +setenv GCC_RUNTIME_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-runtime-11.4.0-f47qm6qeplqyahc4zhfpfdnf5mo6gxvd} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gcc-runtime/11.4.0-hshzy76 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gcc-runtime/11.4.0-hshzy76 new file mode 100644 index 00000000..9813a7f2 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gcc-runtime/11.4.0-hshzy76 @@ -0,0 +1,62 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:36.628035 +## +## gcc-runtime@11.4.0%gcc@11.4.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/hshzy76 +## + + +module-whatis {Package for GCC compiler runtime libraries} + +proc ModulesHelp { } { + puts stderr {Name : gcc-runtime} + puts stderr {Version: 11.4.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Package for GCC compiler runtime libraries} +} + +conflict gcc-runtime + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-runtime-11.4.0-hshzy762rns57ibvxiyi3qqvc4nehse2/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-runtime-11.4.0-hshzy762rns57ibvxiyi3qqvc4nehse2/.} +setenv GCC_RUNTIME_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gcc-runtime-11.4.0-hshzy762rns57ibvxiyi3qqvc4nehse2} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gcc-runtime/13.2.0-vo5ffgy b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gcc-runtime/13.2.0-vo5ffgy new file mode 100644 index 00000000..d77a7d2b --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gcc-runtime/13.2.0-vo5ffgy @@ -0,0 +1,62 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:36.634628 +## +## gcc-runtime@13.2.0%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/vo5ffgy +## + + +module-whatis {Package for GCC compiler runtime libraries} + +proc ModulesHelp { } { + puts stderr {Name : gcc-runtime} + puts stderr {Version: 13.2.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Package for GCC compiler runtime libraries} +} + +conflict gcc-runtime + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gcc-runtime-13.2.0-vo5ffgytselabaupmqjm6aqrb27hqsdk/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gcc-runtime-13.2.0-vo5ffgytselabaupmqjm6aqrb27hqsdk/.} +setenv GCC_RUNTIME_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gcc-runtime-13.2.0-vo5ffgytselabaupmqjm6aqrb27hqsdk} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gcc-runtime/13.2.0-y4ja4tr b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gcc-runtime/13.2.0-y4ja4tr new file mode 100644 index 00000000..c6590772 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gcc-runtime/13.2.0-y4ja4tr @@ -0,0 +1,62 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:36.641284 +## +## gcc-runtime@13.2.0%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/y4ja4tr +## + + +module-whatis {Package for GCC compiler runtime libraries} + +proc ModulesHelp { } { + puts stderr {Name : gcc-runtime} + puts stderr {Version: 13.2.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Package for GCC compiler runtime libraries} +} + +conflict gcc-runtime + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gcc-runtime-13.2.0-y4ja4trdxkpuyidxmq3vwsmylih2czjs/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gcc-runtime-13.2.0-y4ja4trdxkpuyidxmq3vwsmylih2czjs/.} +setenv GCC_RUNTIME_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gcc-runtime-13.2.0-y4ja4trdxkpuyidxmq3vwsmylih2czjs} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gcc-runtime/7.5.0-af2jk6h b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gcc-runtime/7.5.0-af2jk6h new file mode 100644 index 00000000..e299fb44 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gcc-runtime/7.5.0-af2jk6h @@ -0,0 +1,62 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:36.582076 +## +## gcc-runtime@7.5.0%gcc@7.5.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/af2jk6h +## + + +module-whatis {Package for GCC compiler runtime libraries} + +proc ModulesHelp { } { + puts stderr {Name : gcc-runtime} + puts stderr {Version: 7.5.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Package for GCC compiler runtime libraries} +} + +conflict gcc-runtime + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/gcc-runtime-7.5.0-af2jk6hkvq6mgi33pe4szgsamlivkb6x/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/gcc-runtime-7.5.0-af2jk6hkvq6mgi33pe4szgsamlivkb6x/.} +setenv GCC_RUNTIME_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/gcc-runtime-7.5.0-af2jk6hkvq6mgi33pe4szgsamlivkb6x} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gcc-runtime/9.5.0-qbxddrp b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gcc-runtime/9.5.0-qbxddrp new file mode 100644 index 00000000..4ce30a3f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gcc-runtime/9.5.0-qbxddrp @@ -0,0 +1,62 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:36.588648 +## +## gcc-runtime@9.5.0%gcc@9.5.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/qbxddrp +## + + +module-whatis {Package for GCC compiler runtime libraries} + +proc ModulesHelp { } { + puts stderr {Name : gcc-runtime} + puts stderr {Version: 9.5.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Package for GCC compiler runtime libraries} +} + +conflict gcc-runtime + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-9.5.0/gcc-runtime-9.5.0-qbxddrphqnoa2h6h4wfzda5bsokhhpmr/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-9.5.0/gcc-runtime-9.5.0-qbxddrphqnoa2h6h4wfzda5bsokhhpmr/.} +setenv GCC_RUNTIME_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-9.5.0/gcc-runtime-9.5.0-qbxddrphqnoa2h6h4wfzda5bsokhhpmr} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gcc/11.4.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gcc/11.4.0 new file mode 100644 index 00000000..aea9ae77 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gcc/11.4.0 @@ -0,0 +1,75 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:36.543980 +## +## gcc@11.4.0%gcc@9.5.0~binutils+bootstrap~graphite~nvptx~piclibs~profiled~strip build_system=autotools build_type=RelWithDebInfo languages='c,c++,fortran' arch=linux-ubuntu22.04-x86_64_v3/e6nrl5a +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {The GNU Compiler Collection includes front ends for C, C++, Objective-C, Fortran, Ada, and Go, as well as libraries for these languages.} + +proc ModulesHelp { } { + puts stderr {Name : gcc} + puts stderr {Version: 11.4.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The GNU Compiler Collection includes front ends for C, C++, Objective-C,} + puts stderr {Fortran, Ada, and Go, as well as libraries for these languages.} +} + +conflict gcc + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-11.4.0/lib64} +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-11.4.0/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-11.4.0/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-11.4.0/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-11.4.0/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-11.4.0/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-11.4.0/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-11.4.0/.} +setenv CC {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-11.4.0/bin/gcc} +setenv FC {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-11.4.0/bin/gfortran} +setenv F77 {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-11.4.0/bin/gfortran} +setenv GCC_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-11.4.0} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gcc/13.2.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gcc/13.2.0 new file mode 100644 index 00000000..596fa4d8 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gcc/13.2.0 @@ -0,0 +1,75 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:36.562922 +## +## gcc@13.2.0%gcc@11.4.0~binutils+bootstrap~graphite~mold~nvptx~piclibs~profiled~strip build_system=autotools build_type=RelWithDebInfo languages='c,c++,fortran' arch=linux-ubuntu22.04-x86_64_v3/g74nxwu +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {The GNU Compiler Collection includes front ends for C, C++, Objective-C, Fortran, Ada, and Go, as well as libraries for these languages.} + +proc ModulesHelp { } { + puts stderr {Name : gcc} + puts stderr {Version: 13.2.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The GNU Compiler Collection includes front ends for C, C++, Objective-C,} + puts stderr {Fortran, Ada, and Go, as well as libraries for these languages.} +} + +conflict gcc + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-13.2.0/lib64} +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-13.2.0/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-13.2.0/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-13.2.0/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-13.2.0/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-13.2.0/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-13.2.0/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-13.2.0/.} +setenv CC {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-13.2.0/bin/gcc} +setenv FC {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-13.2.0/bin/gfortran} +setenv F77 {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-13.2.0/bin/gfortran} +setenv GCC_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-13.2.0} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gcc/7.5.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gcc/7.5.0 new file mode 100644 index 00000000..f197e739 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gcc/7.5.0 @@ -0,0 +1,75 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:36.524234 +## +## gcc@7.5.0%gcc@11.4.0~binutils+bootstrap~graphite~nvptx~piclibs~profiled~strip build_system=autotools build_type=RelWithDebInfo languages='c,c++,fortran' patches=98a9c96,b620e92,d4919d6,dc1ca24 arch=linux-ubuntu22.04-x86_64_v3/ja3voap +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {The GNU Compiler Collection includes front ends for C, C++, Objective-C, Fortran, Ada, and Go, as well as libraries for these languages.} + +proc ModulesHelp { } { + puts stderr {Name : gcc} + puts stderr {Version: 7.5.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The GNU Compiler Collection includes front ends for C, C++, Objective-C,} + puts stderr {Fortran, Ada, and Go, as well as libraries for these languages.} +} + +conflict gcc + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-7.5.0/lib64} +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-7.5.0/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-7.5.0/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-7.5.0/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-7.5.0/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-7.5.0/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-7.5.0/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-7.5.0/.} +setenv CC {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-7.5.0/bin/gcc} +setenv FC {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-7.5.0/bin/gfortran} +setenv F77 {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-7.5.0/bin/gfortran} +setenv GCC_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-7.5.0} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gdbm/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gdbm/.modulerc new file mode 100644 index 00000000..548a8503 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gdbm/.modulerc @@ -0,0 +1,5 @@ +#%Module4.7 +module-hide --soft --hidden-loaded gdbm/1.23-ohbrdtp +module-hide --soft --hidden-loaded gdbm/1.23-2cugdki +module-hide --soft --hidden-loaded gdbm/1.24-35d2c4n +module-hide --soft --hidden-loaded gdbm/1.24-mj6gey4 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gdbm/1.23-2cugdki b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gdbm/1.23-2cugdki new file mode 100644 index 00000000..a13eb5f1 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gdbm/1.23-2cugdki @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:36.696846 +## +## gdbm@1.23%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/2cugdki +## +## Configure options: --enable-libgdbm-compat CPPFLAGS=-D_GNU_SOURCE +## + + +module-whatis {GNU dbm (or GDBM, for short) is a library of database functions that use extensible hashing and work similar to the standard UNIX dbm. These routines are provided to a programmer needing to create and manipulate a hashed database.} + +proc ModulesHelp { } { + puts stderr {Name : gdbm} + puts stderr {Version: 1.23} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {GNU dbm (or GDBM, for short) is a library of database functions that use} + puts stderr {extensible hashing and work similar to the standard UNIX dbm. These} + puts stderr {routines are provided to a programmer needing to create and manipulate a} + puts stderr {hashed database.} +} + +conflict gdbm + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gdbm-1.23-2cugdkieyw4a3tx42jdsf2defuvn2xxb/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gdbm-1.23-2cugdkieyw4a3tx42jdsf2defuvn2xxb/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gdbm-1.23-2cugdkieyw4a3tx42jdsf2defuvn2xxb/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gdbm-1.23-2cugdkieyw4a3tx42jdsf2defuvn2xxb/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gdbm-1.23-2cugdkieyw4a3tx42jdsf2defuvn2xxb/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gdbm-1.23-2cugdkieyw4a3tx42jdsf2defuvn2xxb/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gdbm-1.23-2cugdkieyw4a3tx42jdsf2defuvn2xxb/.} +setenv GDBM_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gdbm-1.23-2cugdkieyw4a3tx42jdsf2defuvn2xxb} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gdbm/1.23-ohbrdtp b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gdbm/1.23-ohbrdtp new file mode 100644 index 00000000..72a3cf6a --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gdbm/1.23-ohbrdtp @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:36.649924 +## +## gdbm@1.23%gcc@11.4.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/ohbrdtp +## +## Configure options: --enable-libgdbm-compat CPPFLAGS=-D_GNU_SOURCE +## + + +module-whatis {GNU dbm (or GDBM, for short) is a library of database functions that use extensible hashing and work similar to the standard UNIX dbm. These routines are provided to a programmer needing to create and manipulate a hashed database.} + +proc ModulesHelp { } { + puts stderr {Name : gdbm} + puts stderr {Version: 1.23} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {GNU dbm (or GDBM, for short) is a library of database functions that use} + puts stderr {extensible hashing and work similar to the standard UNIX dbm. These} + puts stderr {routines are provided to a programmer needing to create and manipulate a} + puts stderr {hashed database.} +} + +conflict gdbm + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gdbm-1.23-ohbrdtphnhbycgd6p3btrxzjbtkwiqn6/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gdbm-1.23-ohbrdtphnhbycgd6p3btrxzjbtkwiqn6/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gdbm-1.23-ohbrdtphnhbycgd6p3btrxzjbtkwiqn6/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gdbm-1.23-ohbrdtphnhbycgd6p3btrxzjbtkwiqn6/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gdbm-1.23-ohbrdtphnhbycgd6p3btrxzjbtkwiqn6/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gdbm-1.23-ohbrdtphnhbycgd6p3btrxzjbtkwiqn6/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gdbm-1.23-ohbrdtphnhbycgd6p3btrxzjbtkwiqn6/.} +setenv GDBM_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gdbm-1.23-ohbrdtphnhbycgd6p3btrxzjbtkwiqn6} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gdbm/1.24-35d2c4n b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gdbm/1.24-35d2c4n new file mode 100644 index 00000000..48444648 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gdbm/1.24-35d2c4n @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:36.756938 +## +## gdbm@1.24%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/35d2c4n +## +## Configure options: --enable-libgdbm-compat CPPFLAGS=-D_GNU_SOURCE +## + + +module-whatis {GNU dbm (or GDBM, for short) is a library of database functions that use extensible hashing and work similar to the standard UNIX dbm. These routines are provided to a programmer needing to create and manipulate a hashed database.} + +proc ModulesHelp { } { + puts stderr {Name : gdbm} + puts stderr {Version: 1.24} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {GNU dbm (or GDBM, for short) is a library of database functions that use} + puts stderr {extensible hashing and work similar to the standard UNIX dbm. These} + puts stderr {routines are provided to a programmer needing to create and manipulate a} + puts stderr {hashed database.} +} + +conflict gdbm + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gdbm-1.24-35d2c4n7bb3h4mvlrzayio5mb6w55brf/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gdbm-1.24-35d2c4n7bb3h4mvlrzayio5mb6w55brf/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gdbm-1.24-35d2c4n7bb3h4mvlrzayio5mb6w55brf/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gdbm-1.24-35d2c4n7bb3h4mvlrzayio5mb6w55brf/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gdbm-1.24-35d2c4n7bb3h4mvlrzayio5mb6w55brf/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gdbm-1.24-35d2c4n7bb3h4mvlrzayio5mb6w55brf/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gdbm-1.24-35d2c4n7bb3h4mvlrzayio5mb6w55brf/.} +setenv GDBM_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gdbm-1.24-35d2c4n7bb3h4mvlrzayio5mb6w55brf} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gdbm/1.24-mj6gey4 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gdbm/1.24-mj6gey4 new file mode 100644 index 00000000..8118aa8f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gdbm/1.24-mj6gey4 @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:36.723129 +## +## gdbm@1.24%gcc@7.5.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/mj6gey4 +## +## Configure options: --enable-libgdbm-compat CPPFLAGS=-D_GNU_SOURCE +## + + +module-whatis {GNU dbm (or GDBM, for short) is a library of database functions that use extensible hashing and work similar to the standard UNIX dbm. These routines are provided to a programmer needing to create and manipulate a hashed database.} + +proc ModulesHelp { } { + puts stderr {Name : gdbm} + puts stderr {Version: 1.24} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {GNU dbm (or GDBM, for short) is a library of database functions that use} + puts stderr {extensible hashing and work similar to the standard UNIX dbm. These} + puts stderr {routines are provided to a programmer needing to create and manipulate a} + puts stderr {hashed database.} +} + +conflict gdbm + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/gdbm-1.24-mj6gey4c67kemgwcveb7bg77utshk675/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/gdbm-1.24-mj6gey4c67kemgwcveb7bg77utshk675/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/gdbm-1.24-mj6gey4c67kemgwcveb7bg77utshk675/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/gdbm-1.24-mj6gey4c67kemgwcveb7bg77utshk675/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/gdbm-1.24-mj6gey4c67kemgwcveb7bg77utshk675/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/gdbm-1.24-mj6gey4c67kemgwcveb7bg77utshk675/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/gdbm-1.24-mj6gey4c67kemgwcveb7bg77utshk675/.} +setenv GDBM_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/gdbm-1.24-mj6gey4c67kemgwcveb7bg77utshk675} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/geant4-data/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/geant4-data/.modulerc new file mode 100644 index 00000000..006da586 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/geant4-data/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded geant4-data/11.2.0-6iupczb diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/geant4-data/11.2.0-6iupczb b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/geant4-data/11.2.0-6iupczb new file mode 100644 index 00000000..1bc3ff95 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/geant4-data/11.2.0-6iupczb @@ -0,0 +1,97 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:36.879584 +## +## geant4-data@11.2.0%gcc@13.2.0 build_system=bundle arch=linux-ubuntu22.04-x86_64_v3/6iupczb +## + + +module-whatis {A bundle package to hold Geant4 data packages} + +proc ModulesHelp { } { + puts stderr {Name : geant4-data} + puts stderr {Version: 11.2.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A bundle package to hold Geant4 data packages} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load g4abla/3.3-g6qwumx + module load g4emlow/8.5-gp7zwup + module load g4ensdfstate/2.3-fz63cw2 + module load g4incl/1.2-rlei3we + module load g4ndl/4.7-crqpnhy + module load g4particlexs/4.0-y5hvfwp + module load g4photonevaporation/5.7-t6wuglj + module load g4pii/1.3-ybxnrrd + module load g4radioactivedecay/5.6-wmmgfqb + module load g4realsurface/2.2-zi343if + module load g4saiddata/2.0-spkjojk +} else { + depends-on g4abla/3.3-g6qwumx + depends-on g4emlow/8.5-gp7zwup + depends-on g4ensdfstate/2.3-fz63cw2 + depends-on g4incl/1.2-rlei3we + depends-on g4ndl/4.7-crqpnhy + depends-on g4particlexs/4.0-y5hvfwp + depends-on g4photonevaporation/5.7-t6wuglj + depends-on g4pii/1.3-ybxnrrd + depends-on g4radioactivedecay/5.6-wmmgfqb + depends-on g4realsurface/2.2-zi343if + depends-on g4saiddata/2.0-spkjojk +} +conflict geant4-data + +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/geant4-data-11.2.0-6iupczbp7hremcgoi5iu5o2giihfi7wt/.} +setenv G4ABLADATA {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/g4abla-3.3-g6qwumxkojgygxckme7j3w6mtyw5fivz/share/data/G4ABLA3.3} +setenv G4LEDATA {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/g4emlow-8.5-gp7zwupxdj3r2tzitmdbrgz4altxykxi/share/data/G4EMLOW8.5} +setenv G4ENSDFSTATEDATA {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/g4ensdfstate-2.3-fz63cw2fphjul5exvw55jehimmkxswht/share/data/G4ENSDFSTATE2.3} +setenv G4INCLDATA {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/g4incl-1.2-rlei3we2fyxw7atx3ltu4h35iid5vrqq/share/data/G4INCL1.2} +setenv G4NEUTRONHPDATA {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/g4ndl-4.7-crqpnhyqnlt7pxdd5fh2kjjtqljmnk4t/share/data/G4NDL4.7} +setenv G4PARTICLEXSDATA {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/g4particlexs-4.0-y5hvfwp2rdlvwt3577lpe7xdkar53uim/share/data/G4PARTICLEXS4.0} +setenv G4LEVELGAMMADATA {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/g4photonevaporation-5.7-t6wugljmqdiemn45fhbvxctrfpptnmoa/share/data/PhotonEvaporation5.7} +setenv G4PIIDATA {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/g4pii-1.3-ybxnrrd2si27qmwof6gh3uewdvvprfik/share/data/G4PII1.3} +setenv G4RADIOACTIVEDATA {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/g4radioactivedecay-5.6-wmmgfqb6tjuxfsyz63ftnlign6oivfxi/share/data/RadioactiveDecay5.6} +setenv G4REALSURFACEDATA {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/g4realsurface-2.2-zi343ifmbhnecsfsjbeulo6ys3met5dx/share/data/RealSurface2.2} +setenv G4SAIDXSDATA {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/g4saiddata-2.0-spkjojk7gzwz5pqxnkrjlcfglec6mngq/share/data/G4SAIDDATA2.0} +setenv GEANT4_DATA_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/geant4-data-11.2.0-6iupczbp7hremcgoi5iu5o2giihfi7wt} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/geant4/11.2.1 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/geant4/11.2.1 new file mode 100644 index 00000000..fd296ec7 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/geant4/11.2.1 @@ -0,0 +1,77 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:36.784340 +## +## geant4@11.2.1%gcc@13.2.0+data~hdf5~ipo~motif~opengl~qt~tbb+threads~timemory~vecgeom~vtk~x11 build_system=cmake build_type=Release cxxstd=17 generator=make patches=d597904 arch=linux-ubuntu22.04-x86_64_v3/tul7tz2 +## +## Configure options: -DGEANT4_USE_SYSTEM_CLHEP:BOOL=ON -DGEANT4_USE_SYSTEM_EXPAT:BOOL=ON -DGEANT4_USE_SYSTEM_ZLIB:BOOL=ON -DGEANT4_USE_G3TOG4:BOOL=ON -DGEANT4_USE_GDML:BOOL=ON -DXERCESC_ROOT_DIR:STRING=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xerces-c-3.3.0-wslac4mg5dw4daga62guxemy6cof7tm5 -DCMAKE_CXX_STANDARD:STRING=17 -DGEANT4_INSTALL_PACKAGE_CACHE:BOOL=ON -DGEANT4_BUILD_MULTITHREADED:BOOL=ON -DGEANT4_USE_TBB:BOOL=OFF -DGEANT4_BUILD_TLS_MODEL:STRING=global-dynamic -DGEANT4_USE_TIMEMORY:BOOL=OFF -DGEANT4_INSTALL_DATA:BOOL=OFF -DGEANT4_INSTALL_DATADIR:STRING=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/geant4-data-11.2.0-6iupczbp7hremcgoi5iu5o2giihfi7wt/share/geant4-data-11.2.0 -DGEANT4_USE_HDF5:BOOL=OFF -DGEANT4_USE_VTK:BOOL=OFF +## + + +module-whatis {Geant4 is a toolkit for the simulation of the passage of particles through matter. Its areas of application include high energy, nuclear and accelerator physics, as well as studies in medical and space science.} + +proc ModulesHelp { } { + puts stderr {Name : geant4} + puts stderr {Version: 11.2.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Geant4 is a toolkit for the simulation of the passage of particles} + puts stderr {through matter. Its areas of application include high energy, nuclear} + puts stderr {and accelerator physics, as well as studies in medical and space} + puts stderr {science.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load geant4-data/11.2.0-6iupczb +} else { + depends-on geant4-data/11.2.0-6iupczb +} +conflict geant4 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/geant4-11.2.1/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/geant4-11.2.1/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/geant4-11.2.1/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/geant4-11.2.1/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/geant4-11.2.1/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/geant4-11.2.1/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/geant4-11.2.1/.} +setenv GEANT4_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/geant4-11.2.1-tul7tz2vshxuu322mcdmaczghiibjl3c} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gemma/0.98.5 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gemma/0.98.5 new file mode 100644 index 00000000..be2bf6c6 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gemma/0.98.5 @@ -0,0 +1,64 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:36.904584 +## +## gemma@0.98.5%gcc@13.2.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/2t75lgc +## + + +module-whatis {GEMMA is a software toolkit for fast application of linear mixed models (LMMs) and related models to genome-wide association studies (GWAS) and other large-scale data sets.} + +proc ModulesHelp { } { + puts stderr {Name : gemma} + puts stderr {Version: 0.98.5} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {GEMMA is a software toolkit for fast application of linear mixed models} + puts stderr {(LMMs) and related models to genome-wide association studies (GWAS) and} + puts stderr {other large-scale data sets.} +} + +conflict gemma + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/gemma-0.98.5/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/gemma-0.98.5/.} +setenv GEMMA_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gemma-0.98.5-2t75lgcf2hmkcfdtfxit23pdbffhtlq5} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/genemark-et/4.71 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/genemark-et/4.71 new file mode 100644 index 00000000..31392b40 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/genemark-et/4.71 @@ -0,0 +1,86 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:36.930071 +## +## genemark-et@4.71%gcc@11.4.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/v4y5fsu +## + + +module-whatis {Gene Prediction in Bacteria, archaea, Metagenomes and Metatranscriptomes. When downloaded this file is named the same for all versions. Spack will search your current directory for the download file. Alternatively, add this file to a mirror so that Spack can find it. For instructions on how to set up a mirror, see https://spack.readthedocs.io/en/latest/mirrors.html} + +proc ModulesHelp { } { + puts stderr {Name : genemark-et} + puts stderr {Version: 4.71} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Gene Prediction in Bacteria, archaea, Metagenomes and} + puts stderr {Metatranscriptomes. When downloaded this file is named the same for all} + puts stderr {versions. Spack will search your current directory for the download} + puts stderr {file. Alternatively, add this file to a mirror so that Spack can find} + puts stderr {it. For instructions on how to set up a mirror, see} + puts stderr {https://spack.readthedocs.io/en/latest/mirrors.html} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.38.0-okr2qfj + module load perl-hash-merge/0.300-qscuwm2 + module load perl-mce/1.884-gzqlvcm + module load perl-parallel-forkmanager/2.02-gmrdmpd + module load perl-thread-queue/3.13-624gumz + module load perl-threads/2.21-bc4dbxw + module load perl-yaml/1.30-bvksyj6 +} else { + depends-on perl/5.38.0-okr2qfj + depends-on perl-hash-merge/0.300-qscuwm2 + depends-on perl-mce/1.884-gzqlvcm + depends-on perl-parallel-forkmanager/2.02-gmrdmpd + depends-on perl-thread-queue/3.13-624gumz + depends-on perl-threads/2.21-bc4dbxw + depends-on perl-yaml/1.30-bvksyj6 +} +conflict genemark-et + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/genemark-et-4.71/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/genemark-et-4.71/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/genemark-et-4.71/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/genemark-et-4.71/lib} +setenv GENEMARK_ET_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/genemark-et-4.71-v4y5fsuaqwjosxwnr7ligtvvq6xubu6n} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/genometools/1.6.5 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/genometools/1.6.5 new file mode 100644 index 00000000..665778bf --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/genometools/1.6.5 @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:37.117993 +## +## genometools@1.6.5%gcc@13.2.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/367x6ca +## + + +module-whatis {genometools is a free collection of bioinformatics tools (in the realm of genome informatics) combined into a single binary named gt.} + +proc ModulesHelp { } { + puts stderr {Name : genometools} + puts stderr {Version: 1.6.5} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {genometools is a free collection of bioinformatics tools (in the realm} + puts stderr {of genome informatics) combined into a single binary named gt.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict genometools + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/genometools-1.6.5/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/genometools-1.6.5/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/genometools-1.6.5/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/genometools-1.6.5/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/genometools-1.6.5/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/genometools-1.6.5/.} +prepend-path XDG_DATA_DIRS {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/pango-1.54.0/share} +prepend-path GI_TYPELIB_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/pango-1.54.0/lib/girepository-1.0} +setenv GENOMETOOLS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/genometools-1.6.5-367x6cawec4ecjahzyxtpj3bxckzujtv} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/genrich/0.6.1 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/genrich/0.6.1 new file mode 100644 index 00000000..9c3d5431 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/genrich/0.6.1 @@ -0,0 +1,62 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:37.366607 +## +## genrich@0.6.1%gcc@13.2.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/hq3ch4f +## + + +module-whatis {Genrich is a peak-caller for genomic enrichment assays.} + +proc ModulesHelp { } { + puts stderr {Name : genrich} + puts stderr {Version: 0.6.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Genrich is a peak-caller for genomic enrichment assays.} +} + +conflict genrich + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/genrich-0.6.1/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/genrich-0.6.1/.} +setenv GENRICH_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/genrich-0.6.1-hq3ch4fc23hhpqqcmdsqw4sgil6xrtow} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gettext/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gettext/.modulerc new file mode 100644 index 00000000..e0d661d7 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gettext/.modulerc @@ -0,0 +1,4 @@ +#%Module4.7 +module-hide --soft --hidden-loaded gettext/0.22.5-hensnay +module-hide --soft --hidden-loaded gettext/0.22.5-rwigy6x +module-hide --soft --hidden-loaded gettext/0.22.5-gdewofh diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gettext/0.22.5-gdewofh b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gettext/0.22.5-gdewofh new file mode 100644 index 00000000..43437665 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gettext/0.22.5-gdewofh @@ -0,0 +1,78 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:37.390026 +## +## gettext@0.22.5%gcc@7.5.0+bzip2+curses+git~libunistring+libxml2+pic+shared+tar+xz build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/gdewofh +## +## Configure options: --disable-java --disable-csharp --with-included-glib --with-included-gettext --with-included-libcroco --without-emacs --with-lispdir=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/gettext-0.22.5-gdewofhhvusryzxmjbyckfcnhskf4zzj/share/emacs/site-lisp/gettext --without-cvs --enable-shared --without-libiconv-prefix --with-ncurses-prefix=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/ncurses-6.5-khahbv4vwhtfrgl6cg2zodxgg6eggrbv --with-libxml2-prefix=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/libxml2-2.13.4-s66z5277b4brd7gfnobqfc7xdcinjghg --with-included-libunistring --with-pic +## + + +module-whatis {GNU internationalization (i18n) and localization (l10n) library.} + +proc ModulesHelp { } { + puts stderr {Name : gettext} + puts stderr {Version: 0.22.5} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {GNU internationalization (i18n) and localization (l10n) library.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load tar/1.34-bmauxuj + module load xz/5.4.6-2h4py3l +} else { + depends-on tar/1.34-bmauxuj + depends-on xz/5.4.6-2h4py3l +} +conflict gettext + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/gettext-0.22.5-gdewofhhvusryzxmjbyckfcnhskf4zzj/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/gettext-0.22.5-gdewofhhvusryzxmjbyckfcnhskf4zzj/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/gettext-0.22.5-gdewofhhvusryzxmjbyckfcnhskf4zzj/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/gettext-0.22.5-gdewofhhvusryzxmjbyckfcnhskf4zzj/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/gettext-0.22.5-gdewofhhvusryzxmjbyckfcnhskf4zzj/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/gettext-0.22.5-gdewofhhvusryzxmjbyckfcnhskf4zzj/share/man} +prepend-path ACLOCAL_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/gettext-0.22.5-gdewofhhvusryzxmjbyckfcnhskf4zzj/share/aclocal} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/gettext-0.22.5-gdewofhhvusryzxmjbyckfcnhskf4zzj/.} +setenv GETTEXT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/gettext-0.22.5-gdewofhhvusryzxmjbyckfcnhskf4zzj} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gettext/0.22.5-hensnay b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gettext/0.22.5-hensnay new file mode 100644 index 00000000..8af604f8 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gettext/0.22.5-hensnay @@ -0,0 +1,78 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:37.479729 +## +## gettext@0.22.5%gcc@13.2.0+bzip2+curses+git~libunistring+libxml2+pic+shared+tar+xz build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/hensnay +## +## Configure options: --disable-java --disable-csharp --with-included-glib --with-included-gettext --with-included-libcroco --without-emacs --with-lispdir=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gettext-0.22.5-hensnaykxxlmiwo7x62bjgpvj5yutmkm/share/emacs/site-lisp/gettext --without-cvs --enable-shared --with-libiconv-prefix=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libiconv-1.17-6o2z744tb5afz6tfp5pgeffkiinbhvpd --with-ncurses-prefix=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/ncurses-6.5-4bsaj3qsakrcn3dbkfanz4t4n2meljzs --with-libxml2-prefix=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxml2-2.13.4-zczopohznjpqrclxqvpikyriaqhtrfuh --with-included-libunistring --with-pic +## + + +module-whatis {GNU internationalization (i18n) and localization (l10n) library.} + +proc ModulesHelp { } { + puts stderr {Name : gettext} + puts stderr {Version: 0.22.5} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {GNU internationalization (i18n) and localization (l10n) library.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load tar/1.34-ypdjqtw + module load xz/5.4.6-szk4ytk +} else { + depends-on tar/1.34-ypdjqtw + depends-on xz/5.4.6-szk4ytk +} +conflict gettext + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gettext-0.22.5-hensnaykxxlmiwo7x62bjgpvj5yutmkm/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gettext-0.22.5-hensnaykxxlmiwo7x62bjgpvj5yutmkm/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gettext-0.22.5-hensnaykxxlmiwo7x62bjgpvj5yutmkm/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gettext-0.22.5-hensnaykxxlmiwo7x62bjgpvj5yutmkm/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gettext-0.22.5-hensnaykxxlmiwo7x62bjgpvj5yutmkm/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gettext-0.22.5-hensnaykxxlmiwo7x62bjgpvj5yutmkm/share/man} +prepend-path ACLOCAL_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gettext-0.22.5-hensnaykxxlmiwo7x62bjgpvj5yutmkm/share/aclocal} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gettext-0.22.5-hensnaykxxlmiwo7x62bjgpvj5yutmkm/.} +setenv GETTEXT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gettext-0.22.5-hensnaykxxlmiwo7x62bjgpvj5yutmkm} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gettext/0.22.5-rwigy6x b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gettext/0.22.5-rwigy6x new file mode 100644 index 00000000..2a94ee32 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gettext/0.22.5-rwigy6x @@ -0,0 +1,78 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:37.493501 +## +## gettext@0.22.5%gcc@13.2.0+bzip2+curses+git~libunistring+libxml2+pic+shared+tar+xz build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/rwigy6x +## +## Configure options: --disable-java --disable-csharp --with-included-glib --with-included-gettext --with-included-libcroco --without-emacs --with-lispdir=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gettext-0.22.5-rwigy6xo43decqeaw4y2wdvw3phgi6ru/share/emacs/site-lisp/gettext --without-cvs --enable-shared --with-libiconv-prefix=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libiconv-1.17-6o2z744tb5afz6tfp5pgeffkiinbhvpd --with-ncurses-prefix=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/ncurses-6.5-4bsaj3qsakrcn3dbkfanz4t4n2meljzs --with-libxml2-prefix=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxml2-2.13.4-bcm4imbjivtlgw4v2opnuvhylpxhhx6s --with-included-libunistring --with-pic +## + + +module-whatis {GNU internationalization (i18n) and localization (l10n) library.} + +proc ModulesHelp { } { + puts stderr {Name : gettext} + puts stderr {Version: 0.22.5} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {GNU internationalization (i18n) and localization (l10n) library.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load tar/1.34-rl53aom + module load xz/5.4.6-szk4ytk +} else { + depends-on tar/1.34-rl53aom + depends-on xz/5.4.6-szk4ytk +} +conflict gettext + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gettext-0.22.5-rwigy6xo43decqeaw4y2wdvw3phgi6ru/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gettext-0.22.5-rwigy6xo43decqeaw4y2wdvw3phgi6ru/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gettext-0.22.5-rwigy6xo43decqeaw4y2wdvw3phgi6ru/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gettext-0.22.5-rwigy6xo43decqeaw4y2wdvw3phgi6ru/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gettext-0.22.5-rwigy6xo43decqeaw4y2wdvw3phgi6ru/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gettext-0.22.5-rwigy6xo43decqeaw4y2wdvw3phgi6ru/share/man} +prepend-path ACLOCAL_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gettext-0.22.5-rwigy6xo43decqeaw4y2wdvw3phgi6ru/share/aclocal} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gettext-0.22.5-rwigy6xo43decqeaw4y2wdvw3phgi6ru/.} +setenv GETTEXT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gettext-0.22.5-rwigy6xo43decqeaw4y2wdvw3phgi6ru} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gffcompare/0.12.6 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gffcompare/0.12.6 new file mode 100644 index 00000000..f0a8ba88 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gffcompare/0.12.6 @@ -0,0 +1,63 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:37.535205 +## +## gffcompare@0.12.6%gcc@13.2.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/geqljvs +## + + +module-whatis {gffcompare: classify, merge, tracking and annotation of GFF files by comparing to a reference annotation GFF} + +proc ModulesHelp { } { + puts stderr {Name : gffcompare} + puts stderr {Version: 0.12.6} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {gffcompare: classify, merge, tracking and annotation of GFF files by} + puts stderr {comparing to a reference annotation GFF} +} + +conflict gffcompare + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/gffcompare-0.12.6/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/gffcompare-0.12.6/.} +setenv GFFCOMPARE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gffcompare-0.12.6-geqljvsmegsmlrbhs5ro6dr3zucsvaut} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gffread/0.12.7 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gffread/0.12.7 new file mode 100644 index 00000000..3f133aaa --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gffread/0.12.7 @@ -0,0 +1,63 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:37.557201 +## +## gffread@0.12.7%gcc@13.2.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/nbdgbjn +## + + +module-whatis {gffread: GFF/GTF utility providing format conversions, region filtering, FASTA sequence extraction and more} + +proc ModulesHelp { } { + puts stderr {Name : gffread} + puts stderr {Version: 0.12.7} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {gffread: GFF/GTF utility providing format conversions, region filtering,} + puts stderr {FASTA sequence extraction and more} +} + +conflict gffread + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/gffread-0.12.7/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/gffread-0.12.7/.} +setenv GFFREAD_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gffread-0.12.7-nbdgbjnhnl6o2nvxadww753heakuskte} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/giflib/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/giflib/.modulerc new file mode 100644 index 00000000..0b877885 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/giflib/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded giflib/5.2.2-xjo3nak diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/giflib/5.2.2-xjo3nak b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/giflib/5.2.2-xjo3nak new file mode 100644 index 00000000..dda475b4 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/giflib/5.2.2-xjo3nak @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:37.578503 +## +## giflib@5.2.2%gcc@13.2.0 build_system=makefile patches=5cc0447 arch=linux-ubuntu22.04-x86_64_v3/xjo3nak +## + + +module-whatis {The GIFLIB project maintains the giflib service library, which has been pulling images out of GIFs since 1989.} + +proc ModulesHelp { } { + puts stderr {Name : giflib} + puts stderr {Version: 5.2.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The GIFLIB project maintains the giflib service library, which has been} + puts stderr {pulling images out of GIFs since 1989.} +} + +conflict giflib + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/giflib-5.2.2-xjo3nakpfpmhc7uiq5mnyjnxtjryyviy/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/giflib-5.2.2-xjo3nakpfpmhc7uiq5mnyjnxtjryyviy/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/giflib-5.2.2-xjo3nakpfpmhc7uiq5mnyjnxtjryyviy/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/giflib-5.2.2-xjo3nakpfpmhc7uiq5mnyjnxtjryyviy/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/giflib-5.2.2-xjo3nakpfpmhc7uiq5mnyjnxtjryyviy/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/giflib-5.2.2-xjo3nakpfpmhc7uiq5mnyjnxtjryyviy/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/giflib-5.2.2-xjo3nakpfpmhc7uiq5mnyjnxtjryyviy/.} +setenv GIFLIB_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/giflib-5.2.2-xjo3nakpfpmhc7uiq5mnyjnxtjryyviy} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/git/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/git/.modulerc new file mode 100644 index 00000000..6ccb9422 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/git/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded git/2.47.0-o3w7rir diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/git/2.47.0-o3w7rir b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/git/2.47.0-o3w7rir new file mode 100644 index 00000000..a3f94339 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/git/2.47.0-o3w7rir @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:37.591742 +## +## git@2.47.0%gcc@13.2.0+man+nls+perl+subtree~svn~tcltk build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/o3w7rir +## +## Configure options: --with-curl=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/curl-8.10.1-ayyzogxjftsylkxvp7kobwrg2qaoy4uv --with-expat=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/expat-2.6.4-zrieukekssfaket6eoftkam5jh6n2w23 --with-openssl=/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.4.0 --with-zlib=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zlib-ng-2.2.1-ci2x2tjfpbdihazwtuwsat2anrc47e6u --with-iconv=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libiconv-1.17-6o2z744tb5afz6tfp5pgeffkiinbhvpd --with-perl=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-5.40.0-lzbctije7oh4wvh3uk67gnm57qxc26f6/bin/perl --with-libpcre2=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pcre2-10.44-6qftrybgrnz7r7ssobkleqaq463dpgtg --without-tcltk +## + + +module-whatis {Git is a free and open source distributed version control system designed to handle everything from small to very large projects with speed and efficiency. } + +proc ModulesHelp { } { + puts stderr {Name : git} + puts stderr {Version: 2.47.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Git is a free and open source distributed version control system} + puts stderr {designed to handle everything from small to very large projects with} + puts stderr {speed and efficiency.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load openssh/9.9p1-nz2r5xo +} else { + depends-on openssh/9.9p1-nz2r5xo +} +conflict git + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/git-2.47.0-o3w7rired4b3gxwmclacujafb3ovsgpz/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/git-2.47.0-o3w7rired4b3gxwmclacujafb3ovsgpz/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/git-2.47.0-o3w7rired4b3gxwmclacujafb3ovsgpz/.} +setenv GIT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/git-2.47.0-o3w7rired4b3gxwmclacujafb3ovsgpz} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/glew/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/glew/.modulerc new file mode 100644 index 00000000..29d3f028 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/glew/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded glew/2.2.0-iaxvcm7 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/glew/2.2.0-iaxvcm7 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/glew/2.2.0-iaxvcm7 new file mode 100644 index 00000000..dea01e89 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/glew/2.2.0-iaxvcm7 @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:37.654722 +## +## glew@2.2.0%gcc@11.4.0~ipo build_system=cmake build_type=Release generator=make patches=7992e52 arch=linux-ubuntu22.04-x86_64_v3/iaxvcm7 +## +## Configure options: -DBUILD_UTILS:BOOL=ON -DGLEW_REGAL:BOOL=OFF -DGLEW_EGL:BOOL=OFF -DOPENGL_INCLUDE_DIR:STRING=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mesa-23.3.6-lhtd7ly34amuc2dmgzfhlrr3fiuy2le3/include -DOPENGL_gl_LIBRARY:STRING=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mesa-23.3.6-lhtd7ly34amuc2dmgzfhlrr3fiuy2le3/lib/libGL.so -DOPENGL_opengl_LIBRARY:STRING=IGNORE -DOPENGL_glx_LIBRARY:STRING=IGNORE -DOPENGL_glu_LIBRARY:STRING=IGNORE -DGLEW_OSMESA:BOOL=OFF -DOPENGL_egl_LIBRARY:STRING=IGNORE +## + + +module-whatis {The OpenGL Extension Wrangler Library.} + +proc ModulesHelp { } { + puts stderr {Name : glew} + puts stderr {Version: 2.2.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The OpenGL Extension Wrangler Library.} +} + +conflict glew + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/glew-2.2.0-iaxvcm7aefb465pkgyd2cp4a4sb326jz/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/glew-2.2.0-iaxvcm7aefb465pkgyd2cp4a4sb326jz/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/glew-2.2.0-iaxvcm7aefb465pkgyd2cp4a4sb326jz/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/glew-2.2.0-iaxvcm7aefb465pkgyd2cp4a4sb326jz/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/glew-2.2.0-iaxvcm7aefb465pkgyd2cp4a4sb326jz/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/glew-2.2.0-iaxvcm7aefb465pkgyd2cp4a4sb326jz/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/glew-2.2.0-iaxvcm7aefb465pkgyd2cp4a4sb326jz/.} +prepend-path XLOCALEDIR {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libx11-1.8.10-unej5ji4ptyf5ujs2ovph2sfuxtdmdqc/share/X11/locale} +setenv GLEW_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/glew-2.2.0-iaxvcm7aefb465pkgyd2cp4a4sb326jz} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/glib/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/glib/.modulerc new file mode 100644 index 00000000..228f0ae9 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/glib/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded glib/2.78.3-nwmdmyj +module-hide --soft --hidden-loaded glib/2.78.3-6x6e2kp diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/glib/2.78.3-6x6e2kp b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/glib/2.78.3-6x6e2kp new file mode 100644 index 00000000..ddfd2a3c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/glib/2.78.3-6x6e2kp @@ -0,0 +1,79 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:38.055669 +## +## glib@2.78.3%gcc@13.2.0~libmount~strip build_system=meson buildtype=release default_library=shared tracing=none arch=linux-ubuntu22.04-x86_64_v3/6x6e2kp +## + + +module-whatis {GLib provides the core application building blocks for libraries and applications written in C.} + +proc ModulesHelp { } { + puts stderr {Name : glib} + puts stderr {Version: 2.78.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {GLib provides the core application building blocks for libraries and} + puts stderr {applications written in C. The GLib package contains a low-level} + puts stderr {libraries useful for providing data structure handling for C,} + puts stderr {portability wrappers and interfaces for such runtime functionality as an} + puts stderr {event loop, threads, dynamic loading and an object system.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load python/3.11.9 +} else { + depends-on perl/5.40.0-lzbctij + depends-on python/3.11.9 +} +conflict glib + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/glib-2.78.3-6x6e2kpc63gvdaq2zysk43t7bjz7qzf7/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/glib-2.78.3-6x6e2kpc63gvdaq2zysk43t7bjz7qzf7/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/glib-2.78.3-6x6e2kpc63gvdaq2zysk43t7bjz7qzf7/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/glib-2.78.3-6x6e2kpc63gvdaq2zysk43t7bjz7qzf7/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/glib-2.78.3-6x6e2kpc63gvdaq2zysk43t7bjz7qzf7/bin} +prepend-path ACLOCAL_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/glib-2.78.3-6x6e2kpc63gvdaq2zysk43t7bjz7qzf7/share/aclocal} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/glib-2.78.3-6x6e2kpc63gvdaq2zysk43t7bjz7qzf7/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/glib-2.78.3-6x6e2kpc63gvdaq2zysk43t7bjz7qzf7/.} +setenv GLIB_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/glib-2.78.3-6x6e2kpc63gvdaq2zysk43t7bjz7qzf7} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/glib/2.78.3-nwmdmyj b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/glib/2.78.3-nwmdmyj new file mode 100644 index 00000000..50da8e6c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/glib/2.78.3-nwmdmyj @@ -0,0 +1,79 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:38.035170 +## +## glib@2.78.3%gcc@13.2.0~libmount~strip build_system=meson buildtype=release default_library=shared tracing=none arch=linux-ubuntu22.04-x86_64_v3/nwmdmyj +## + + +module-whatis {GLib provides the core application building blocks for libraries and applications written in C.} + +proc ModulesHelp { } { + puts stderr {Name : glib} + puts stderr {Version: 2.78.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {GLib provides the core application building blocks for libraries and} + puts stderr {applications written in C. The GLib package contains a low-level} + puts stderr {libraries useful for providing data structure handling for C,} + puts stderr {portability wrappers and interfaces for such runtime functionality as an} + puts stderr {event loop, threads, dynamic loading and an object system.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load python/3.11.9-wlce6b7 +} else { + depends-on perl/5.40.0-lzbctij + depends-on python/3.11.9-wlce6b7 +} +conflict glib + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/glib-2.78.3-nwmdmyjewmvfejtxmddmpkp7qm7bkv6l/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/glib-2.78.3-nwmdmyjewmvfejtxmddmpkp7qm7bkv6l/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/glib-2.78.3-nwmdmyjewmvfejtxmddmpkp7qm7bkv6l/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/glib-2.78.3-nwmdmyjewmvfejtxmddmpkp7qm7bkv6l/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/glib-2.78.3-nwmdmyjewmvfejtxmddmpkp7qm7bkv6l/bin} +prepend-path ACLOCAL_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/glib-2.78.3-nwmdmyjewmvfejtxmddmpkp7qm7bkv6l/share/aclocal} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/glib-2.78.3-nwmdmyjewmvfejtxmddmpkp7qm7bkv6l/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/glib-2.78.3-nwmdmyjewmvfejtxmddmpkp7qm7bkv6l/.} +setenv GLIB_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/glib-2.78.3-nwmdmyjewmvfejtxmddmpkp7qm7bkv6l} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/glibc/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/glibc/.modulerc new file mode 100644 index 00000000..611ab559 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/glibc/.modulerc @@ -0,0 +1,7 @@ +#%Module4.7 +module-hide --soft --hidden-loaded glibc/2.35-cgxyzjt +module-hide --soft --hidden-loaded glibc/2.35-tqqcpwe +module-hide --soft --hidden-loaded glibc/2.35-a7drdl4 +module-hide --soft --hidden-loaded glibc/2.35-hwm6jll +module-hide --soft --hidden-loaded glibc/2.35-culotgr +module-hide --soft --hidden-loaded glibc/2.35-gkoh6ax diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/glibc/2.35-a7drdl4 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/glibc/2.35-a7drdl4 new file mode 100644 index 00000000..e98ad388 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/glibc/2.35-a7drdl4 @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:38.088460 +## +## glibc@2.35%gcc@11.4.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/a7drdl4 +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {The GNU C Library provides many of the low-level components used directly by programs written in the C or C++ languages.} + +proc ModulesHelp { } { + puts stderr {Name : glibc} + puts stderr {Version: 2.35} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The GNU C Library provides many of the low-level components used} + puts stderr {directly by programs written in the C or C++ languages.} +} + +conflict glibc + +prepend-path MANPATH {/usr/share/man} +prepend-path ACLOCAL_PATH {/usr/share/aclocal} +prepend-path PKG_CONFIG_PATH {/usr/lib/pkgconfig} +prepend-path PKG_CONFIG_PATH {/usr/share/pkgconfig} +setenv GLIBC_ROOT {/usr} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/glibc/2.35-cgxyzjt b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/glibc/2.35-cgxyzjt new file mode 100644 index 00000000..a6e02392 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/glibc/2.35-cgxyzjt @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:38.075403 +## +## glibc@2.35%gcc@7.5.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/cgxyzjt +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {The GNU C Library provides many of the low-level components used directly by programs written in the C or C++ languages.} + +proc ModulesHelp { } { + puts stderr {Name : glibc} + puts stderr {Version: 2.35} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The GNU C Library provides many of the low-level components used} + puts stderr {directly by programs written in the C or C++ languages.} +} + +conflict glibc + +prepend-path MANPATH {/usr/share/man} +prepend-path ACLOCAL_PATH {/usr/share/aclocal} +prepend-path PKG_CONFIG_PATH {/usr/lib/pkgconfig} +prepend-path PKG_CONFIG_PATH {/usr/share/pkgconfig} +setenv GLIBC_ROOT {/usr} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/glibc/2.35-culotgr b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/glibc/2.35-culotgr new file mode 100644 index 00000000..878a9f4d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/glibc/2.35-culotgr @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:38.120647 +## +## glibc@2.35%oneapi@2024.0.2 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/culotgr +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {The GNU C Library provides many of the low-level components used directly by programs written in the C or C++ languages.} + +proc ModulesHelp { } { + puts stderr {Name : glibc} + puts stderr {Version: 2.35} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The GNU C Library provides many of the low-level components used} + puts stderr {directly by programs written in the C or C++ languages.} +} + +conflict glibc + +prepend-path MANPATH {/usr/share/man} +prepend-path ACLOCAL_PATH {/usr/share/aclocal} +prepend-path PKG_CONFIG_PATH {/usr/lib/pkgconfig} +prepend-path PKG_CONFIG_PATH {/usr/share/pkgconfig} +setenv GLIBC_ROOT {/usr} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/glibc/2.35-gkoh6ax b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/glibc/2.35-gkoh6ax new file mode 100644 index 00000000..ec875e46 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/glibc/2.35-gkoh6ax @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:38.094888 +## +## glibc@2.35%gcc@12.3.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/gkoh6ax +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {The GNU C Library provides many of the low-level components used directly by programs written in the C or C++ languages.} + +proc ModulesHelp { } { + puts stderr {Name : glibc} + puts stderr {Version: 2.35} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The GNU C Library provides many of the low-level components used} + puts stderr {directly by programs written in the C or C++ languages.} +} + +conflict glibc + +prepend-path MANPATH {/usr/share/man} +prepend-path ACLOCAL_PATH {/usr/share/aclocal} +prepend-path PKG_CONFIG_PATH {/usr/lib/pkgconfig} +prepend-path PKG_CONFIG_PATH {/usr/share/pkgconfig} +setenv GLIBC_ROOT {/usr} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/glibc/2.35-hwm6jll b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/glibc/2.35-hwm6jll new file mode 100644 index 00000000..b2d9413a --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/glibc/2.35-hwm6jll @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:38.113644 +## +## glibc@2.35%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/hwm6jll +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {The GNU C Library provides many of the low-level components used directly by programs written in the C or C++ languages.} + +proc ModulesHelp { } { + puts stderr {Name : glibc} + puts stderr {Version: 2.35} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The GNU C Library provides many of the low-level components used} + puts stderr {directly by programs written in the C or C++ languages.} +} + +conflict glibc + +prepend-path MANPATH {/usr/share/man} +prepend-path ACLOCAL_PATH {/usr/share/aclocal} +prepend-path PKG_CONFIG_PATH {/usr/lib/pkgconfig} +prepend-path PKG_CONFIG_PATH {/usr/share/pkgconfig} +setenv GLIBC_ROOT {/usr} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/glibc/2.35-tqqcpwe b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/glibc/2.35-tqqcpwe new file mode 100644 index 00000000..d66a05e2 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/glibc/2.35-tqqcpwe @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:38.082037 +## +## glibc@2.35%gcc@9.5.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/tqqcpwe +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {The GNU C Library provides many of the low-level components used directly by programs written in the C or C++ languages.} + +proc ModulesHelp { } { + puts stderr {Name : glibc} + puts stderr {Version: 2.35} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The GNU C Library provides many of the low-level components used} + puts stderr {directly by programs written in the C or C++ languages.} +} + +conflict glibc + +prepend-path MANPATH {/usr/share/man} +prepend-path ACLOCAL_PATH {/usr/share/aclocal} +prepend-path PKG_CONFIG_PATH {/usr/lib/pkgconfig} +prepend-path PKG_CONFIG_PATH {/usr/share/pkgconfig} +setenv GLIBC_ROOT {/usr} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/glimmer/3.02b b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/glimmer/3.02b new file mode 100644 index 00000000..691a5bd1 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/glimmer/3.02b @@ -0,0 +1,63 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:38.127719 +## +## glimmer@3.02b%gcc@13.2.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/5nqg225 +## + + +module-whatis {Glimmer is a system for finding genes in microbial DNA, especially the genomes of bacteria, archaea, and viruses.} + +proc ModulesHelp { } { + puts stderr {Name : glimmer} + puts stderr {Version: 3.02b} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Glimmer is a system for finding genes in microbial DNA, especially the} + puts stderr {genomes of bacteria, archaea, and viruses.} +} + +conflict glimmer + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/glimmer-3.02b/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/glimmer-3.02b/.} +setenv GLIMMER_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/glimmer-3.02b-5nqg225oih43goldep6zyh467c6r26jf} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/glimpse/1.1.1 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/glimpse/1.1.1 new file mode 100644 index 00000000..9c8b738b --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/glimpse/1.1.1 @@ -0,0 +1,63 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:38.149150 +## +## glimpse@1.1.1%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/qsfhnna +## + + +module-whatis {GLIMPSE is a set of tools for phasing and imputation for low-coverage sequencing datasets.} + +proc ModulesHelp { } { + puts stderr {Name : glimpse} + puts stderr {Version: 1.1.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {GLIMPSE is a set of tools for phasing and imputation for low-coverage} + puts stderr {sequencing datasets.} +} + +conflict glimpse + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/glimpse-1.1.1/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/glimpse-1.1.1/.} +setenv GLIMPSE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/glimpse-1.1.1-qsfhnnau57arwpb4kdwzha2qz3kb4tbu} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/glproto/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/glproto/.modulerc new file mode 100644 index 00000000..11f0d06f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/glproto/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded glproto/1.4.17-dopcewm +module-hide --soft --hidden-loaded glproto/1.4.17-247cv6j diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/glproto/1.4.17-247cv6j b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/glproto/1.4.17-247cv6j new file mode 100644 index 00000000..a2821b5c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/glproto/1.4.17-247cv6j @@ -0,0 +1,67 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:38.177459 +## +## glproto@1.4.17%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/247cv6j +## + + +module-whatis {OpenGL Extension to the X Window System.} + +proc ModulesHelp { } { + puts stderr {Name : glproto} + puts stderr {Version: 1.4.17} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {OpenGL Extension to the X Window System. This extension defines a} + puts stderr {protocol for the client to send 3D rendering commands to the X server.} +} + +conflict glproto + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/glproto-1.4.17-247cv6jpj5tv3itew5ysvmqt5owcic25/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/glproto-1.4.17-247cv6jpj5tv3itew5ysvmqt5owcic25/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/glproto-1.4.17-247cv6jpj5tv3itew5ysvmqt5owcic25/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/glproto-1.4.17-247cv6jpj5tv3itew5ysvmqt5owcic25/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/glproto-1.4.17-247cv6jpj5tv3itew5ysvmqt5owcic25/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/glproto-1.4.17-247cv6jpj5tv3itew5ysvmqt5owcic25/.} +setenv GLPROTO_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/glproto-1.4.17-247cv6jpj5tv3itew5ysvmqt5owcic25} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/glproto/1.4.17-dopcewm b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/glproto/1.4.17-dopcewm new file mode 100644 index 00000000..3ddc8015 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/glproto/1.4.17-dopcewm @@ -0,0 +1,67 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:38.170577 +## +## glproto@1.4.17%gcc@11.4.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/dopcewm +## + + +module-whatis {OpenGL Extension to the X Window System.} + +proc ModulesHelp { } { + puts stderr {Name : glproto} + puts stderr {Version: 1.4.17} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {OpenGL Extension to the X Window System. This extension defines a} + puts stderr {protocol for the client to send 3D rendering commands to the X server.} +} + +conflict glproto + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/glproto-1.4.17-dopcewmcjipuzcjgw4vrf3n6cbrosfx3/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/glproto-1.4.17-dopcewmcjipuzcjgw4vrf3n6cbrosfx3/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/glproto-1.4.17-dopcewmcjipuzcjgw4vrf3n6cbrosfx3/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/glproto-1.4.17-dopcewmcjipuzcjgw4vrf3n6cbrosfx3/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/glproto-1.4.17-dopcewmcjipuzcjgw4vrf3n6cbrosfx3/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/glproto-1.4.17-dopcewmcjipuzcjgw4vrf3n6cbrosfx3/.} +setenv GLPROTO_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/glproto-1.4.17-dopcewmcjipuzcjgw4vrf3n6cbrosfx3} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/glx/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/glx/.modulerc new file mode 100644 index 00000000..046c46c3 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/glx/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded glx/1.4-p4tekxx +module-hide --soft --hidden-loaded glx/1.4-assuomb diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/glx/1.4-assuomb b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/glx/1.4-assuomb new file mode 100644 index 00000000..67ae162d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/glx/1.4-assuomb @@ -0,0 +1,61 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:38.201829 +## +## glx@1.4%gcc@13.2.0 build_system=bundle arch=linux-ubuntu22.04-x86_64_v3/assuomb +## + + +module-whatis {Shim package for the GLX library.} + +proc ModulesHelp { } { + puts stderr {Name : glx} + puts stderr {Version: 1.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Shim package for the GLX library.} +} + +conflict glx + +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/glx-1.4-assuombimrythy43dkp4zvpwwc2lwsfj/.} +setenv GLX_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/glx-1.4-assuombimrythy43dkp4zvpwwc2lwsfj} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/glx/1.4-p4tekxx b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/glx/1.4-p4tekxx new file mode 100644 index 00000000..5a22f159 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/glx/1.4-p4tekxx @@ -0,0 +1,61 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:38.185385 +## +## glx@1.4%gcc@11.4.0 build_system=bundle arch=linux-ubuntu22.04-x86_64_v3/p4tekxx +## + + +module-whatis {Shim package for the GLX library.} + +proc ModulesHelp { } { + puts stderr {Name : glx} + puts stderr {Version: 1.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Shim package for the GLX library.} +} + +conflict glx + +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/glx-1.4-p4tekxxze2y2l7bzsrrsvexmr442755g/.} +setenv GLX_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/glx-1.4-p4tekxxze2y2l7bzsrrsvexmr442755g} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gmake/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gmake/.modulerc new file mode 100644 index 00000000..371a1893 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gmake/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded gmake/4.4.1-j3scmsq +module-hide --soft --hidden-loaded gmake/4.4.1-cmf624o diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gmake/4.4.1-cmf624o b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gmake/4.4.1-cmf624o new file mode 100644 index 00000000..16a41ad6 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gmake/4.4.1-cmf624o @@ -0,0 +1,65 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:38.219360 +## +## gmake@4.4.1%gcc@7.5.0~guile build_system=generic arch=linux-ubuntu22.04-x86_64_v3/cmf624o +## +## Configure options: --without-guile --disable-nls --disable-dependency-tracking +## + + +module-whatis {GNU Make is a tool which controls the generation of executables and other non-source files of a program from the program's source files.} + +proc ModulesHelp { } { + puts stderr {Name : gmake} + puts stderr {Version: 4.4.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {GNU Make is a tool which controls the generation of executables and} + puts stderr {other non-source files of a program from the program's source files.} +} + +conflict gmake + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/gmake-4.4.1-cmf624oezwc7xymieshproezcmq7puhr/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/gmake-4.4.1-cmf624oezwc7xymieshproezcmq7puhr/.} +setenv GMAKE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/gmake-4.4.1-cmf624oezwc7xymieshproezcmq7puhr} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gmake/4.4.1-j3scmsq b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gmake/4.4.1-j3scmsq new file mode 100644 index 00000000..e3a20183 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gmake/4.4.1-j3scmsq @@ -0,0 +1,65 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:38.226582 +## +## gmake@4.4.1%gcc@13.2.0~guile build_system=generic arch=linux-ubuntu22.04-x86_64_v3/j3scmsq +## +## Configure options: --without-guile --disable-nls --disable-dependency-tracking +## + + +module-whatis {GNU Make is a tool which controls the generation of executables and other non-source files of a program from the program's source files.} + +proc ModulesHelp { } { + puts stderr {Name : gmake} + puts stderr {Version: 4.4.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {GNU Make is a tool which controls the generation of executables and} + puts stderr {other non-source files of a program from the program's source files.} +} + +conflict gmake + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gmake-4.4.1-j3scmsqgierimbyanqyve2hkq4dsxhk4/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gmake-4.4.1-j3scmsqgierimbyanqyve2hkq4dsxhk4/.} +setenv GMAKE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gmake-4.4.1-j3scmsqgierimbyanqyve2hkq4dsxhk4} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gmap-gsnap/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gmap-gsnap/.modulerc new file mode 100644 index 00000000..ff1a0ba4 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gmap-gsnap/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded gmap-gsnap/2023-07-20-ywftkgx diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gmap-gsnap/2023-07-20-ywftkgx b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gmap-gsnap/2023-07-20-ywftkgx new file mode 100644 index 00000000..21c6cade --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gmap-gsnap/2023-07-20-ywftkgx @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:38.236466 +## +## gmap-gsnap@2023-07-20%gcc@13.2.0 build_system=autotools simd=avx2 arch=linux-ubuntu22.04-x86_64_v3/ywftkgx +## + + +module-whatis {GMAP: A Genomic Mapping and Alignment Program for mRNA and EST Sequences, and GSNAP: Genomic Short-read Nucleotide Alignment Program} + +proc ModulesHelp { } { + puts stderr {Name : gmap-gsnap} + puts stderr {Version: 2023-07-20} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {GMAP: A Genomic Mapping and Alignment Program for mRNA and EST} + puts stderr {Sequences, and GSNAP: Genomic Short-read Nucleotide Alignment Program} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict gmap-gsnap + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gmap-gsnap-2023-07-20-ywftkgxjpc6clsedrlm2aigm3lkgood6/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gmap-gsnap-2023-07-20-ywftkgxjpc6clsedrlm2aigm3lkgood6/.} +setenv GMAP_GSNAP_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gmap-gsnap-2023-07-20-ywftkgxjpc6clsedrlm2aigm3lkgood6} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gmp/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gmp/.modulerc new file mode 100644 index 00000000..ad6c9c51 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gmp/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded gmp/6.3.0-agkxpsh diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gmp/6.2.1 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gmp/6.2.1 new file mode 100644 index 00000000..83d9e03b --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gmp/6.2.1 @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:38.260613 +## +## gmp@6.2.1%gcc@13.2.0+cxx build_system=autotools libs=shared,static patches=69ad2e2 arch=linux-ubuntu22.04-x86_64_v3/xrskjab +## +## Configure options: --enable-cxx --enable-shared --enable-static --with-pic +## + + +module-whatis {GMP is a free library for arbitrary precision arithmetic, operating on signed integers, rational numbers, and floating-point numbers.} + +proc ModulesHelp { } { + puts stderr {Name : gmp} + puts stderr {Version: 6.2.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {GMP is a free library for arbitrary precision arithmetic, operating on} + puts stderr {signed integers, rational numbers, and floating-point numbers.} +} + +conflict gmp + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/gmp-6.2.1/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/gmp-6.2.1/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/gmp-6.2.1/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/gmp-6.2.1/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/gmp-6.2.1/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/gmp-6.2.1/.} +setenv GMP_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gmp-6.2.1-xrskjabppjwscemm4wlzvy253ujjizrg} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gmp/6.3.0-agkxpsh b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gmp/6.3.0-agkxpsh new file mode 100644 index 00000000..a469fa92 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gmp/6.3.0-agkxpsh @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:38.329468 +## +## gmp@6.3.0%gcc@13.2.0+cxx build_system=autotools libs=shared,static arch=linux-ubuntu22.04-x86_64_v3/agkxpsh +## +## Configure options: --enable-cxx --enable-shared --enable-static --with-pic +## + + +module-whatis {GMP is a free library for arbitrary precision arithmetic, operating on signed integers, rational numbers, and floating-point numbers.} + +proc ModulesHelp { } { + puts stderr {Name : gmp} + puts stderr {Version: 6.3.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {GMP is a free library for arbitrary precision arithmetic, operating on} + puts stderr {signed integers, rational numbers, and floating-point numbers.} +} + +conflict gmp + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gmp-6.3.0-agkxpsht5r4tgfgemg5kdgajvdlvloyd/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gmp-6.3.0-agkxpsht5r4tgfgemg5kdgajvdlvloyd/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gmp-6.3.0-agkxpsht5r4tgfgemg5kdgajvdlvloyd/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gmp-6.3.0-agkxpsht5r4tgfgemg5kdgajvdlvloyd/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gmp-6.3.0-agkxpsht5r4tgfgemg5kdgajvdlvloyd/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gmp-6.3.0-agkxpsht5r4tgfgemg5kdgajvdlvloyd/.} +setenv GMP_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gmp-6.3.0-agkxpsht5r4tgfgemg5kdgajvdlvloyd} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gnuplot/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gnuplot/.modulerc new file mode 100644 index 00000000..51d551ac --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gnuplot/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded gnuplot/6.0.0-7z2s75q diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gnuplot/6.0.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gnuplot/6.0.0 new file mode 100644 index 00000000..9db72b9e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gnuplot/6.0.0 @@ -0,0 +1,75 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:38.371871 +## +## gnuplot@6.0.0%gcc@13.2.0~X+cairo+gd+libcerf~pbm~qt+readline~wx build_system=autotools patches=ad89f23 arch=linux-ubuntu22.04-x86_64_v3/emcmtgl +## +## Configure options: --disable-dependency-tracking --disable-silent-rules --without-tutorial --with-readline=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/readline-8.2-npf2hbnhgb32jgedfuudnsbukmgwmln2 --without-bitmap-terminals --without-x --with-qt=no --disable-wxwidgets --with-gd=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libgd-2.3.3-ze35fpc7dsf6s7wkynbs4okeoy3udese --with-cairo --with-libcerf --without-pdf --without-lua --without-latex --without-aquaterm +## + + +module-whatis {Gnuplot is a portable command-line driven graphing utility for Linux, OS/2, MS Windows, OSX, VMS, and many other platforms. The source code is copyrighted but freely distributed (i.e., you don't have to pay for it). It was originally created to allow scientists and students to visualize mathematical functions and data interactively, but has grown to support many non-interactive uses such as web scripting. It is also used as a plotting engine by third-party applications like Octave. Gnuplot has been supported and under active development since 1986} + +proc ModulesHelp { } { + puts stderr {Name : gnuplot} + puts stderr {Version: 6.0.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Gnuplot is a portable command-line driven graphing utility for Linux,} + puts stderr {OS/2, MS Windows, OSX, VMS, and many other platforms. The source code is} + puts stderr {copyrighted but freely distributed (i.e., you don't have to pay for it).} + puts stderr {It was originally created to allow scientists and students to visualize} + puts stderr {mathematical functions and data interactively, but has grown to support} + puts stderr {many non-interactive uses such as web scripting. It is also used as a} + puts stderr {plotting engine by third-party applications like Octave. Gnuplot has} + puts stderr {been supported and under active development since 1986} +} + +conflict gnuplot + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/gnuplot-6.0.0/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/gnuplot-6.0.0/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/gnuplot-6.0.0/.} +prepend-path XDG_DATA_DIRS {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/pango-1.54.0/share} +prepend-path GI_TYPELIB_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/pango-1.54.0/lib/girepository-1.0} +setenv GNUPLOT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gnuplot-6.0.0-emcmtglnqscnypgvso3wcryxdqh3kcem} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gnuplot/6.0.0-7z2s75q b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gnuplot/6.0.0-7z2s75q new file mode 100644 index 00000000..8ea41a2f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gnuplot/6.0.0-7z2s75q @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:38.353920 +## +## gnuplot@6.0.0%gcc@13.2.0~X~cairo+gd+libcerf~pbm~qt+readline~wx build_system=autotools patches=ad89f23 arch=linux-ubuntu22.04-x86_64_v3/7z2s75q +## +## Configure options: --disable-dependency-tracking --disable-silent-rules --without-tutorial --with-readline=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/readline-8.2-npf2hbnhgb32jgedfuudnsbukmgwmln2 --without-bitmap-terminals --without-x --with-qt=no --disable-wxwidgets --with-gd=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libgd-2.3.3-p5cgbnf2gyzrcnnbajbrpdjz46lig6mf --without-cairo --with-libcerf --without-pdf --without-lua --without-latex --without-aquaterm +## + + +module-whatis {Gnuplot is a portable command-line driven graphing utility for Linux, OS/2, MS Windows, OSX, VMS, and many other platforms. The source code is copyrighted but freely distributed (i.e., you don't have to pay for it). It was originally created to allow scientists and students to visualize mathematical functions and data interactively, but has grown to support many non-interactive uses such as web scripting. It is also used as a plotting engine by third-party applications like Octave. Gnuplot has been supported and under active development since 1986} + +proc ModulesHelp { } { + puts stderr {Name : gnuplot} + puts stderr {Version: 6.0.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Gnuplot is a portable command-line driven graphing utility for Linux,} + puts stderr {OS/2, MS Windows, OSX, VMS, and many other platforms. The source code is} + puts stderr {copyrighted but freely distributed (i.e., you don't have to pay for it).} + puts stderr {It was originally created to allow scientists and students to visualize} + puts stderr {mathematical functions and data interactively, but has grown to support} + puts stderr {many non-interactive uses such as web scripting. It is also used as a} + puts stderr {plotting engine by third-party applications like Octave. Gnuplot has} + puts stderr {been supported and under active development since 1986} +} + +conflict gnuplot + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gnuplot-6.0.0-7z2s75qnulnw3fwpxg2o6kh33iwca6xo/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gnuplot-6.0.0-7z2s75qnulnw3fwpxg2o6kh33iwca6xo/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gnuplot-6.0.0-7z2s75qnulnw3fwpxg2o6kh33iwca6xo/.} +setenv GNUPLOT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gnuplot-6.0.0-7z2s75qnulnw3fwpxg2o6kh33iwca6xo} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gnutls/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gnutls/.modulerc new file mode 100644 index 00000000..abb62142 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gnutls/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded gnutls/3.8.3-a3hdtnu +module-hide --soft --hidden-loaded gnutls/3.8.3-7ys6gl5 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gnutls/3.8.3-7ys6gl5 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gnutls/3.8.3-7ys6gl5 new file mode 100644 index 00000000..17fdd435 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gnutls/3.8.3-7ys6gl5 @@ -0,0 +1,76 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:38.628529 +## +## gnutls@3.8.3%gcc@13.2.0+brotli~guile+zlib build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/7ys6gl5 +## +## Configure options: --enable-static --with-included-libtasn1 --with-included-unistring --without-p11-kit --with-zlib --with-brotli --disable-guile --disable-tests --disable-valgrind-tests --disable-full-test-suite +## + + +module-whatis {GnuTLS is a secure communications library implementing the SSL, TLS and DTLS protocols and technologies around them. It provides a simple C language application programming interface (API) to access the secure communications protocols as well as APIs to parse and write X.509, PKCS #12, OpenPGP and other required structures. It is aimed to be portable and efficient with focus on security and interoperability.} + +proc ModulesHelp { } { + puts stderr {Name : gnutls} + puts stderr {Version: 3.8.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {GnuTLS is a secure communications library implementing the SSL, TLS and} + puts stderr {DTLS protocols and technologies around them. It provides a simple C} + puts stderr {language application programming interface (API) to access the secure} + puts stderr {communications protocols as well as APIs to parse and write X.509, PKCS} + puts stderr {#12, OpenPGP and other required structures. It is aimed to be portable} + puts stderr {and efficient with focus on security and interoperability.} +} + +conflict gnutls + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gnutls-3.8.3-7ys6gl5d6omkwt4vajtzdsezbuxm4xwv/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gnutls-3.8.3-7ys6gl5d6omkwt4vajtzdsezbuxm4xwv/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gnutls-3.8.3-7ys6gl5d6omkwt4vajtzdsezbuxm4xwv/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gnutls-3.8.3-7ys6gl5d6omkwt4vajtzdsezbuxm4xwv/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gnutls-3.8.3-7ys6gl5d6omkwt4vajtzdsezbuxm4xwv/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gnutls-3.8.3-7ys6gl5d6omkwt4vajtzdsezbuxm4xwv/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gnutls-3.8.3-7ys6gl5d6omkwt4vajtzdsezbuxm4xwv/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gnutls-3.8.3-7ys6gl5d6omkwt4vajtzdsezbuxm4xwv/.} +setenv GNUTLS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gnutls-3.8.3-7ys6gl5d6omkwt4vajtzdsezbuxm4xwv} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gnutls/3.8.3-a3hdtnu b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gnutls/3.8.3-a3hdtnu new file mode 100644 index 00000000..e5e1e222 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gnutls/3.8.3-a3hdtnu @@ -0,0 +1,76 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:38.615041 +## +## gnutls@3.8.3%gcc@13.2.0+brotli~guile+zlib build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/a3hdtnu +## +## Configure options: --enable-static --with-included-libtasn1 --with-included-unistring --without-p11-kit --with-zlib --with-brotli --disable-guile --disable-tests --disable-valgrind-tests --disable-full-test-suite +## + + +module-whatis {GnuTLS is a secure communications library implementing the SSL, TLS and DTLS protocols and technologies around them. It provides a simple C language application programming interface (API) to access the secure communications protocols as well as APIs to parse and write X.509, PKCS #12, OpenPGP and other required structures. It is aimed to be portable and efficient with focus on security and interoperability.} + +proc ModulesHelp { } { + puts stderr {Name : gnutls} + puts stderr {Version: 3.8.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {GnuTLS is a secure communications library implementing the SSL, TLS and} + puts stderr {DTLS protocols and technologies around them. It provides a simple C} + puts stderr {language application programming interface (API) to access the secure} + puts stderr {communications protocols as well as APIs to parse and write X.509, PKCS} + puts stderr {#12, OpenPGP and other required structures. It is aimed to be portable} + puts stderr {and efficient with focus on security and interoperability.} +} + +conflict gnutls + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gnutls-3.8.3-a3hdtnuitsub4dtwgalqhqkb3upfrwxq/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gnutls-3.8.3-a3hdtnuitsub4dtwgalqhqkb3upfrwxq/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gnutls-3.8.3-a3hdtnuitsub4dtwgalqhqkb3upfrwxq/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gnutls-3.8.3-a3hdtnuitsub4dtwgalqhqkb3upfrwxq/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gnutls-3.8.3-a3hdtnuitsub4dtwgalqhqkb3upfrwxq/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gnutls-3.8.3-a3hdtnuitsub4dtwgalqhqkb3upfrwxq/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gnutls-3.8.3-a3hdtnuitsub4dtwgalqhqkb3upfrwxq/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gnutls-3.8.3-a3hdtnuitsub4dtwgalqhqkb3upfrwxq/.} +setenv GNUTLS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gnutls-3.8.3-a3hdtnuitsub4dtwgalqhqkb3upfrwxq} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/go/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/go/.modulerc new file mode 100644 index 00000000..d6365263 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/go/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded go/1.23.2-7zlabvu diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/go/1.23.2 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/go/1.23.2 new file mode 100644 index 00000000..5532aeb3 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/go/1.23.2 @@ -0,0 +1,64 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:38.641255 +## +## go@1.23.2%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/7gnen3n +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {The golang compiler and build environment} + +proc ModulesHelp { } { + puts stderr {Name : go} + puts stderr {Version: 1.23.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The golang compiler and build environment} +} + +conflict go + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/go-1.23.2/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/go-1.23.2/.} +setenv GO_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/go-1.23.2} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/go/1.23.2-7zlabvu b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/go/1.23.2-7zlabvu new file mode 100644 index 00000000..b5ccf13d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/go/1.23.2-7zlabvu @@ -0,0 +1,62 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:38.660446 +## +## go@1.23.2%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/7zlabvu +## + + +module-whatis {The golang compiler and build environment} + +proc ModulesHelp { } { + puts stderr {Name : go} + puts stderr {Version: 1.23.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The golang compiler and build environment} +} + +conflict go + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/go-1.23.2-7zlabvum4mpr43ryw6weuvvpxb65hsi5/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/go-1.23.2-7zlabvum4mpr43ryw6weuvvpxb65hsi5/.} +setenv GO_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/go-1.23.2-7zlabvum4mpr43ryw6weuvvpxb65hsi5} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gobject-introspection/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gobject-introspection/.modulerc new file mode 100644 index 00000000..f0eb871c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gobject-introspection/.modulerc @@ -0,0 +1,4 @@ +#%Module4.7 +module-hide --soft --hidden-loaded gobject-introspection/1.78.1-lbxjktl +module-hide --soft --hidden-loaded gobject-introspection/1.78.1-qgot45n +module-hide --soft --hidden-loaded gobject-introspection/1.78.1-gfqdnam diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gobject-introspection/1.78.1-gfqdnam b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gobject-introspection/1.78.1-gfqdnam new file mode 100644 index 00000000..11229e71 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gobject-introspection/1.78.1-gfqdnam @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:38.695215 +## +## gobject-introspection@1.78.1%gcc@13.2.0~strip build_system=meson buildtype=release default_library=shared arch=linux-ubuntu22.04-x86_64_v3/gfqdnam +## + + +module-whatis {The GObject Introspection is used to describe the program APIs and collect them in a uniform, machine readable format.Cairo is a 2D graphics library with support for multiple output } + +proc ModulesHelp { } { + puts stderr {Name : gobject-introspection} + puts stderr {Version: 1.78.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The GObject Introspection is used to describe the program APIs and} + puts stderr {collect them in a uniform, machine readable format.Cairo is a 2D} + puts stderr {graphics library with support for multiple output} +} + +conflict gobject-introspection + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gobject-introspection-1.78.1-gfqdnam4nzv5wsswjaibdwpawk46k5nz/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gobject-introspection-1.78.1-gfqdnam4nzv5wsswjaibdwpawk46k5nz/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gobject-introspection-1.78.1-gfqdnam4nzv5wsswjaibdwpawk46k5nz/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gobject-introspection-1.78.1-gfqdnam4nzv5wsswjaibdwpawk46k5nz/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gobject-introspection-1.78.1-gfqdnam4nzv5wsswjaibdwpawk46k5nz/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gobject-introspection-1.78.1-gfqdnam4nzv5wsswjaibdwpawk46k5nz/share/man} +prepend-path ACLOCAL_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gobject-introspection-1.78.1-gfqdnam4nzv5wsswjaibdwpawk46k5nz/share/aclocal} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gobject-introspection-1.78.1-gfqdnam4nzv5wsswjaibdwpawk46k5nz/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gobject-introspection-1.78.1-gfqdnam4nzv5wsswjaibdwpawk46k5nz/.} +prepend-path GI_TYPELIB_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gobject-introspection-1.78.1-gfqdnam4nzv5wsswjaibdwpawk46k5nz/lib/girepository-1.0} +setenv GOBJECT_INTROSPECTION_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gobject-introspection-1.78.1-gfqdnam4nzv5wsswjaibdwpawk46k5nz} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gobject-introspection/1.78.1-lbxjktl b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gobject-introspection/1.78.1-lbxjktl new file mode 100644 index 00000000..8974fd70 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gobject-introspection/1.78.1-lbxjktl @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:38.668928 +## +## gobject-introspection@1.78.1%gcc@13.2.0~strip build_system=meson buildtype=release default_library=shared arch=linux-ubuntu22.04-x86_64_v3/lbxjktl +## + + +module-whatis {The GObject Introspection is used to describe the program APIs and collect them in a uniform, machine readable format.Cairo is a 2D graphics library with support for multiple output } + +proc ModulesHelp { } { + puts stderr {Name : gobject-introspection} + puts stderr {Version: 1.78.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The GObject Introspection is used to describe the program APIs and} + puts stderr {collect them in a uniform, machine readable format.Cairo is a 2D} + puts stderr {graphics library with support for multiple output} +} + +conflict gobject-introspection + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gobject-introspection-1.78.1-lbxjktlxxkuloykmvnpnzarwuzjft3ez/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gobject-introspection-1.78.1-lbxjktlxxkuloykmvnpnzarwuzjft3ez/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gobject-introspection-1.78.1-lbxjktlxxkuloykmvnpnzarwuzjft3ez/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gobject-introspection-1.78.1-lbxjktlxxkuloykmvnpnzarwuzjft3ez/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gobject-introspection-1.78.1-lbxjktlxxkuloykmvnpnzarwuzjft3ez/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gobject-introspection-1.78.1-lbxjktlxxkuloykmvnpnzarwuzjft3ez/share/man} +prepend-path ACLOCAL_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gobject-introspection-1.78.1-lbxjktlxxkuloykmvnpnzarwuzjft3ez/share/aclocal} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gobject-introspection-1.78.1-lbxjktlxxkuloykmvnpnzarwuzjft3ez/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gobject-introspection-1.78.1-lbxjktlxxkuloykmvnpnzarwuzjft3ez/.} +prepend-path GI_TYPELIB_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gobject-introspection-1.78.1-lbxjktlxxkuloykmvnpnzarwuzjft3ez/lib/girepository-1.0} +setenv GOBJECT_INTROSPECTION_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gobject-introspection-1.78.1-lbxjktlxxkuloykmvnpnzarwuzjft3ez} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gobject-introspection/1.78.1-qgot45n b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gobject-introspection/1.78.1-qgot45n new file mode 100644 index 00000000..244d3d0a --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gobject-introspection/1.78.1-qgot45n @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2024-12-19 13:36:38.189922 +## +## gobject-introspection@1.78.1%gcc@13.2.0~strip build_system=meson buildtype=release default_library=shared arch=linux-ubuntu22.04-x86_64_v3/qgot45n +## + + +module-whatis {The GObject Introspection is used to describe the program APIs and collect them in a uniform, machine readable format.Cairo is a 2D graphics library with support for multiple output } + +proc ModulesHelp { } { + puts stderr {Name : gobject-introspection} + puts stderr {Version: 1.78.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The GObject Introspection is used to describe the program APIs and} + puts stderr {collect them in a uniform, machine readable format.Cairo is a 2D} + puts stderr {graphics library with support for multiple output} +} + +conflict gobject-introspection + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gobject-introspection-1.78.1-qgot45nds4fxtbo4qif54a2crdmslbjb/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gobject-introspection-1.78.1-qgot45nds4fxtbo4qif54a2crdmslbjb/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gobject-introspection-1.78.1-qgot45nds4fxtbo4qif54a2crdmslbjb/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gobject-introspection-1.78.1-qgot45nds4fxtbo4qif54a2crdmslbjb/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gobject-introspection-1.78.1-qgot45nds4fxtbo4qif54a2crdmslbjb/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gobject-introspection-1.78.1-qgot45nds4fxtbo4qif54a2crdmslbjb/share/man} +prepend-path ACLOCAL_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gobject-introspection-1.78.1-qgot45nds4fxtbo4qif54a2crdmslbjb/share/aclocal} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gobject-introspection-1.78.1-qgot45nds4fxtbo4qif54a2crdmslbjb/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gobject-introspection-1.78.1-qgot45nds4fxtbo4qif54a2crdmslbjb/.} +prepend-path GI_TYPELIB_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gobject-introspection-1.78.1-qgot45nds4fxtbo4qif54a2crdmslbjb/lib/girepository-1.0} +setenv GOBJECT_INTROSPECTION_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gobject-introspection-1.78.1-qgot45nds4fxtbo4qif54a2crdmslbjb} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gocryptfs/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gocryptfs/.modulerc new file mode 100644 index 00000000..d95f2277 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gocryptfs/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded gocryptfs/2.4.0-gqsyoz7 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gocryptfs/2.4.0-gqsyoz7 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gocryptfs/2.4.0-gqsyoz7 new file mode 100644 index 00000000..d46c8a62 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gocryptfs/2.4.0-gqsyoz7 @@ -0,0 +1,62 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:38.720041 +## +## gocryptfs@2.4.0%gcc@13.2.0 build_system=go arch=linux-ubuntu22.04-x86_64_v3/gqsyoz7 +## + + +module-whatis {Encrypted overlay filesystem written in Go} + +proc ModulesHelp { } { + puts stderr {Name : gocryptfs} + puts stderr {Version: 2.4.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Encrypted overlay filesystem written in Go} +} + +conflict gocryptfs + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gocryptfs-2.4.0-gqsyoz73wwbepb2k74nzn2kpilb5vq3w/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gocryptfs-2.4.0-gqsyoz73wwbepb2k74nzn2kpilb5vq3w/.} +setenv GOCRYPTFS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gocryptfs-2.4.0-gqsyoz73wwbepb2k74nzn2kpilb5vq3w} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gperf/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gperf/.modulerc new file mode 100644 index 00000000..5c81f02c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gperf/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded gperf/3.1-bw7nfgw diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gperf/3.1-bw7nfgw b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gperf/3.1-bw7nfgw new file mode 100644 index 00000000..5d08ca08 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gperf/3.1-bw7nfgw @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:38.728229 +## +## gperf@3.1%gcc@13.2.0 build_system=autotools patches=3dd36db arch=linux-ubuntu22.04-x86_64_v3/bw7nfgw +## + + +module-whatis {GNU gperf is a perfect hash function generator. For a given list of strings, it produces a hash function and hash table, in form of C or C++ code, for looking up a value depending on the input string. The hash function is perfect, which means that the hash table has no collisions, and the hash table lookup needs a single string comparison only.} + +proc ModulesHelp { } { + puts stderr {Name : gperf} + puts stderr {Version: 3.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {GNU gperf is a perfect hash function generator. For a given list of} + puts stderr {strings, it produces a hash function and hash table, in form of C or C++} + puts stderr {code, for looking up a value depending on the input string. The hash} + puts stderr {function is perfect, which means that the hash table has no collisions,} + puts stderr {and the hash table lookup needs a single string comparison only.} +} + +conflict gperf + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gperf-3.1-bw7nfgwwmtuhbgflboz4fa43yidsdmdz/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gperf-3.1-bw7nfgwwmtuhbgflboz4fa43yidsdmdz/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gperf-3.1-bw7nfgwwmtuhbgflboz4fa43yidsdmdz/.} +setenv GPERF_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gperf-3.1-bw7nfgwwmtuhbgflboz4fa43yidsdmdz} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gromacs/2019.6 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gromacs/2019.6 new file mode 100644 index 00000000..13ec49ea --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gromacs/2019.6 @@ -0,0 +1,77 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:38.764339 +## +## gromacs@2019.6%gcc@13.2.0~cp2k+cuda~cycle_subcounters~double+gmxapi+hwloc~intel_provided_gcc~ipo~mdrun_only~mpi~nosuffix~opencl+openmp~plumed~relaxed_double_precision+shared build_system=cmake build_type=Release cuda_arch=75 generator=make openmp_max_threads=none arch=linux-ubuntu22.04-x86_64_v3/jaqdczf +## + + +module-whatis {GROMACS is a molecular dynamics package primarily designed for simulations of proteins, lipids and nucleic acids. It was originally developed in the Biophysical Chemistry department of University of Groningen, and is now maintained by contributors in universities and research centers across the world.} + +proc ModulesHelp { } { + puts stderr {Name : gromacs} + puts stderr {Version: 2019.6} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {GROMACS is a molecular dynamics package primarily designed for} + puts stderr {simulations of proteins, lipids and nucleic acids. It was originally} + puts stderr {developed in the Biophysical Chemistry department of University of} + puts stderr {Groningen, and is now maintained by contributors in universities and} + puts stderr {research centers across the world. GROMACS is one of the fastest and} + puts stderr {most popular software packages available and can run on CPUs as well as} + puts stderr {GPUs. It is free, open source released under the GNU Lesser General} + puts stderr {Public License. Before the version 4.6, GROMACS was released under the} + puts stderr {GNU General Public License.} +} + +conflict gromacs + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/gromacs-2019.6/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/gromacs-2019.6/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/gromacs-2019.6/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/gromacs-2019.6/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/gromacs-2019.6/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/gromacs-2019.6/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/gromacs-2019.6/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/gromacs-2019.6/.} +setenv GROMACS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gromacs-2019.6-jaqdczfxyj5xtjbbqy72kd2q2xqqimkl} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gsl/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gsl/.modulerc new file mode 100644 index 00000000..102b6dbb --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gsl/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded gsl/2.8-qyxdwjz diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gsl/2.7.1 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gsl/2.7.1 new file mode 100644 index 00000000..da358229 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gsl/2.7.1 @@ -0,0 +1,77 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:38.832940 +## +## gsl@2.7.1%gcc@13.2.0~external-cblas+pic+shared build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/ubgdmbk +## +## Configure options: --enable-shared --with-pic +## + + +module-whatis {The GNU Scientific Library (GSL) is a numerical library for C and C++ programmers. It is free software under the GNU General Public License. The library provides a wide range of mathematical routines such as random number generators, special functions and least-squares fitting. There are over 1000 functions in total with an extensive test suite.} + +proc ModulesHelp { } { + puts stderr {Name : gsl} + puts stderr {Version: 2.7.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The GNU Scientific Library (GSL) is a numerical library for C and C++} + puts stderr {programmers. It is free software under the GNU General Public License.} + puts stderr {The library provides a wide range of mathematical routines such as} + puts stderr {random number generators, special functions and least-squares fitting.} + puts stderr {There are over 1000 functions in total with an extensive test suite.} +} + +conflict gsl + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/gsl-2.7.1/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/gsl-2.7.1/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/gsl-2.7.1/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/gsl-2.7.1/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/gsl-2.7.1/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/gsl-2.7.1/share/man} +prepend-path ACLOCAL_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/gsl-2.7.1/share/aclocal} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/gsl-2.7.1/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/gsl-2.7.1/.} +setenv GSL_ROOT_DIR {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/gsl-2.7.1} +setenv GSL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gsl-2.7.1-ubgdmbkjj35vk7lktawd2pvxl5eporbn} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gsl/2.8-qyxdwjz b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gsl/2.8-qyxdwjz new file mode 100644 index 00000000..653138a3 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gsl/2.8-qyxdwjz @@ -0,0 +1,77 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:38.898457 +## +## gsl@2.8%gcc@13.2.0~external-cblas+pic+shared build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/qyxdwjz +## +## Configure options: --enable-shared --with-pic +## + + +module-whatis {The GNU Scientific Library (GSL) is a numerical library for C and C++ programmers. It is free software under the GNU General Public License. The library provides a wide range of mathematical routines such as random number generators, special functions and least-squares fitting. There are over 1000 functions in total with an extensive test suite.} + +proc ModulesHelp { } { + puts stderr {Name : gsl} + puts stderr {Version: 2.8} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The GNU Scientific Library (GSL) is a numerical library for C and C++} + puts stderr {programmers. It is free software under the GNU General Public License.} + puts stderr {The library provides a wide range of mathematical routines such as} + puts stderr {random number generators, special functions and least-squares fitting.} + puts stderr {There are over 1000 functions in total with an extensive test suite.} +} + +conflict gsl + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gsl-2.8-qyxdwjziabe7axozjyqbzt2suagdwhps/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gsl-2.8-qyxdwjziabe7axozjyqbzt2suagdwhps/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gsl-2.8-qyxdwjziabe7axozjyqbzt2suagdwhps/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gsl-2.8-qyxdwjziabe7axozjyqbzt2suagdwhps/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gsl-2.8-qyxdwjziabe7axozjyqbzt2suagdwhps/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gsl-2.8-qyxdwjziabe7axozjyqbzt2suagdwhps/share/man} +prepend-path ACLOCAL_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gsl-2.8-qyxdwjziabe7axozjyqbzt2suagdwhps/share/aclocal} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gsl-2.8-qyxdwjziabe7axozjyqbzt2suagdwhps/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gsl-2.8-qyxdwjziabe7axozjyqbzt2suagdwhps/.} +setenv GSL_ROOT_DIR {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gsl-2.8-qyxdwjziabe7axozjyqbzt2suagdwhps} +setenv GSL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gsl-2.8-qyxdwjziabe7axozjyqbzt2suagdwhps} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gzip/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gzip/.modulerc new file mode 100644 index 00000000..541d1eaf --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gzip/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded gzip/1.13-dq7iv3l diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gzip/1.13-dq7iv3l b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gzip/1.13-dq7iv3l new file mode 100644 index 00000000..db5592ae --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/gzip/1.13-dq7iv3l @@ -0,0 +1,65 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:38.949609 +## +## gzip@1.13%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/dq7iv3l +## + + +module-whatis {GNU Gzip is a popular data compression program originally written by Jean-loup Gailly for the GNU project.} + +proc ModulesHelp { } { + puts stderr {Name : gzip} + puts stderr {Version: 1.13} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {GNU Gzip is a popular data compression program originally written by} + puts stderr {Jean-loup Gailly for the GNU project.} +} + +conflict gzip + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gzip-1.13-dq7iv3lwwovgufdxgmwicdr47j3xo7xh/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gzip-1.13-dq7iv3lwwovgufdxgmwicdr47j3xo7xh/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gzip-1.13-dq7iv3lwwovgufdxgmwicdr47j3xo7xh/.} +setenv GZIP_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gzip-1.13-dq7iv3lwwovgufdxgmwicdr47j3xo7xh} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/h5cpp/1.10.4-6 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/h5cpp/1.10.4-6 new file mode 100644 index 00000000..3896005e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/h5cpp/1.10.4-6 @@ -0,0 +1,67 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:38.959009 +## +## h5cpp@1.10.4-6%gcc@13.2.0~ipo~mpi build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/ydp5dlf +## +## Configure options: -DHDF5_INCLUDE_DIRS=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/hdf5-1.14.5-sli27k6lfga43dxt2gfra4rev334wyoo/include -DHDF5_LIBRARIES=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/hdf5-1.14.5-sli27k6lfga43dxt2gfra4rev334wyoo/lib -DH5CPP_BUILD_TESTS=OFF +## + + +module-whatis {Easy to use HDF5 C++ templates for Serial and Parallel HDF5} + +proc ModulesHelp { } { + puts stderr {Name : h5cpp} + puts stderr {Version: 1.10.4-6} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Easy to use HDF5 C++ templates for Serial and Parallel HDF5} +} + +conflict h5cpp + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/h5cpp-1.10.4-6/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/h5cpp-1.10.4-6/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/h5cpp-1.10.4-6/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/h5cpp-1.10.4-6/include} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/h5cpp-1.10.4-6/.} +setenv H5CPP_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/h5cpp-1.10.4-6-ydp5dlfosd6rev6r35urlvmivztam6eb} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/h5z-zfp/1.1.1 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/h5z-zfp/1.1.1 new file mode 100644 index 00000000..8b1b2160 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/h5z-zfp/1.1.1 @@ -0,0 +1,66 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:39.105891 +## +## h5z-zfp@1.1.1%gcc@13.2.0+fortran~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/ylpzbvf +## + + +module-whatis {A highly flexible floating point and integer compression plugin for the HDF5 library using ZFP compression.} + +proc ModulesHelp { } { + puts stderr {Name : h5z-zfp} + puts stderr {Version: 1.1.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A highly flexible floating point and integer compression plugin for the} + puts stderr {HDF5 library using ZFP compression.} +} + +conflict h5z-zfp + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/h5z-zfp-1.1.1/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/h5z-zfp-1.1.1/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/h5z-zfp-1.1.1/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/h5z-zfp-1.1.1/include} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/h5z-zfp-1.1.1/.} +setenv H5Z_ZFP_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/h5z-zfp-1.1.1-ylpzbvfcjyots2yatr4uskcyt6ig5n33} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/harfbuzz/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/harfbuzz/.modulerc new file mode 100644 index 00000000..fa348305 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/harfbuzz/.modulerc @@ -0,0 +1,4 @@ +#%Module4.7 +module-hide --soft --hidden-loaded harfbuzz/10.0.1-5sj2fzr +module-hide --soft --hidden-loaded harfbuzz/10.0.1-mw3t2yj +module-hide --soft --hidden-loaded harfbuzz/10.0.1-hxxbdd2 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/harfbuzz/10.0.1-5sj2fzr b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/harfbuzz/10.0.1-5sj2fzr new file mode 100644 index 00000000..7926e5b6 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/harfbuzz/10.0.1-5sj2fzr @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:39.281331 +## +## harfbuzz@10.0.1%gcc@13.2.0~graphite2~strip build_system=meson buildtype=release default_library=shared arch=linux-ubuntu22.04-x86_64_v3/5sj2fzr +## + + +module-whatis {The Harfbuzz package contains an OpenType text shaping engine.} + +proc ModulesHelp { } { + puts stderr {Name : harfbuzz} + puts stderr {Version: 10.0.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The Harfbuzz package contains an OpenType text shaping engine.} +} + +conflict harfbuzz + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/harfbuzz-10.0.1-5sj2fzreeel252gclfme5h3oe2jwpwed/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/harfbuzz-10.0.1-5sj2fzreeel252gclfme5h3oe2jwpwed/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/harfbuzz-10.0.1-5sj2fzreeel252gclfme5h3oe2jwpwed/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/harfbuzz-10.0.1-5sj2fzreeel252gclfme5h3oe2jwpwed/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/harfbuzz-10.0.1-5sj2fzreeel252gclfme5h3oe2jwpwed/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/harfbuzz-10.0.1-5sj2fzreeel252gclfme5h3oe2jwpwed/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/harfbuzz-10.0.1-5sj2fzreeel252gclfme5h3oe2jwpwed/.} +prepend-path XDG_DATA_DIRS {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gobject-introspection-1.78.1-gfqdnam4nzv5wsswjaibdwpawk46k5nz/share} +prepend-path GI_TYPELIB_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gobject-introspection-1.78.1-gfqdnam4nzv5wsswjaibdwpawk46k5nz/lib/girepository-1.0} +prepend-path GI_TYPELIB_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/harfbuzz-10.0.1-5sj2fzreeel252gclfme5h3oe2jwpwed/lib/girepository-1.0} +setenv HARFBUZZ_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/harfbuzz-10.0.1-5sj2fzreeel252gclfme5h3oe2jwpwed} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/harfbuzz/10.0.1-hxxbdd2 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/harfbuzz/10.0.1-hxxbdd2 new file mode 100644 index 00000000..7b8cef25 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/harfbuzz/10.0.1-hxxbdd2 @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2024-12-19 13:36:38.867343 +## +## harfbuzz@10.0.1%gcc@13.2.0~graphite2~strip build_system=meson buildtype=release default_library=shared arch=linux-ubuntu22.04-x86_64_v3/hxxbdd2 +## + + +module-whatis {The Harfbuzz package contains an OpenType text shaping engine.} + +proc ModulesHelp { } { + puts stderr {Name : harfbuzz} + puts stderr {Version: 10.0.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The Harfbuzz package contains an OpenType text shaping engine.} +} + +conflict harfbuzz + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/harfbuzz-10.0.1-hxxbdd2vjzbz4xxxvgyisshnkwx32hgq/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/harfbuzz-10.0.1-hxxbdd2vjzbz4xxxvgyisshnkwx32hgq/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/harfbuzz-10.0.1-hxxbdd2vjzbz4xxxvgyisshnkwx32hgq/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/harfbuzz-10.0.1-hxxbdd2vjzbz4xxxvgyisshnkwx32hgq/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/harfbuzz-10.0.1-hxxbdd2vjzbz4xxxvgyisshnkwx32hgq/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/harfbuzz-10.0.1-hxxbdd2vjzbz4xxxvgyisshnkwx32hgq/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/harfbuzz-10.0.1-hxxbdd2vjzbz4xxxvgyisshnkwx32hgq/.} +prepend-path XDG_DATA_DIRS {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gobject-introspection-1.78.1-qgot45nds4fxtbo4qif54a2crdmslbjb/share} +prepend-path GI_TYPELIB_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gobject-introspection-1.78.1-qgot45nds4fxtbo4qif54a2crdmslbjb/lib/girepository-1.0} +prepend-path GI_TYPELIB_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/harfbuzz-10.0.1-hxxbdd2vjzbz4xxxvgyisshnkwx32hgq/lib/girepository-1.0} +setenv HARFBUZZ_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/harfbuzz-10.0.1-hxxbdd2vjzbz4xxxvgyisshnkwx32hgq} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/harfbuzz/10.0.1-mw3t2yj b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/harfbuzz/10.0.1-mw3t2yj new file mode 100644 index 00000000..d816cfd1 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/harfbuzz/10.0.1-mw3t2yj @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:39.307869 +## +## harfbuzz@10.0.1%gcc@13.2.0~graphite2~strip build_system=meson buildtype=release default_library=shared arch=linux-ubuntu22.04-x86_64_v3/mw3t2yj +## + + +module-whatis {The Harfbuzz package contains an OpenType text shaping engine.} + +proc ModulesHelp { } { + puts stderr {Name : harfbuzz} + puts stderr {Version: 10.0.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The Harfbuzz package contains an OpenType text shaping engine.} +} + +conflict harfbuzz + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/harfbuzz-10.0.1-mw3t2yjersa5j5ylqrqqhnbypdddmh5k/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/harfbuzz-10.0.1-mw3t2yjersa5j5ylqrqqhnbypdddmh5k/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/harfbuzz-10.0.1-mw3t2yjersa5j5ylqrqqhnbypdddmh5k/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/harfbuzz-10.0.1-mw3t2yjersa5j5ylqrqqhnbypdddmh5k/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/harfbuzz-10.0.1-mw3t2yjersa5j5ylqrqqhnbypdddmh5k/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/harfbuzz-10.0.1-mw3t2yjersa5j5ylqrqqhnbypdddmh5k/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/harfbuzz-10.0.1-mw3t2yjersa5j5ylqrqqhnbypdddmh5k/.} +prepend-path XDG_DATA_DIRS {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gobject-introspection-1.78.1-lbxjktlxxkuloykmvnpnzarwuzjft3ez/share} +prepend-path GI_TYPELIB_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gobject-introspection-1.78.1-lbxjktlxxkuloykmvnpnzarwuzjft3ez/lib/girepository-1.0} +prepend-path GI_TYPELIB_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/harfbuzz-10.0.1-mw3t2yjersa5j5ylqrqqhnbypdddmh5k/lib/girepository-1.0} +setenv HARFBUZZ_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/harfbuzz-10.0.1-mw3t2yjersa5j5ylqrqqhnbypdddmh5k} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/hdf5/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/hdf5/.modulerc new file mode 100644 index 00000000..d933c64e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/hdf5/.modulerc @@ -0,0 +1,5 @@ +#%Module4.7 +module-hide --soft --hidden-loaded hdf5/1.14.5-uawocos +module-hide --soft --hidden-loaded hdf5/1.14.5-sli27k6 +module-hide --soft --hidden-loaded hdf5/1.14.5-etfjww7 +module-hide --soft --hidden-loaded hdf5/1.14.5-qqcm5fc diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/hdf5/1.14.3 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/hdf5/1.14.3 new file mode 100644 index 00000000..9305d03c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/hdf5/1.14.3 @@ -0,0 +1,77 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:39.333800 +## +## hdf5@1.14.3%gcc@13.2.0~cxx~fortran~hl~ipo~java~map~mpi+shared~szip~threadsafe+tools api=default build_system=cmake build_type=Release generator=make patches=82088c8,f42732a arch=linux-ubuntu22.04-x86_64_v3/jp6tjo2 +## +## Configure options: -DALLOW_UNSUPPORTED:BOOL=ON -DHDF5_BUILD_EXAMPLES:BOOL=OFF -DBUILD_TESTING:BOOL=OFF -DHDF5_ENABLE_MAP_API:BOOL=OFF -DHDF5_ENABLE_Z_LIB_SUPPORT:BOOL=ON -DHDF5_ENABLE_SZIP_SUPPORT:BOOL=OFF -DHDF5_ENABLE_SZIP_ENCODING:BOOL=OFF -DBUILD_SHARED_LIBS:BOOL=ON -DONLY_SHARED_LIBS:BOOL=OFF -DHDF5_ENABLE_PARALLEL:BOOL=OFF -DHDF5_ENABLE_THREADSAFE:BOOL=OFF -DHDF5_BUILD_HL_LIB:BOOL=OFF -DHDF5_BUILD_CPP_LIB:BOOL=OFF -DHDF5_BUILD_FORTRAN:BOOL=OFF -DHDF5_BUILD_JAVA:BOOL=OFF -DHDF5_BUILD_TOOLS:BOOL=ON +## + + +module-whatis {HDF5 is a data model, library, and file format for storing and managing data. It supports an unlimited variety of datatypes, and is designed for flexible and efficient I/O and for high volume and complex data. } + +proc ModulesHelp { } { + puts stderr {Name : hdf5} + puts stderr {Version: 1.14.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {HDF5 is a data model, library, and file format for storing and managing} + puts stderr {data. It supports an unlimited variety of datatypes, and is designed for} + puts stderr {flexible and efficient I/O and for high volume and complex data.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load pkgconf/2.2.0-rtve2ea +} else { + depends-on pkgconf/2.2.0-rtve2ea +} +conflict hdf5 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/hdf5-1.14.3/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/hdf5-1.14.3/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/hdf5-1.14.3/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/hdf5-1.14.3/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/hdf5-1.14.3/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/hdf5-1.14.3/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/hdf5-1.14.3/.} +append-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/hdf5-1.14.3/lib} +setenv HDF5_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/hdf5-1.14.3-jp6tjo27imt474zws32fiiruvnn74ldj} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/hdf5/1.14.5-etfjww7 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/hdf5/1.14.5-etfjww7 new file mode 100644 index 00000000..9da7ef18 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/hdf5/1.14.5-etfjww7 @@ -0,0 +1,77 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:39.514408 +## +## hdf5@1.14.5%gcc@13.2.0~cxx~fortran+hl~ipo~java~map~mpi+shared~szip+threadsafe+tools api=default build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/etfjww7 +## +## Configure options: -DALLOW_UNSUPPORTED:BOOL=ON -DHDF5_BUILD_EXAMPLES:BOOL=OFF -DBUILD_TESTING:BOOL=OFF -DHDF5_ENABLE_MAP_API:BOOL=OFF -DHDF5_ENABLE_Z_LIB_SUPPORT:BOOL=ON -DHDF5_ENABLE_SZIP_SUPPORT:BOOL=OFF -DHDF5_ENABLE_SZIP_ENCODING:BOOL=OFF -DBUILD_SHARED_LIBS:BOOL=ON -DONLY_SHARED_LIBS:BOOL=OFF -DHDF5_ENABLE_PARALLEL:BOOL=OFF -DHDF5_ENABLE_THREADSAFE:BOOL=ON -DHDF5_BUILD_HL_LIB:BOOL=ON -DHDF5_BUILD_CPP_LIB:BOOL=OFF -DHDF5_BUILD_FORTRAN:BOOL=OFF -DHDF5_BUILD_JAVA:BOOL=OFF -DHDF5_BUILD_TOOLS:BOOL=ON +## + + +module-whatis {HDF5 is a data model, library, and file format for storing and managing data. It supports an unlimited variety of datatypes, and is designed for flexible and efficient I/O and for high volume and complex data. } + +proc ModulesHelp { } { + puts stderr {Name : hdf5} + puts stderr {Version: 1.14.5} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {HDF5 is a data model, library, and file format for storing and managing} + puts stderr {data. It supports an unlimited variety of datatypes, and is designed for} + puts stderr {flexible and efficient I/O and for high volume and complex data.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load pkgconf/2.2.0-rtve2ea +} else { + depends-on pkgconf/2.2.0-rtve2ea +} +conflict hdf5 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/hdf5-1.14.5-etfjww7ofbv2dfmgkw3zq5zslmxj7n3w/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/hdf5-1.14.5-etfjww7ofbv2dfmgkw3zq5zslmxj7n3w/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/hdf5-1.14.5-etfjww7ofbv2dfmgkw3zq5zslmxj7n3w/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/hdf5-1.14.5-etfjww7ofbv2dfmgkw3zq5zslmxj7n3w/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/hdf5-1.14.5-etfjww7ofbv2dfmgkw3zq5zslmxj7n3w/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/hdf5-1.14.5-etfjww7ofbv2dfmgkw3zq5zslmxj7n3w/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/hdf5-1.14.5-etfjww7ofbv2dfmgkw3zq5zslmxj7n3w/.} +append-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/hdf5-1.14.5-etfjww7ofbv2dfmgkw3zq5zslmxj7n3w/lib} +setenv HDF5_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/hdf5-1.14.5-etfjww7ofbv2dfmgkw3zq5zslmxj7n3w} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/hdf5/1.14.5-qqcm5fc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/hdf5/1.14.5-qqcm5fc new file mode 100644 index 00000000..a4ad0fe6 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/hdf5/1.14.5-qqcm5fc @@ -0,0 +1,77 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:39.524639 +## +## hdf5@1.14.5%gcc@13.2.0~cxx+fortran~hl~ipo~java~map~mpi+shared~szip~threadsafe+tools api=default build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/qqcm5fc +## +## Configure options: -DALLOW_UNSUPPORTED:BOOL=ON -DHDF5_BUILD_EXAMPLES:BOOL=OFF -DBUILD_TESTING:BOOL=OFF -DHDF5_ENABLE_MAP_API:BOOL=OFF -DHDF5_ENABLE_Z_LIB_SUPPORT:BOOL=ON -DHDF5_ENABLE_SZIP_SUPPORT:BOOL=OFF -DHDF5_ENABLE_SZIP_ENCODING:BOOL=OFF -DBUILD_SHARED_LIBS:BOOL=ON -DONLY_SHARED_LIBS:BOOL=OFF -DHDF5_ENABLE_PARALLEL:BOOL=OFF -DHDF5_ENABLE_THREADSAFE:BOOL=OFF -DHDF5_BUILD_HL_LIB:BOOL=OFF -DHDF5_BUILD_CPP_LIB:BOOL=OFF -DHDF5_BUILD_FORTRAN:BOOL=ON -DHDF5_BUILD_JAVA:BOOL=OFF -DHDF5_BUILD_TOOLS:BOOL=ON +## + + +module-whatis {HDF5 is a data model, library, and file format for storing and managing data. It supports an unlimited variety of datatypes, and is designed for flexible and efficient I/O and for high volume and complex data. } + +proc ModulesHelp { } { + puts stderr {Name : hdf5} + puts stderr {Version: 1.14.5} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {HDF5 is a data model, library, and file format for storing and managing} + puts stderr {data. It supports an unlimited variety of datatypes, and is designed for} + puts stderr {flexible and efficient I/O and for high volume and complex data.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load pkgconf/2.2.0-rtve2ea +} else { + depends-on pkgconf/2.2.0-rtve2ea +} +conflict hdf5 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/hdf5-1.14.5-qqcm5fcoox3hfysjow6pqssdaw5bywvd/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/hdf5-1.14.5-qqcm5fcoox3hfysjow6pqssdaw5bywvd/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/hdf5-1.14.5-qqcm5fcoox3hfysjow6pqssdaw5bywvd/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/hdf5-1.14.5-qqcm5fcoox3hfysjow6pqssdaw5bywvd/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/hdf5-1.14.5-qqcm5fcoox3hfysjow6pqssdaw5bywvd/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/hdf5-1.14.5-qqcm5fcoox3hfysjow6pqssdaw5bywvd/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/hdf5-1.14.5-qqcm5fcoox3hfysjow6pqssdaw5bywvd/.} +append-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/hdf5-1.14.5-qqcm5fcoox3hfysjow6pqssdaw5bywvd/lib} +setenv HDF5_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/hdf5-1.14.5-qqcm5fcoox3hfysjow6pqssdaw5bywvd} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/hdf5/1.14.5-sli27k6 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/hdf5/1.14.5-sli27k6 new file mode 100644 index 00000000..d38263d4 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/hdf5/1.14.5-sli27k6 @@ -0,0 +1,77 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:39.484180 +## +## hdf5@1.14.5%gcc@13.2.0~cxx~fortran+hl~ipo~java~map~mpi+shared~szip~threadsafe+tools api=default build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/sli27k6 +## +## Configure options: -DALLOW_UNSUPPORTED:BOOL=ON -DHDF5_BUILD_EXAMPLES:BOOL=OFF -DBUILD_TESTING:BOOL=OFF -DHDF5_ENABLE_MAP_API:BOOL=OFF -DHDF5_ENABLE_Z_LIB_SUPPORT:BOOL=ON -DHDF5_ENABLE_SZIP_SUPPORT:BOOL=OFF -DHDF5_ENABLE_SZIP_ENCODING:BOOL=OFF -DBUILD_SHARED_LIBS:BOOL=ON -DONLY_SHARED_LIBS:BOOL=OFF -DHDF5_ENABLE_PARALLEL:BOOL=OFF -DHDF5_ENABLE_THREADSAFE:BOOL=OFF -DHDF5_BUILD_HL_LIB:BOOL=ON -DHDF5_BUILD_CPP_LIB:BOOL=OFF -DHDF5_BUILD_FORTRAN:BOOL=OFF -DHDF5_BUILD_JAVA:BOOL=OFF -DHDF5_BUILD_TOOLS:BOOL=ON +## + + +module-whatis {HDF5 is a data model, library, and file format for storing and managing data. It supports an unlimited variety of datatypes, and is designed for flexible and efficient I/O and for high volume and complex data. } + +proc ModulesHelp { } { + puts stderr {Name : hdf5} + puts stderr {Version: 1.14.5} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {HDF5 is a data model, library, and file format for storing and managing} + puts stderr {data. It supports an unlimited variety of datatypes, and is designed for} + puts stderr {flexible and efficient I/O and for high volume and complex data.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load pkgconf/2.2.0-rtve2ea +} else { + depends-on pkgconf/2.2.0-rtve2ea +} +conflict hdf5 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/hdf5-1.14.5-sli27k6lfga43dxt2gfra4rev334wyoo/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/hdf5-1.14.5-sli27k6lfga43dxt2gfra4rev334wyoo/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/hdf5-1.14.5-sli27k6lfga43dxt2gfra4rev334wyoo/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/hdf5-1.14.5-sli27k6lfga43dxt2gfra4rev334wyoo/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/hdf5-1.14.5-sli27k6lfga43dxt2gfra4rev334wyoo/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/hdf5-1.14.5-sli27k6lfga43dxt2gfra4rev334wyoo/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/hdf5-1.14.5-sli27k6lfga43dxt2gfra4rev334wyoo/.} +append-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/hdf5-1.14.5-sli27k6lfga43dxt2gfra4rev334wyoo/lib} +setenv HDF5_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/hdf5-1.14.5-sli27k6lfga43dxt2gfra4rev334wyoo} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/hdf5/1.14.5-uawocos b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/hdf5/1.14.5-uawocos new file mode 100644 index 00000000..2f782750 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/hdf5/1.14.5-uawocos @@ -0,0 +1,77 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:39.448997 +## +## hdf5@1.14.5%gcc@11.4.0~cxx~fortran+hl~ipo~java~map~mpi+shared~szip~threadsafe+tools api=default build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/uawocos +## +## Configure options: -DALLOW_UNSUPPORTED:BOOL=ON -DHDF5_BUILD_EXAMPLES:BOOL=OFF -DBUILD_TESTING:BOOL=OFF -DHDF5_ENABLE_MAP_API:BOOL=OFF -DHDF5_ENABLE_Z_LIB_SUPPORT:BOOL=ON -DHDF5_ENABLE_SZIP_SUPPORT:BOOL=OFF -DHDF5_ENABLE_SZIP_ENCODING:BOOL=OFF -DBUILD_SHARED_LIBS:BOOL=ON -DONLY_SHARED_LIBS:BOOL=OFF -DHDF5_ENABLE_PARALLEL:BOOL=OFF -DHDF5_ENABLE_THREADSAFE:BOOL=OFF -DHDF5_BUILD_HL_LIB:BOOL=ON -DHDF5_BUILD_CPP_LIB:BOOL=OFF -DHDF5_BUILD_FORTRAN:BOOL=OFF -DHDF5_BUILD_JAVA:BOOL=OFF -DHDF5_BUILD_TOOLS:BOOL=ON +## + + +module-whatis {HDF5 is a data model, library, and file format for storing and managing data. It supports an unlimited variety of datatypes, and is designed for flexible and efficient I/O and for high volume and complex data. } + +proc ModulesHelp { } { + puts stderr {Name : hdf5} + puts stderr {Version: 1.14.5} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {HDF5 is a data model, library, and file format for storing and managing} + puts stderr {data. It supports an unlimited variety of datatypes, and is designed for} + puts stderr {flexible and efficient I/O and for high volume and complex data.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load pkgconf/2.2.0-oplsmxr +} else { + depends-on pkgconf/2.2.0-oplsmxr +} +conflict hdf5 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/hdf5-1.14.5-uawocos3y457zji2hrkdh5tqyihojwdg/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/hdf5-1.14.5-uawocos3y457zji2hrkdh5tqyihojwdg/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/hdf5-1.14.5-uawocos3y457zji2hrkdh5tqyihojwdg/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/hdf5-1.14.5-uawocos3y457zji2hrkdh5tqyihojwdg/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/hdf5-1.14.5-uawocos3y457zji2hrkdh5tqyihojwdg/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/hdf5-1.14.5-uawocos3y457zji2hrkdh5tqyihojwdg/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/hdf5-1.14.5-uawocos3y457zji2hrkdh5tqyihojwdg/.} +append-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/hdf5-1.14.5-uawocos3y457zji2hrkdh5tqyihojwdg/lib} +setenv HDF5_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/hdf5-1.14.5-uawocos3y457zji2hrkdh5tqyihojwdg} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/hepmc/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/hepmc/.modulerc new file mode 100644 index 00000000..5572d5ce --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/hepmc/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded hepmc/2.06.11-llmnljl diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/hepmc/2.06.11-llmnljl b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/hepmc/2.06.11-llmnljl new file mode 100644 index 00000000..3893ff1c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/hepmc/2.06.11-llmnljl @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:39.556428 +## +## hepmc@2.06.11%gcc@13.2.0~ipo build_system=cmake build_type=Release generator=make length=MM momentum=GEV arch=linux-ubuntu22.04-x86_64_v3/llmnljl +## +## Configure options: -Dmomentum:STRING=GEV -Dlength:STRING=MM +## + + +module-whatis {The HepMC package is an object oriented, C++ event record for High Energy Physics Monte Carlo generators and simulation.} + +proc ModulesHelp { } { + puts stderr {Name : hepmc} + puts stderr {Version: 2.06.11} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The HepMC package is an object oriented, C++ event record for High} + puts stderr {Energy Physics Monte Carlo generators and simulation.} +} + +conflict hepmc + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/hepmc-2.06.11-llmnljlprnehj6rzr7sukkby3k667swn/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/hepmc-2.06.11-llmnljlprnehj6rzr7sukkby3k667swn/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/hepmc-2.06.11-llmnljlprnehj6rzr7sukkby3k667swn/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/hepmc-2.06.11-llmnljlprnehj6rzr7sukkby3k667swn/include} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/hepmc-2.06.11-llmnljlprnehj6rzr7sukkby3k667swn/.} +setenv HEPMC_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/hepmc-2.06.11-llmnljlprnehj6rzr7sukkby3k667swn} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/hepmc3/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/hepmc3/.modulerc new file mode 100644 index 00000000..47fde853 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/hepmc3/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded hepmc3/3.3.0-jwje3ny diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/hepmc3/3.3.0-jwje3ny b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/hepmc3/3.3.0-jwje3ny new file mode 100644 index 00000000..43d1804b --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/hepmc3/3.3.0-jwje3ny @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:39.580307 +## +## hepmc3@3.3.0%gcc@13.2.0~interfaces~ipo~protobuf~python~rootio build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/jwje3ny +## +## Configure options: -DHEPMC3_ENABLE_PROTOBUFIO:BOOL=OFF -DHEPMC3_ENABLE_PYTHON:BOOL=OFF -DHEPMC3_ENABLE_ROOTIO:BOOL=OFF -DHEPMC3_INSTALL_INTERFACES:BOOL=OFF -DHEPMC3_ENABLE_TEST:BOOL=OFF +## + + +module-whatis {The HepMC package is an object oriented, C++ event record for High Energy Physics Monte Carlo generators and simulation.} + +proc ModulesHelp { } { + puts stderr {Name : hepmc3} + puts stderr {Version: 3.3.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The HepMC package is an object oriented, C++ event record for High} + puts stderr {Energy Physics Monte Carlo generators and simulation.} +} + +conflict hepmc3 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/hepmc3-3.3.0-jwje3nybnbzyatcbhjju5xzdgayhhgzh/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/hepmc3-3.3.0-jwje3nybnbzyatcbhjju5xzdgayhhgzh/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/hepmc3-3.3.0-jwje3nybnbzyatcbhjju5xzdgayhhgzh/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/hepmc3-3.3.0-jwje3nybnbzyatcbhjju5xzdgayhhgzh/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/hepmc3-3.3.0-jwje3nybnbzyatcbhjju5xzdgayhhgzh/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/hepmc3-3.3.0-jwje3nybnbzyatcbhjju5xzdgayhhgzh/.} +setenv HEPMC3_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/hepmc3-3.3.0-jwje3nybnbzyatcbhjju5xzdgayhhgzh} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/hh-suite/3.3.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/hh-suite/3.3.0 new file mode 100644 index 00000000..91216949 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/hh-suite/3.3.0 @@ -0,0 +1,65 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:39.602334 +## +## hh-suite@3.3.0%gcc@13.2.0~ipo~mpi build_system=cmake build_type=Release generator=make patches=dad4ee8 arch=linux-ubuntu22.04-x86_64_v3/uppdyig +## + + +module-whatis {HH-suite is a widely used open source software suite for sensitive sequence similarity searches and protein fold recognition. It is based on pairwise alignment of profile Hidden Markov models (HMMs), which represent multiple sequence alignments of homologous proteins.} + +proc ModulesHelp { } { + puts stderr {Name : hh-suite} + puts stderr {Version: 3.3.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {HH-suite is a widely used open source software suite for sensitive} + puts stderr {sequence similarity searches and protein fold recognition. It is based} + puts stderr {on pairwise alignment of profile Hidden Markov models (HMMs), which} + puts stderr {represent multiple sequence alignments of homologous proteins.} +} + +conflict hh-suite + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/hh-suite-3.3.0/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/hh-suite-3.3.0/.} +setenv HH_SUITE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/hh-suite-3.3.0-uppdyiga53mainmsh7yml5uoez2zmap2} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/hisat2/2.2.1 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/hisat2/2.2.1 new file mode 100644 index 00000000..c5ef8366 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/hisat2/2.2.1 @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:39.625749 +## +## hisat2@2.2.1%gcc@13.2.0~sra build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/xinrpxv +## + + +module-whatis {HISAT2 is a fast and sensitive alignment program for mapping next-generation sequencing reads (whole-genome, transcriptome, and exome sequencing data) against the general human population (as well as against a single reference genome).} + +proc ModulesHelp { } { + puts stderr {Name : hisat2} + puts stderr {Version: 2.2.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {HISAT2 is a fast and sensitive alignment program for mapping next-} + puts stderr {generation sequencing reads (whole-genome, transcriptome, and exome} + puts stderr {sequencing data) against the general human population (as well as} + puts stderr {against a single reference genome).} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load python/3.13.0-xf4zxxe +} else { + depends-on perl/5.40.0-lzbctij + depends-on python/3.13.0-xf4zxxe +} +conflict hisat2 + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/hisat2-2.2.1/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/hisat2-2.2.1/.} +setenv HISAT2_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/hisat2-2.2.1-xinrpxvv7fdivyurljywpi3x3lwkdxwc} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/hmmer/3.4 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/hmmer/3.4 new file mode 100644 index 00000000..b448c705 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/hmmer/3.4 @@ -0,0 +1,66 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:39.677809 +## +## hmmer@3.4%gcc@13.2.0~gsl~mpi build_system=generic arch=linux-ubuntu22.04-x86_64_v3/c2zmta6 +## + + +module-whatis {HMMER is used for searching sequence databases for sequence homologs, and for making sequence alignments. It implements methods using probabilistic models called profile hidden Markov models (profile HMMs). } + +proc ModulesHelp { } { + puts stderr {Name : hmmer} + puts stderr {Version: 3.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {HMMER is used for searching sequence databases for sequence homologs,} + puts stderr {and for making sequence alignments. It implements methods using} + puts stderr {probabilistic models called profile hidden Markov models (profile HMMs).} +} + +conflict hmmer + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/hmmer-3.4/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/hmmer-3.4/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/hmmer-3.4/.} +setenv HMMER_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/hmmer-3.4-c2zmta6okryu2ucnfbaojjstdfgwdmdb} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/htseq/2.0.3 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/htseq/2.0.3 new file mode 100644 index 00000000..2a69df11 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/htseq/2.0.3 @@ -0,0 +1,85 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:17.407857 +## +## py-htseq@2.0.3%gcc@13.2.0+h5ad+loom+mtx+qa build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/o5vrvl2 +## + + +module-whatis {HTSeq is a Python package that provides infrastructure to process data from high-throughput sequencing assays.} + +proc ModulesHelp { } { + puts stderr {Name : py-htseq} + puts stderr {Version: 2.0.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {HTSeq is a Python package that provides infrastructure to process data} + puts stderr {from high-throughput sequencing assays.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-anndata/0.8.0-cn7pr6r + module load py-loompy/3.0.7-s35c6tp + module load py-matplotlib/3.9.2-jpcql5s + module load py-numpy/1.25.2-4avjy5d + module load py-pysam/0.19.1-qyscevj + module load py-scipy/1.14.1-3q4c4eg + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-anndata/0.8.0-cn7pr6r + depends-on py-loompy/3.0.7-s35c6tp + depends-on py-matplotlib/3.9.2-jpcql5s + depends-on py-numpy/1.25.2-4avjy5d + depends-on py-pysam/0.19.1-qyscevj + depends-on py-scipy/1.14.1-3q4c4eg + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-htseq + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/lib/python3.11/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/bin} +setenv PY_HTSEQ_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-htseq-2.0.3-o5vrvl2gvg4mdzujerdi3pcg4qfzyyqk} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/htslib/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/htslib/.modulerc new file mode 100644 index 00000000..488f3a6f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/htslib/.modulerc @@ -0,0 +1,5 @@ +#%Module4.7 +module-hide --soft --hidden-loaded htslib/1.16-nk25g7q +module-hide --soft --hidden-loaded htslib/1.20-yqt6avm +module-hide --soft --hidden-loaded htslib/1.20-m6sxxvy +module-hide --soft --hidden-loaded htslib/1.9-brt3ivy diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/htslib/1.16-nk25g7q b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/htslib/1.16-nk25g7q new file mode 100644 index 00000000..9cafaed2 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/htslib/1.16-nk25g7q @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:39.736826 +## +## htslib@1.16%gcc@13.2.0+gcs+libcurl+libdeflate+pic~plugins+s3 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/nk25g7q +## +## Configure options: --enable-libcurl --enable-s3 --enable-gcs --disable-plugins --enable-libdeflate +## + + +module-whatis {C library for high-throughput sequencing data formats.} + +proc ModulesHelp { } { + puts stderr {Name : htslib} + puts stderr {Version: 1.16} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {C library for high-throughput sequencing data formats.} +} + +conflict htslib + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/htslib-1.16-nk25g7qbrsq2s6lqgy4nwik5xv2nzw6n/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/htslib-1.16-nk25g7qbrsq2s6lqgy4nwik5xv2nzw6n/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/htslib-1.16-nk25g7qbrsq2s6lqgy4nwik5xv2nzw6n/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/htslib-1.16-nk25g7qbrsq2s6lqgy4nwik5xv2nzw6n/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/htslib-1.16-nk25g7qbrsq2s6lqgy4nwik5xv2nzw6n/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/htslib-1.16-nk25g7qbrsq2s6lqgy4nwik5xv2nzw6n/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/htslib-1.16-nk25g7qbrsq2s6lqgy4nwik5xv2nzw6n/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/htslib-1.16-nk25g7qbrsq2s6lqgy4nwik5xv2nzw6n/.} +setenv HTSLIB_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/htslib-1.16-nk25g7qbrsq2s6lqgy4nwik5xv2nzw6n} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/htslib/1.19.1 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/htslib/1.19.1 new file mode 100644 index 00000000..256cdf23 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/htslib/1.19.1 @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:39.760284 +## +## htslib@1.19.1%gcc@13.2.0+gcs+libcurl+libdeflate+pic~plugins+s3 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/g2e7lvy +## +## Configure options: --enable-libcurl --enable-s3 --enable-gcs --disable-plugins --enable-libdeflate +## + + +module-whatis {C library for high-throughput sequencing data formats.} + +proc ModulesHelp { } { + puts stderr {Name : htslib} + puts stderr {Version: 1.19.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {C library for high-throughput sequencing data formats.} +} + +conflict htslib + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/htslib-1.19.1/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/htslib-1.19.1/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/htslib-1.19.1/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/htslib-1.19.1/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/htslib-1.19.1/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/htslib-1.19.1/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/htslib-1.19.1/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/htslib-1.19.1/.} +setenv HTSLIB_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/htslib-1.19.1-g2e7lvynxeg3f7pbpavninxlb6nvnlhh} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/htslib/1.20-m6sxxvy b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/htslib/1.20-m6sxxvy new file mode 100644 index 00000000..b590092f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/htslib/1.20-m6sxxvy @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:39.789126 +## +## htslib@1.20%gcc@13.2.0+gcs+libcurl+libdeflate+pic~plugins+s3 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/m6sxxvy +## +## Configure options: --enable-libcurl --enable-s3 --enable-gcs --disable-plugins --enable-libdeflate +## + + +module-whatis {C library for high-throughput sequencing data formats.} + +proc ModulesHelp { } { + puts stderr {Name : htslib} + puts stderr {Version: 1.20} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {C library for high-throughput sequencing data formats.} +} + +conflict htslib + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/htslib-1.20-m6sxxvyazgvey27wbcpf6mqmlkbqerqj/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/htslib-1.20-m6sxxvyazgvey27wbcpf6mqmlkbqerqj/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/htslib-1.20-m6sxxvyazgvey27wbcpf6mqmlkbqerqj/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/htslib-1.20-m6sxxvyazgvey27wbcpf6mqmlkbqerqj/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/htslib-1.20-m6sxxvyazgvey27wbcpf6mqmlkbqerqj/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/htslib-1.20-m6sxxvyazgvey27wbcpf6mqmlkbqerqj/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/htslib-1.20-m6sxxvyazgvey27wbcpf6mqmlkbqerqj/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/htslib-1.20-m6sxxvyazgvey27wbcpf6mqmlkbqerqj/.} +setenv HTSLIB_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/htslib-1.20-m6sxxvyazgvey27wbcpf6mqmlkbqerqj} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/htslib/1.20-yqt6avm b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/htslib/1.20-yqt6avm new file mode 100644 index 00000000..4d29b367 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/htslib/1.20-yqt6avm @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:39.777859 +## +## htslib@1.20%gcc@13.2.0+gcs+libcurl+libdeflate+pic~plugins+s3 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/yqt6avm +## +## Configure options: --enable-libcurl --enable-s3 --enable-gcs --disable-plugins --enable-libdeflate +## + + +module-whatis {C library for high-throughput sequencing data formats.} + +proc ModulesHelp { } { + puts stderr {Name : htslib} + puts stderr {Version: 1.20} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {C library for high-throughput sequencing data formats.} +} + +conflict htslib + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/htslib-1.20-yqt6avmuxcdfjyrsnuiwgkxdwei532yz/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/htslib-1.20-yqt6avmuxcdfjyrsnuiwgkxdwei532yz/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/htslib-1.20-yqt6avmuxcdfjyrsnuiwgkxdwei532yz/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/htslib-1.20-yqt6avmuxcdfjyrsnuiwgkxdwei532yz/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/htslib-1.20-yqt6avmuxcdfjyrsnuiwgkxdwei532yz/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/htslib-1.20-yqt6avmuxcdfjyrsnuiwgkxdwei532yz/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/htslib-1.20-yqt6avmuxcdfjyrsnuiwgkxdwei532yz/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/htslib-1.20-yqt6avmuxcdfjyrsnuiwgkxdwei532yz/.} +setenv HTSLIB_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/htslib-1.20-yqt6avmuxcdfjyrsnuiwgkxdwei532yz} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/htslib/1.9-brt3ivy b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/htslib/1.9-brt3ivy new file mode 100644 index 00000000..6d35c352 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/htslib/1.9-brt3ivy @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:39.699400 +## +## htslib@1.9%gcc@13.2.0+gcs+libcurl+libdeflate+pic~plugins+s3 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/brt3ivy +## +## Configure options: --enable-libcurl --enable-s3 --enable-gcs --disable-plugins --enable-libdeflate +## + + +module-whatis {C library for high-throughput sequencing data formats.} + +proc ModulesHelp { } { + puts stderr {Name : htslib} + puts stderr {Version: 1.9} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {C library for high-throughput sequencing data formats.} +} + +conflict htslib + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/htslib-1.9-brt3ivy4w2d2n7uuhhkpxjcj2h7ygwoi/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/htslib-1.9-brt3ivy4w2d2n7uuhhkpxjcj2h7ygwoi/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/htslib-1.9-brt3ivy4w2d2n7uuhhkpxjcj2h7ygwoi/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/htslib-1.9-brt3ivy4w2d2n7uuhhkpxjcj2h7ygwoi/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/htslib-1.9-brt3ivy4w2d2n7uuhhkpxjcj2h7ygwoi/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/htslib-1.9-brt3ivy4w2d2n7uuhhkpxjcj2h7ygwoi/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/htslib-1.9-brt3ivy4w2d2n7uuhhkpxjcj2h7ygwoi/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/htslib-1.9-brt3ivy4w2d2n7uuhhkpxjcj2h7ygwoi/.} +setenv HTSLIB_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/htslib-1.9-brt3ivy4w2d2n7uuhhkpxjcj2h7ygwoi} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/hwloc/2.11.1 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/hwloc/2.11.1 new file mode 100644 index 00000000..be4eb79b --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/hwloc/2.11.1 @@ -0,0 +1,80 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:39.799310 +## +## hwloc@2.11.1%gcc@13.2.0+cairo+cuda~gl+libudev+libxml2+nvml~oneapi-level-zero~opencl+pci~rocm build_system=autotools cuda_arch=75,86 libs=shared,static arch=linux-ubuntu22.04-x86_64_v3/igzfdos +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {The Hardware Locality (hwloc) software project.} + +proc ModulesHelp { } { + puts stderr {Name : hwloc} + puts stderr {Version: 2.11.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The Hardware Locality (hwloc) software project. The Portable Hardware} + puts stderr {Locality (hwloc) software package provides a portable abstraction} + puts stderr {(across OS, versions, architectures, ...) of the hierarchical topology} + puts stderr {of modern architectures, including NUMA memory nodes, sockets, shared} + puts stderr {caches, cores and simultaneous multithreading. It also gathers various} + puts stderr {system attributes such as cache and memory information as well as the} + puts stderr {locality of I/O devices such as network interfaces, InfiniBand HCAs or} + puts stderr {GPUs. It primarily aims at helping applications with gathering} + puts stderr {information about modern computing hardware so as to exploit it} + puts stderr {accordingly and efficiently.} +} + +conflict hwloc + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/hwloc-2.11.1/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/hwloc-2.11.1/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/hwloc-2.11.1/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/hwloc-2.11.1/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/hwloc-2.11.1/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/hwloc-2.11.1/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/hwloc-2.11.1/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/hwloc-2.11.1/.} +setenv HWLOC_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/hwloc-2.11.1} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/hypre/2.31.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/hypre/2.31.0 new file mode 100644 index 00000000..de9639f9 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/hypre/2.31.0 @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:39.846408 +## +## hypre@2.31.0%gcc@13.2.0~caliper~complex~cublas+cuda~debug+fortran~gptune~gpu-aware-mpi~int64~internal-superlu~magma~mixedint~mpi+openmp~rocblas~rocm+shared~superlu-dist~sycl~umpire~unified-memory build_system=autotools cuda_arch=75 precision=double arch=linux-ubuntu22.04-x86_64_v3/r2jyrij +## +## Configure options: --prefix=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/hypre-2.31.0-r2jyrijh6iqcpdslibd4enfjvpx5qdg3 --with-lapack-libs=openblas --with-lapack-lib-dirs=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openblas-0.3.28-ap4k5dzekmdokd4sqkhp6vrac2bypni3/lib --with-blas-libs=openblas --with-blas-lib-dirs=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openblas-0.3.28-ap4k5dzekmdokd4sqkhp6vrac2bypni3/lib --without-MPI --with-openmp --disable-bigint --disable-mixedint --disable-complex --enable-shared --without-superlu --without-mli --without-fei --disable-debug --with-cuda --enable-curand --enable-cusparse --with-gpu-arch=75 --enable-device-memory-pool --with-cuda-home=/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-12.6.2 --without-hip --disable-rocrand --disable-rocsparse --enable-fortran +## + + +module-whatis {Hypre is a library of high performance preconditioners that features parallel multigrid methods for both structured and unstructured grid problems.} + +proc ModulesHelp { } { + puts stderr {Name : hypre} + puts stderr {Version: 2.31.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Hypre is a library of high performance preconditioners that features} + puts stderr {parallel multigrid methods for both structured and unstructured grid} + puts stderr {problems.} +} + +conflict hypre + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/hypre-2.31.0/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/hypre-2.31.0/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/hypre-2.31.0/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/hypre-2.31.0/include} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/hypre-2.31.0/.} +setenv HYPRE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/hypre-2.31.0-r2jyrijh6iqcpdslibd4enfjvpx5qdg3} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/icu4c/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/icu4c/.modulerc new file mode 100644 index 00000000..5183086c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/icu4c/.modulerc @@ -0,0 +1,5 @@ +#%Module4.7 +module-hide --soft --hidden-loaded icu4c/74.2-bihgzsb +module-hide --soft --hidden-loaded icu4c/74.2-advxjrp +module-hide --soft --hidden-loaded icu4c/74.2-inztxsr +module-hide --soft --hidden-loaded icu4c/74.2-dva54du diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/icu4c/74.2-advxjrp b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/icu4c/74.2-advxjrp new file mode 100644 index 00000000..7c6dd1cf --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/icu4c/74.2-advxjrp @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:39.891310 +## +## icu4c@74.2%gcc@13.2.0 build_system=autotools cxxstd=11 arch=linux-ubuntu22.04-x86_64_v3/advxjrp +## + + +module-whatis {ICU is a mature, widely used set of C/C++ and Java libraries providing Unicode and Globalization support for software applications. ICU4C is the C/C++ interface.} + +proc ModulesHelp { } { + puts stderr {Name : icu4c} + puts stderr {Version: 74.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {ICU is a mature, widely used set of C/C++ and Java libraries providing} + puts stderr {Unicode and Globalization support for software applications. ICU4C is} + puts stderr {the C/C++ interface.} +} + +conflict icu4c + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/icu4c-74.2-advxjrptj42rkoauh2k3lthl2allqg7u/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/icu4c-74.2-advxjrptj42rkoauh2k3lthl2allqg7u/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/icu4c-74.2-advxjrptj42rkoauh2k3lthl2allqg7u/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/icu4c-74.2-advxjrptj42rkoauh2k3lthl2allqg7u/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/icu4c-74.2-advxjrptj42rkoauh2k3lthl2allqg7u/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/icu4c-74.2-advxjrptj42rkoauh2k3lthl2allqg7u/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/icu4c-74.2-advxjrptj42rkoauh2k3lthl2allqg7u/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/icu4c-74.2-advxjrptj42rkoauh2k3lthl2allqg7u/.} +setenv ICU4C_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/icu4c-74.2-advxjrptj42rkoauh2k3lthl2allqg7u} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/icu4c/74.2-bihgzsb b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/icu4c/74.2-bihgzsb new file mode 100644 index 00000000..842eed01 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/icu4c/74.2-bihgzsb @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:39.870427 +## +## icu4c@74.2%gcc@13.2.0 build_system=autotools cxxstd=11 arch=linux-ubuntu22.04-x86_64_v3/bihgzsb +## + + +module-whatis {ICU is a mature, widely used set of C/C++ and Java libraries providing Unicode and Globalization support for software applications. ICU4C is the C/C++ interface.} + +proc ModulesHelp { } { + puts stderr {Name : icu4c} + puts stderr {Version: 74.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {ICU is a mature, widely used set of C/C++ and Java libraries providing} + puts stderr {Unicode and Globalization support for software applications. ICU4C is} + puts stderr {the C/C++ interface.} +} + +conflict icu4c + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/icu4c-74.2-bihgzsb4as7i6fhhm6gf6lmazibmjkom/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/icu4c-74.2-bihgzsb4as7i6fhhm6gf6lmazibmjkom/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/icu4c-74.2-bihgzsb4as7i6fhhm6gf6lmazibmjkom/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/icu4c-74.2-bihgzsb4as7i6fhhm6gf6lmazibmjkom/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/icu4c-74.2-bihgzsb4as7i6fhhm6gf6lmazibmjkom/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/icu4c-74.2-bihgzsb4as7i6fhhm6gf6lmazibmjkom/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/icu4c-74.2-bihgzsb4as7i6fhhm6gf6lmazibmjkom/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/icu4c-74.2-bihgzsb4as7i6fhhm6gf6lmazibmjkom/.} +setenv ICU4C_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/icu4c-74.2-bihgzsb4as7i6fhhm6gf6lmazibmjkom} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/icu4c/74.2-dva54du b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/icu4c/74.2-dva54du new file mode 100644 index 00000000..d7772e2d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/icu4c/74.2-dva54du @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:39.907131 +## +## icu4c@74.2%gcc@13.2.0 build_system=autotools cxxstd=11 arch=linux-ubuntu22.04-x86_64_v3/dva54du +## + + +module-whatis {ICU is a mature, widely used set of C/C++ and Java libraries providing Unicode and Globalization support for software applications. ICU4C is the C/C++ interface.} + +proc ModulesHelp { } { + puts stderr {Name : icu4c} + puts stderr {Version: 74.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {ICU is a mature, widely used set of C/C++ and Java libraries providing} + puts stderr {Unicode and Globalization support for software applications. ICU4C is} + puts stderr {the C/C++ interface.} +} + +conflict icu4c + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/icu4c-74.2-dva54duplvbyorlo2jz5lqaiirz7xo3q/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/icu4c-74.2-dva54duplvbyorlo2jz5lqaiirz7xo3q/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/icu4c-74.2-dva54duplvbyorlo2jz5lqaiirz7xo3q/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/icu4c-74.2-dva54duplvbyorlo2jz5lqaiirz7xo3q/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/icu4c-74.2-dva54duplvbyorlo2jz5lqaiirz7xo3q/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/icu4c-74.2-dva54duplvbyorlo2jz5lqaiirz7xo3q/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/icu4c-74.2-dva54duplvbyorlo2jz5lqaiirz7xo3q/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/icu4c-74.2-dva54duplvbyorlo2jz5lqaiirz7xo3q/.} +setenv ICU4C_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/icu4c-74.2-dva54duplvbyorlo2jz5lqaiirz7xo3q} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/icu4c/74.2-inztxsr b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/icu4c/74.2-inztxsr new file mode 100644 index 00000000..952a9eb7 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/icu4c/74.2-inztxsr @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:39.899189 +## +## icu4c@74.2%gcc@13.2.0 build_system=autotools cxxstd=11 arch=linux-ubuntu22.04-x86_64_v3/inztxsr +## + + +module-whatis {ICU is a mature, widely used set of C/C++ and Java libraries providing Unicode and Globalization support for software applications. ICU4C is the C/C++ interface.} + +proc ModulesHelp { } { + puts stderr {Name : icu4c} + puts stderr {Version: 74.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {ICU is a mature, widely used set of C/C++ and Java libraries providing} + puts stderr {Unicode and Globalization support for software applications. ICU4C is} + puts stderr {the C/C++ interface.} +} + +conflict icu4c + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/icu4c-74.2-inztxsrea3b7ye7yzjrjgl6luyv5y2nr/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/icu4c-74.2-inztxsrea3b7ye7yzjrjgl6luyv5y2nr/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/icu4c-74.2-inztxsrea3b7ye7yzjrjgl6luyv5y2nr/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/icu4c-74.2-inztxsrea3b7ye7yzjrjgl6luyv5y2nr/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/icu4c-74.2-inztxsrea3b7ye7yzjrjgl6luyv5y2nr/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/icu4c-74.2-inztxsrea3b7ye7yzjrjgl6luyv5y2nr/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/icu4c-74.2-inztxsrea3b7ye7yzjrjgl6luyv5y2nr/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/icu4c-74.2-inztxsrea3b7ye7yzjrjgl6luyv5y2nr/.} +setenv ICU4C_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/icu4c-74.2-inztxsrea3b7ye7yzjrjgl6luyv5y2nr} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/igv/2.16.2 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/igv/2.16.2 new file mode 100644 index 00000000..f6ac28b6 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/igv/2.16.2 @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:39.931268 +## +## igv@2.16.2%gcc@13.2.0~igvtools build_system=generic arch=linux-ubuntu22.04-x86_64_v3/4commmq +## + + +module-whatis {The Integrative Genomics Viewer (IGV) is a high-performance visualization tool for interactive exploration of large, integrated genomic datasets. It supports a wide variety of data types, including array-based and next-generation sequence data, and genomic annotations.} + +proc ModulesHelp { } { + puts stderr {Name : igv} + puts stderr {Version: 2.16.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The Integrative Genomics Viewer (IGV) is a high-performance} + puts stderr {visualization tool for interactive exploration of large, integrated} + puts stderr {genomic datasets. It supports a wide variety of data types, including} + puts stderr {array-based and next-generation sequence data, and genomic annotations.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load openjdk/17.0.11_9 +} else { + depends-on openjdk/17.0.11_9 +} +conflict igv + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/igv-2.16.2/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/igv-2.16.2/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/igv-2.16.2/.} +setenv IGV_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/igv-2.16.2-4commmqjucsjbimttr4oojbtuzs2oujj} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/imagemagick/7.1.1-29 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/imagemagick/7.1.1-29 new file mode 100644 index 00000000..8c97d045 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/imagemagick/7.1.1-29 @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:39.956451 +## +## imagemagick@7.1.1-29%gcc@13.2.0~ghostscript~rsvg build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/3a63wvj +## +## Configure options: --without-gslib --without-rsvg +## + + +module-whatis {ImageMagick is a software suite to create, edit, compose, or convert bitmap images.} + +proc ModulesHelp { } { + puts stderr {Name : imagemagick} + puts stderr {Version: 7.1.1-29} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {ImageMagick is a software suite to create, edit, compose, or convert} + puts stderr {bitmap images.} +} + +conflict imagemagick + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/imagemagick-7.1.1-29/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/imagemagick-7.1.1-29/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/imagemagick-7.1.1-29/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/imagemagick-7.1.1-29/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/imagemagick-7.1.1-29/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/imagemagick-7.1.1-29/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/imagemagick-7.1.1-29/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/imagemagick-7.1.1-29/.} +prepend-path XDG_DATA_DIRS {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/pango-1.54.0/share} +prepend-path GI_TYPELIB_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/pango-1.54.0/lib/girepository-1.0} +setenv IMAGEMAGICK_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/imagemagick-7.1.1-29-3a63wvjokiov7wkly65lmnywddw2ppmf} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/imlib2/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/imlib2/.modulerc new file mode 100644 index 00000000..265bc9e3 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/imlib2/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded imlib2/1.7.1-77ifclj diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/imlib2/1.7.1-77ifclj b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/imlib2/1.7.1-77ifclj new file mode 100644 index 00000000..124ca0ce --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/imlib2/1.7.1-77ifclj @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:40.121178 +## +## imlib2@1.7.1%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/77ifclj +## + + +module-whatis { Library that does image file loading and saving as well as rendering, manipulation, arbitrary polygon support } + +proc ModulesHelp { } { + puts stderr {Name : imlib2} + puts stderr {Version: 1.7.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr { Library that does image file loading and saving as well as rendering,} + puts stderr {manipulation, arbitrary polygon support} +} + +conflict imlib2 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/imlib2-1.7.1-77ifcljsbmamjnqjkjk6oz3hpmurlquz/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/imlib2-1.7.1-77ifcljsbmamjnqjkjk6oz3hpmurlquz/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/imlib2-1.7.1-77ifcljsbmamjnqjkjk6oz3hpmurlquz/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/imlib2-1.7.1-77ifcljsbmamjnqjkjk6oz3hpmurlquz/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/imlib2-1.7.1-77ifcljsbmamjnqjkjk6oz3hpmurlquz/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/imlib2-1.7.1-77ifcljsbmamjnqjkjk6oz3hpmurlquz/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/imlib2-1.7.1-77ifcljsbmamjnqjkjk6oz3hpmurlquz/.} +setenv IMLIB2_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/imlib2-1.7.1-77ifcljsbmamjnqjkjk6oz3hpmurlquz} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/infernal/1.1.4 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/infernal/1.1.4 new file mode 100644 index 00000000..3fabc987 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/infernal/1.1.4 @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:40.136879 +## +## infernal@1.1.4%gcc@13.2.0~mpi build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/fkenj3p +## +## Configure options: --disable-mpi +## + + +module-whatis {Infernal (INFERence of RNA ALignment) is for searching DNA sequence databases for RNA structure and sequence similarities. It is an implementation of a special case of profile stochastic context-free grammars called covariance models (CMs).} + +proc ModulesHelp { } { + puts stderr {Name : infernal} + puts stderr {Version: 1.1.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Infernal (INFERence of RNA ALignment) is for searching DNA sequence} + puts stderr {databases for RNA structure and sequence similarities. It is an} + puts stderr {implementation of a special case of profile stochastic context-free} + puts stderr {grammars called covariance models (CMs).} +} + +conflict infernal + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/infernal-1.1.4/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/infernal-1.1.4/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/infernal-1.1.4/.} +setenv INFERNAL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/infernal-1.1.4-fkenj3p7wls6zbaeazu2fhoupqegzxrd} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/intel-oneapi-mkl/2022.2.1 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/intel-oneapi-mkl/2022.2.1 new file mode 100644 index 00000000..6b089d28 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/intel-oneapi-mkl/2022.2.1 @@ -0,0 +1,79 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:40.472319 +## +## intel-oneapi-mkl@2022.2.1%gcc@13.2.0~cluster+envmods~gfortran~ilp64+shared build_system=generic mpi_family=none threads=none arch=linux-ubuntu22.04-x86_64_v3/oazgm4t +## + + +module-whatis {Intel oneAPI Math Kernel Library (Intel oneMKL; formerly Intel Math Kernel Library or Intel MKL), is a library of optimized math routines for science, engineering, and financial applications. Core math functions include BLAS, LAPACK, ScaLAPACK, sparse solvers, fast Fourier transforms, and vector math.} + +proc ModulesHelp { } { + puts stderr {Name : intel-oneapi-mkl} + puts stderr {Version: 2022.2.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Intel oneAPI Math Kernel Library (Intel oneMKL; formerly Intel Math} + puts stderr {Kernel Library or Intel MKL), is a library of optimized math routines} + puts stderr {for science, engineering, and financial applications. Core math} + puts stderr {functions include BLAS, LAPACK, ScaLAPACK, sparse solvers, fast Fourier} + puts stderr {transforms, and vector math. LICENSE INFORMATION: By downloading and} + puts stderr {using this software, you agree to the terms and conditions of the} + puts stderr {software license agreements at https://intel.ly/393CijO.} +} + +conflict intel-oneapi-mkl + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/intel-oneapi-mkl-2022.2.1/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/intel-oneapi-mkl-2022.2.1/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/intel-oneapi-mkl-2022.2.1/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/intel-oneapi-mkl-2022.2.1/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/intel-oneapi-mkl-2022.2.1/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/intel-oneapi-mkl-2022.2.1/.} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/intel-oneapi-mkl-2022.2.1/mkl/2022.2.1/include} +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/intel-oneapi-mkl-2022.2.1/mkl/2022.2.1/lib/intel64} +prepend-path LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/intel-oneapi-mkl-2022.2.1/mkl/2022.2.1/lib/intel64} +setenv MKLROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/intel-oneapi-mkl-2022.2.1/mkl/2022.2.1} +prepend-path NLSPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/intel-oneapi-mkl-2022.2.1/mkl/2022.2.1/lib/intel64/locale/%l_%t/%N} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/intel-oneapi-mkl-2022.2.1/mkl/2022.2.1/lib/pkgconfig} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/intel-oneapi-mkl-2022.2.1/mkl/2022.2.1/bin/intel64} +setenv INTEL_ONEAPI_MKL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/intel-oneapi-mkl-2022.2.1-oazgm4tvysd3urizpvwatjcs2hee6etn} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/intel-oneapi-mkl/2023.2.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/intel-oneapi-mkl/2023.2.0 new file mode 100644 index 00000000..4f7c6615 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/intel-oneapi-mkl/2023.2.0 @@ -0,0 +1,79 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:40.918454 +## +## intel-oneapi-mkl@2023.2.0%gcc@13.2.0~cluster+envmods~gfortran~ilp64+shared build_system=generic mpi_family=none threads=none arch=linux-ubuntu22.04-x86_64_v3/quhbjr5 +## + + +module-whatis {Intel oneAPI Math Kernel Library (Intel oneMKL; formerly Intel Math Kernel Library or Intel MKL), is a library of optimized math routines for science, engineering, and financial applications. Core math functions include BLAS, LAPACK, ScaLAPACK, sparse solvers, fast Fourier transforms, and vector math.} + +proc ModulesHelp { } { + puts stderr {Name : intel-oneapi-mkl} + puts stderr {Version: 2023.2.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Intel oneAPI Math Kernel Library (Intel oneMKL; formerly Intel Math} + puts stderr {Kernel Library or Intel MKL), is a library of optimized math routines} + puts stderr {for science, engineering, and financial applications. Core math} + puts stderr {functions include BLAS, LAPACK, ScaLAPACK, sparse solvers, fast Fourier} + puts stderr {transforms, and vector math. LICENSE INFORMATION: By downloading and} + puts stderr {using this software, you agree to the terms and conditions of the} + puts stderr {software license agreements at https://intel.ly/393CijO.} +} + +conflict intel-oneapi-mkl + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/intel-oneapi-mkl-2023.2.0/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/intel-oneapi-mkl-2023.2.0/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/intel-oneapi-mkl-2023.2.0/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/intel-oneapi-mkl-2023.2.0/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/intel-oneapi-mkl-2023.2.0/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/intel-oneapi-mkl-2023.2.0/.} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/intel-oneapi-mkl-2023.2.0/mkl/2023.2.0/include} +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/intel-oneapi-mkl-2023.2.0/mkl/2023.2.0/lib/intel64} +prepend-path LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/intel-oneapi-mkl-2023.2.0/mkl/2023.2.0/lib/intel64} +setenv MKLROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/intel-oneapi-mkl-2023.2.0/mkl/2023.2.0} +prepend-path NLSPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/intel-oneapi-mkl-2023.2.0/mkl/2023.2.0/lib/intel64/locale/%l_%t/%N} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/intel-oneapi-mkl-2023.2.0/mkl/2023.2.0/lib/pkgconfig} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/intel-oneapi-mkl-2023.2.0/mkl/2023.2.0/bin/intel64} +setenv INTEL_ONEAPI_MKL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/intel-oneapi-mkl-2023.2.0-quhbjr52qb3zdrb4j47gzf6s7nt53dpk} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/intel-oneapi-mkl/2024.0.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/intel-oneapi-mkl/2024.0.0 new file mode 100644 index 00000000..6151de16 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/intel-oneapi-mkl/2024.0.0 @@ -0,0 +1,75 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:41.313755 +## +## intel-oneapi-mkl@2024.0.0%gcc@13.2.0~cluster+envmods~gfortran~ilp64+shared build_system=generic mpi_family=none threads=none arch=linux-ubuntu22.04-x86_64_v3/4i5ete2 +## + + +module-whatis {Intel oneAPI Math Kernel Library (Intel oneMKL; formerly Intel Math Kernel Library or Intel MKL), is a library of optimized math routines for science, engineering, and financial applications. Core math functions include BLAS, LAPACK, ScaLAPACK, sparse solvers, fast Fourier transforms, and vector math.} + +proc ModulesHelp { } { + puts stderr {Name : intel-oneapi-mkl} + puts stderr {Version: 2024.0.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Intel oneAPI Math Kernel Library (Intel oneMKL; formerly Intel Math} + puts stderr {Kernel Library or Intel MKL), is a library of optimized math routines} + puts stderr {for science, engineering, and financial applications. Core math} + puts stderr {functions include BLAS, LAPACK, ScaLAPACK, sparse solvers, fast Fourier} + puts stderr {transforms, and vector math. LICENSE INFORMATION: By downloading and} + puts stderr {using this software, you agree to the terms and conditions of the} + puts stderr {software license agreements at https://intel.ly/393CijO.} +} + +conflict intel-oneapi-mkl + +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/intel-oneapi-mkl-2024.0.0/.} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/intel-oneapi-mkl-2024.0.0/mkl/2024.0/lib/cmake:} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/intel-oneapi-mkl-2024.0.0/mkl/2024.0/include:} +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/intel-oneapi-mkl-2024.0.0/mkl/2024.0/lib:} +prepend-path LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/intel-oneapi-mkl-2024.0.0/mkl/2024.0/lib/:} +setenv MKLROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/intel-oneapi-mkl-2024.0.0/mkl/2024.0} +prepend-path NLSPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/intel-oneapi-mkl-2024.0.0/mkl/2024.0/share/locale/%l_%t/%N:} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/intel-oneapi-mkl-2024.0.0/mkl/2024.0/lib/pkgconfig:} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/intel-oneapi-mkl-2024.0.0/mkl/2024.0/bin/} +setenv INTEL_ONEAPI_MKL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/intel-oneapi-mkl-2024.0.0-4i5ete2mejovsle6wdhguydnp3dxu2bb} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/intel-oneapi-tbb/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/intel-oneapi-tbb/.modulerc new file mode 100644 index 00000000..c23aabd4 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/intel-oneapi-tbb/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded intel-oneapi-tbb/2022.0.0-k3diiyl +module-hide --soft --hidden-loaded intel-oneapi-tbb/2022.0.0-rh7o5bv diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/intel-oneapi-tbb/2021.11.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/intel-oneapi-tbb/2021.11.0 new file mode 100644 index 00000000..2615a5bf --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/intel-oneapi-tbb/2021.11.0 @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:41.726306 +## +## intel-oneapi-tbb@2021.11.0%gcc@13.2.0+envmods build_system=generic arch=linux-ubuntu22.04-x86_64_v3/oe7ee7j +## + + +module-whatis {Intel oneAPI Threading Building Blocks (oneTBB) is a flexible performance library that simplifies the work of adding parallelism to complex applications across accelerated architectures, even if you are not a threading expert.} + +proc ModulesHelp { } { + puts stderr {Name : intel-oneapi-tbb} + puts stderr {Version: 2021.11.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Intel oneAPI Threading Building Blocks (oneTBB) is a flexible} + puts stderr {performance library that simplifies the work of adding parallelism to} + puts stderr {complex applications across accelerated architectures, even if you are} + puts stderr {not a threading expert. LICENSE INFORMATION: By downloading and using} + puts stderr {this software, you agree to the terms and conditions of the software} + puts stderr {license agreements at https://intel.ly/393CijO.} +} + +conflict intel-oneapi-tbb + +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/intel-oneapi-tbb-2021.11.0/.} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/intel-oneapi-tbb-2021.11.0/tbb/2021.11/env/..} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/intel-oneapi-tbb-2021.11.0/tbb/2021.11/env/../include} +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/intel-oneapi-tbb-2021.11.0/tbb/2021.11/env/../lib/intel64/gcc4.8} +prepend-path LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/intel-oneapi-tbb-2021.11.0/tbb/2021.11/env/../lib/intel64/gcc4.8} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/intel-oneapi-tbb-2021.11.0/tbb/2021.11/env/../lib/pkgconfig} +setenv TBBROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/intel-oneapi-tbb-2021.11.0/tbb/2021.11/env/..} +setenv INTEL_ONEAPI_TBB_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/intel-oneapi-tbb-2021.11.0-oe7ee7jdjblzk7mvdn4rmxthlm4tgraz} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/intel-oneapi-tbb/2022.0.0-k3diiyl b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/intel-oneapi-tbb/2022.0.0-k3diiyl new file mode 100644 index 00000000..430efd81 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/intel-oneapi-tbb/2022.0.0-k3diiyl @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:42.536965 +## +## intel-oneapi-tbb@2022.0.0%gcc@11.4.0+envmods build_system=generic arch=linux-ubuntu22.04-x86_64_v3/k3diiyl +## + + +module-whatis {Intel oneAPI Threading Building Blocks (oneTBB) is a flexible performance library that simplifies the work of adding parallelism to complex applications across accelerated architectures, even if you are not a threading expert.} + +proc ModulesHelp { } { + puts stderr {Name : intel-oneapi-tbb} + puts stderr {Version: 2022.0.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Intel oneAPI Threading Building Blocks (oneTBB) is a flexible} + puts stderr {performance library that simplifies the work of adding parallelism to} + puts stderr {complex applications across accelerated architectures, even if you are} + puts stderr {not a threading expert. LICENSE INFORMATION: By downloading and using} + puts stderr {this software, you agree to the terms and conditions of the software} + puts stderr {license agreements at https://intel.ly/393CijO.} +} + +conflict intel-oneapi-tbb + +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-tbb-2022.0.0-k3diiylu5kre2r36ugrnjzz3imubaaca/.} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-tbb-2022.0.0-k3diiylu5kre2r36ugrnjzz3imubaaca/tbb/2022.0/env/..} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-tbb-2022.0.0-k3diiylu5kre2r36ugrnjzz3imubaaca/tbb/2022.0/env/../include} +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-tbb-2022.0.0-k3diiylu5kre2r36ugrnjzz3imubaaca/tbb/2022.0/env/../lib/intel64/gcc4.8} +prepend-path LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-tbb-2022.0.0-k3diiylu5kre2r36ugrnjzz3imubaaca/tbb/2022.0/env/../lib/intel64/gcc4.8} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-tbb-2022.0.0-k3diiylu5kre2r36ugrnjzz3imubaaca/tbb/2022.0/env/../lib/pkgconfig} +setenv TBBROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-tbb-2022.0.0-k3diiylu5kre2r36ugrnjzz3imubaaca/tbb/2022.0/env/..} +setenv INTEL_ONEAPI_TBB_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/intel-oneapi-tbb-2022.0.0-k3diiylu5kre2r36ugrnjzz3imubaaca} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/intel-oneapi-tbb/2022.0.0-rh7o5bv b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/intel-oneapi-tbb/2022.0.0-rh7o5bv new file mode 100644 index 00000000..44a502d2 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/intel-oneapi-tbb/2022.0.0-rh7o5bv @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:42.669314 +## +## intel-oneapi-tbb@2022.0.0%gcc@13.2.0+envmods build_system=generic arch=linux-ubuntu22.04-x86_64_v3/rh7o5bv +## + + +module-whatis {Intel oneAPI Threading Building Blocks (oneTBB) is a flexible performance library that simplifies the work of adding parallelism to complex applications across accelerated architectures, even if you are not a threading expert.} + +proc ModulesHelp { } { + puts stderr {Name : intel-oneapi-tbb} + puts stderr {Version: 2022.0.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Intel oneAPI Threading Building Blocks (oneTBB) is a flexible} + puts stderr {performance library that simplifies the work of adding parallelism to} + puts stderr {complex applications across accelerated architectures, even if you are} + puts stderr {not a threading expert. LICENSE INFORMATION: By downloading and using} + puts stderr {this software, you agree to the terms and conditions of the software} + puts stderr {license agreements at https://intel.ly/393CijO.} +} + +conflict intel-oneapi-tbb + +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/intel-oneapi-tbb-2022.0.0-rh7o5bv6rujkevj4j3ntn5hjibks4v6m/.} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/intel-oneapi-tbb-2022.0.0-rh7o5bv6rujkevj4j3ntn5hjibks4v6m/tbb/2022.0/env/..} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/intel-oneapi-tbb-2022.0.0-rh7o5bv6rujkevj4j3ntn5hjibks4v6m/tbb/2022.0/env/../include} +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/intel-oneapi-tbb-2022.0.0-rh7o5bv6rujkevj4j3ntn5hjibks4v6m/tbb/2022.0/env/../lib/intel64/gcc4.8} +prepend-path LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/intel-oneapi-tbb-2022.0.0-rh7o5bv6rujkevj4j3ntn5hjibks4v6m/tbb/2022.0/env/../lib/intel64/gcc4.8} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/intel-oneapi-tbb-2022.0.0-rh7o5bv6rujkevj4j3ntn5hjibks4v6m/tbb/2022.0/env/../lib/pkgconfig} +setenv TBBROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/intel-oneapi-tbb-2022.0.0-rh7o5bv6rujkevj4j3ntn5hjibks4v6m/tbb/2022.0/env/..} +setenv INTEL_ONEAPI_TBB_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/intel-oneapi-tbb-2022.0.0-rh7o5bv6rujkevj4j3ntn5hjibks4v6m} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/interproscan/5.63-95.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/interproscan/5.63-95.0 new file mode 100644 index 00000000..d9afe3e7 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/interproscan/5.63-95.0 @@ -0,0 +1,78 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:43.039458 +## +## interproscan@5.63-95.0%gcc@13.2.0~databases build_system=generic patches=6a81cbb,70c0de2 arch=linux-ubuntu22.04-x86_64_v3/nomhdt4 +## + + +module-whatis {InterProScan is the software package that allows sequences (protein and nucleic) to be scanned against InterPro's signatures. Signatures are predictive models, provided by several different databases, that make up the InterPro consortium. By default this does not download all the databases you likely want, you'll either want to build with +databases or download the data archive for the version you installed to a separate location and modify interproscan.properties} + +proc ModulesHelp { } { + puts stderr {Name : interproscan} + puts stderr {Version: 5.63-95.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {InterProScan is the software package that allows sequences (protein and} + puts stderr {nucleic) to be scanned against InterPro's signatures. Signatures are} + puts stderr {predictive models, provided by several different databases, that make up} + puts stderr {the InterPro consortium. By default this does not download all the} + puts stderr {databases you likely want, you'll either want to build with +databases} + puts stderr {or download the data archive for the version you installed to a separate} + puts stderr {location and modify interproscan.properties} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load openjdk/11.0.17_8 + module load perl/5.40.0-lzbctij + module load python/3.13.0-xf4zxxe +} else { + depends-on openjdk/11.0.17_8 + depends-on perl/5.40.0-lzbctij + depends-on python/3.13.0-xf4zxxe +} +conflict interproscan + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/interproscan-5.63-95.0/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/interproscan-5.63-95.0/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/interproscan-5.63-95.0/.} +setenv INTERPROSCAN_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/interproscan-5.63-95.0-nomhdt47i22abq7dswih2h3dyexdiykg} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/iq-tree/2.3.1 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/iq-tree/2.3.1 new file mode 100644 index 00000000..f6c950cd --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/iq-tree/2.3.1 @@ -0,0 +1,64 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:43.108676 +## +## iq-tree@2.3.1%gcc@13.2.0~ipo+lsd2~mpi+openmp build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/7ooxy2t +## +## Configure options: -DUSE_LSD2=ON -DIQTREE_FLAGS=omp +## + + +module-whatis {IQ-TREE Efficient software for phylogenomic inference} + +proc ModulesHelp { } { + puts stderr {Name : iq-tree} + puts stderr {Version: 2.3.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {IQ-TREE Efficient software for phylogenomic inference} +} + +conflict iq-tree + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/iq-tree-2.3.1/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/iq-tree-2.3.1/.} +setenv IQ_TREE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/iq-tree-2.3.1-7ooxy2tll6rm6tmjd3d2gz4vosu4qr7h} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/jags/4.3.2 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/jags/4.3.2 new file mode 100644 index 00000000..22dc6a39 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/jags/4.3.2 @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:43.135839 +## +## jags@4.3.2%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/65wf2r7 +## +## Configure options: --with-blas=-L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openblas-0.3.28-ap4k5dzekmdokd4sqkhp6vrac2bypni3/lib -lopenblas --with-lapack=-L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openblas-0.3.28-ap4k5dzekmdokd4sqkhp6vrac2bypni3/lib -lopenblas +## + + +module-whatis {JAGS is Just Another Gibbs Sampler. It is a program for analysis of Bayesian hierarchical models using Markov Chain Monte Carlo (MCMC) simulation not wholly unlike BUGS} + +proc ModulesHelp { } { + puts stderr {Name : jags} + puts stderr {Version: 4.3.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {JAGS is Just Another Gibbs Sampler. It is a program for analysis of} + puts stderr {Bayesian hierarchical models using Markov Chain Monte Carlo (MCMC)} + puts stderr {simulation not wholly unlike BUGS} +} + +conflict jags + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/jags-4.3.2/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/jags-4.3.2/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/jags-4.3.2/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/jags-4.3.2/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/jags-4.3.2/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/jags-4.3.2/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/jags-4.3.2/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/jags-4.3.2/.} +setenv JAGS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/jags-4.3.2-65wf2r7wzy6yflnkhzpwpmdppexi7g6y} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/jdk/23.0.1 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/jdk/23.0.1 new file mode 100644 index 00000000..36c94307 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/jdk/23.0.1 @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:43.159205 +## +## jdk@23.0.1%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/2rxcrd6 +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {The Java Development Kit (JDK) released by Oracle Corporation in the form of a binary product aimed at Java developers. Includes a complete JRE plus tools for developing, debugging, and monitoring Java applications.} + +proc ModulesHelp { } { + puts stderr {Name : jdk} + puts stderr {Version: 23.0.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The Java Development Kit (JDK) released by Oracle Corporation in the} + puts stderr {form of a binary product aimed at Java developers. Includes a complete} + puts stderr {JRE plus tools for developing, debugging, and monitoring Java} + puts stderr {applications.} +} + +conflict jdk + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/jdk-23.0.1/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/jdk-23.0.1/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/jdk-23.0.1/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/jdk-23.0.1/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/jdk-23.0.1/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/jdk-23.0.1/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/jdk-23.0.1/.} +setenv JAVA_HOME {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/jdk-23.0.1} +setenv JDK_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/jdk-23.0.1} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/jellyfish/1.1.11 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/jellyfish/1.1.11 new file mode 100644 index 00000000..5086e6a2 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/jellyfish/1.1.11 @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:43.179481 +## +## jellyfish@1.1.11%gcc@13.2.0~ruby build_system=autotools patches=e729c13 arch=linux-ubuntu22.04-x86_64_v3/ladvqre +## + + +module-whatis {JELLYFISH is a tool for fast, memory-efficient counting of k-mers in DNA.} + +proc ModulesHelp { } { + puts stderr {Name : jellyfish} + puts stderr {Version: 1.1.11} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {JELLYFISH is a tool for fast, memory-efficient counting of k-mers in} + puts stderr {DNA.} +} + +conflict jellyfish + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/jellyfish-1.1.11/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/jellyfish-1.1.11/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/jellyfish-1.1.11/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/jellyfish-1.1.11/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/jellyfish-1.1.11/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/jellyfish-1.1.11/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/jellyfish-1.1.11/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/jellyfish-1.1.11/.} +setenv JELLYFISH_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/jellyfish-1.1.11-ladvqre4s54upwumvn563e6ttoatatyn} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/jellyfish/2.3.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/jellyfish/2.3.0 new file mode 100644 index 00000000..fd068258 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/jellyfish/2.3.0 @@ -0,0 +1,75 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:43.200879 +## +## jellyfish@2.3.0%gcc@13.2.0~ruby build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/c2wtr2p +## + + +module-whatis {JELLYFISH is a tool for fast, memory-efficient counting of k-mers in DNA.} + +proc ModulesHelp { } { + puts stderr {Name : jellyfish} + puts stderr {Version: 2.3.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {JELLYFISH is a tool for fast, memory-efficient counting of k-mers in} + puts stderr {DNA.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict jellyfish + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/jellyfish-2.3.0/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/jellyfish-2.3.0/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/jellyfish-2.3.0/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/jellyfish-2.3.0/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/jellyfish-2.3.0/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/jellyfish-2.3.0/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/jellyfish-2.3.0/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/jellyfish-2.3.0/.} +setenv JELLYFISH_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/jellyfish-2.3.0-c2wtr2p4tuul6exm7mxagctb7joyn7bv} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/json-glib/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/json-glib/.modulerc new file mode 100644 index 00000000..a3fb95f7 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/json-glib/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded json-glib/1.6.6-b4txnsz +module-hide --soft --hidden-loaded json-glib/1.6.6-5pz64nv diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/json-glib/1.6.6-5pz64nv b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/json-glib/1.6.6-5pz64nv new file mode 100644 index 00000000..77ef5440 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/json-glib/1.6.6-5pz64nv @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:43.258404 +## +## json-glib@1.6.6%gcc@13.2.0~strip build_system=meson buildtype=release default_library=shared arch=linux-ubuntu22.04-x86_64_v3/5pz64nv +## + + +module-whatis {JSON-GLib is a library for reading and parsing JSON using GLib and GObject data types and API.} + +proc ModulesHelp { } { + puts stderr {Name : json-glib} + puts stderr {Version: 1.6.6} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {JSON-GLib is a library for reading and parsing JSON using GLib and} + puts stderr {GObject data types and API.} +} + +conflict json-glib + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/json-glib-1.6.6-5pz64nv33le46cssyddhmwpuuelbgs3b/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/json-glib-1.6.6-5pz64nv33le46cssyddhmwpuuelbgs3b/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/json-glib-1.6.6-5pz64nv33le46cssyddhmwpuuelbgs3b/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/json-glib-1.6.6-5pz64nv33le46cssyddhmwpuuelbgs3b/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/json-glib-1.6.6-5pz64nv33le46cssyddhmwpuuelbgs3b/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/json-glib-1.6.6-5pz64nv33le46cssyddhmwpuuelbgs3b/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/json-glib-1.6.6-5pz64nv33le46cssyddhmwpuuelbgs3b/.} +prepend-path XDG_DATA_DIRS {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gobject-introspection-1.78.1-gfqdnam4nzv5wsswjaibdwpawk46k5nz/share} +prepend-path GI_TYPELIB_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gobject-introspection-1.78.1-gfqdnam4nzv5wsswjaibdwpawk46k5nz/lib/girepository-1.0} +setenv JSON_GLIB_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/json-glib-1.6.6-5pz64nv33le46cssyddhmwpuuelbgs3b} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/json-glib/1.6.6-b4txnsz b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/json-glib/1.6.6-b4txnsz new file mode 100644 index 00000000..957097ef --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/json-glib/1.6.6-b4txnsz @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:43.232051 +## +## json-glib@1.6.6%gcc@13.2.0~strip build_system=meson buildtype=release default_library=shared arch=linux-ubuntu22.04-x86_64_v3/b4txnsz +## + + +module-whatis {JSON-GLib is a library for reading and parsing JSON using GLib and GObject data types and API.} + +proc ModulesHelp { } { + puts stderr {Name : json-glib} + puts stderr {Version: 1.6.6} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {JSON-GLib is a library for reading and parsing JSON using GLib and} + puts stderr {GObject data types and API.} +} + +conflict json-glib + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/json-glib-1.6.6-b4txnszgzid5geo5yujfuqkdquz5wm7s/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/json-glib-1.6.6-b4txnszgzid5geo5yujfuqkdquz5wm7s/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/json-glib-1.6.6-b4txnszgzid5geo5yujfuqkdquz5wm7s/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/json-glib-1.6.6-b4txnszgzid5geo5yujfuqkdquz5wm7s/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/json-glib-1.6.6-b4txnszgzid5geo5yujfuqkdquz5wm7s/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/json-glib-1.6.6-b4txnszgzid5geo5yujfuqkdquz5wm7s/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/json-glib-1.6.6-b4txnszgzid5geo5yujfuqkdquz5wm7s/.} +prepend-path XDG_DATA_DIRS {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gobject-introspection-1.78.1-lbxjktlxxkuloykmvnpnzarwuzjft3ez/share} +prepend-path GI_TYPELIB_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gobject-introspection-1.78.1-lbxjktlxxkuloykmvnpnzarwuzjft3ez/lib/girepository-1.0} +setenv JSON_GLIB_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/json-glib-1.6.6-b4txnszgzid5geo5yujfuqkdquz5wm7s} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/jsoncpp/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/jsoncpp/.modulerc new file mode 100644 index 00000000..5b8dba0a --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/jsoncpp/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded jsoncpp/1.9.5-amxiwvn +module-hide --soft --hidden-loaded jsoncpp/1.9.5-v27kygo diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/jsoncpp/1.9.5-amxiwvn b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/jsoncpp/1.9.5-amxiwvn new file mode 100644 index 00000000..8fa6cb56 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/jsoncpp/1.9.5-amxiwvn @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:43.283328 +## +## jsoncpp@1.9.5%gcc@11.4.0~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/amxiwvn +## + + +module-whatis {JsonCpp is a C++ library that allows manipulating JSON values, including serialization and deserialization to and from strings. It can also preserve existing comment in unserialization/serialization steps, making it a convenient format to store user input files.} + +proc ModulesHelp { } { + puts stderr {Name : jsoncpp} + puts stderr {Version: 1.9.5} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {JsonCpp is a C++ library that allows manipulating JSON values, including} + puts stderr {serialization and deserialization to and from strings. It can also} + puts stderr {preserve existing comment in unserialization/serialization steps, making} + puts stderr {it a convenient format to store user input files.} +} + +conflict jsoncpp + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/jsoncpp-1.9.5-amxiwvn42od7ddfarsfhauuwjvwfhwu6/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/jsoncpp-1.9.5-amxiwvn42od7ddfarsfhauuwjvwfhwu6/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/jsoncpp-1.9.5-amxiwvn42od7ddfarsfhauuwjvwfhwu6/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/jsoncpp-1.9.5-amxiwvn42od7ddfarsfhauuwjvwfhwu6/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/jsoncpp-1.9.5-amxiwvn42od7ddfarsfhauuwjvwfhwu6/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/jsoncpp-1.9.5-amxiwvn42od7ddfarsfhauuwjvwfhwu6/.} +setenv JSONCPP_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/jsoncpp-1.9.5-amxiwvn42od7ddfarsfhauuwjvwfhwu6} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/jsoncpp/1.9.5-v27kygo b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/jsoncpp/1.9.5-v27kygo new file mode 100644 index 00000000..f4bb10b3 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/jsoncpp/1.9.5-v27kygo @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:43.303588 +## +## jsoncpp@1.9.5%gcc@13.2.0~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/v27kygo +## + + +module-whatis {JsonCpp is a C++ library that allows manipulating JSON values, including serialization and deserialization to and from strings. It can also preserve existing comment in unserialization/serialization steps, making it a convenient format to store user input files.} + +proc ModulesHelp { } { + puts stderr {Name : jsoncpp} + puts stderr {Version: 1.9.5} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {JsonCpp is a C++ library that allows manipulating JSON values, including} + puts stderr {serialization and deserialization to and from strings. It can also} + puts stderr {preserve existing comment in unserialization/serialization steps, making} + puts stderr {it a convenient format to store user input files.} +} + +conflict jsoncpp + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/jsoncpp-1.9.5-v27kygooo7a4etlvabd7u5tvp6xn5uy6/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/jsoncpp-1.9.5-v27kygooo7a4etlvabd7u5tvp6xn5uy6/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/jsoncpp-1.9.5-v27kygooo7a4etlvabd7u5tvp6xn5uy6/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/jsoncpp-1.9.5-v27kygooo7a4etlvabd7u5tvp6xn5uy6/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/jsoncpp-1.9.5-v27kygooo7a4etlvabd7u5tvp6xn5uy6/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/jsoncpp-1.9.5-v27kygooo7a4etlvabd7u5tvp6xn5uy6/.} +setenv JSONCPP_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/jsoncpp-1.9.5-v27kygooo7a4etlvabd7u5tvp6xn5uy6} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/julia/1.11.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/julia/1.11.0 new file mode 100644 index 00000000..c51e0e26 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/julia/1.11.0 @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:43.332950 +## +## julia@1.11.0%gcc@13.2.0+openlibm+precompile build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/v6zwc5n +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {The Julia Language: A fresh approach to technical computing} + +proc ModulesHelp { } { + puts stderr {Name : julia} + puts stderr {Version: 1.11.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The Julia Language: A fresh approach to technical computing} +} + +conflict julia + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/julia-1.11.0/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/julia-1.11.0/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/julia-1.11.0/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/julia-1.11.0/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/julia-1.11.0/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/julia-1.11.0/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/julia-1.11.0/.} +setenv JULIA_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/julia-1.11.0} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/kalign/3.4.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/kalign/3.4.0 new file mode 100644 index 00000000..e20885ee --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/kalign/3.4.0 @@ -0,0 +1,66 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:43.354266 +## +## kalign@3.4.0%gcc@13.2.0~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/xjdzgov +## + + +module-whatis {A fast multiple sequence alignment program for biological sequences.} + +proc ModulesHelp { } { + puts stderr {Name : kalign} + puts stderr {Version: 3.4.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A fast multiple sequence alignment program for biological sequences.} +} + +conflict kalign + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/kalign-3.4.0/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/kalign-3.4.0/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/kalign-3.4.0/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/kalign-3.4.0/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/kalign-3.4.0/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/kalign-3.4.0/.} +setenv KALIGN_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/kalign-3.4.0-xjdzgovr6r3epj7jjzs452b7rw64ovlb} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/kallisto/0.48.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/kallisto/0.48.0 new file mode 100644 index 00000000..ecb4223e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/kallisto/0.48.0 @@ -0,0 +1,65 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:43.379078 +## +## kallisto@0.48.0%gcc@13.2.0~hdf5~ipo build_system=cmake build_type=Release generator=make patches=c401afb arch=linux-ubuntu22.04-x86_64_v3/tecrzf2 +## +## Configure options: -DCMAKE_VERBOSE_MAKEFILE:BOOL=OFF -DUSE_HDF5:BOOL=OFF +## + + +module-whatis {kallisto is a program for quantifying abundances of transcripts from RNA-Seq data.} + +proc ModulesHelp { } { + puts stderr {Name : kallisto} + puts stderr {Version: 0.48.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {kallisto is a program for quantifying abundances of transcripts from} + puts stderr {RNA-Seq data.} +} + +conflict kallisto + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/kallisto-0.48.0/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/kallisto-0.48.0/.} +setenv KALLISTO_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/kallisto-0.48.0-tecrzf2mw7xivjuegjitfesohfndivgk} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/kbproto/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/kbproto/.modulerc new file mode 100644 index 00000000..a089d361 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/kbproto/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded kbproto/1.0.7-morbtof +module-hide --soft --hidden-loaded kbproto/1.0.7-nbmp5hf diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/kbproto/1.0.7-morbtof b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/kbproto/1.0.7-morbtof new file mode 100644 index 00000000..8b14657b --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/kbproto/1.0.7-morbtof @@ -0,0 +1,67 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:43.402751 +## +## kbproto@1.0.7%gcc@11.4.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/morbtof +## + + +module-whatis {X Keyboard Extension.} + +proc ModulesHelp { } { + puts stderr {Name : kbproto} + puts stderr {Version: 1.0.7} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {X Keyboard Extension. This extension defines a protcol to provide a} + puts stderr {number of new capabilities and controls for text keyboards.} +} + +conflict kbproto + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/kbproto-1.0.7-morbtofb44jo5r4ppna3vbtiddbod4r4/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/kbproto-1.0.7-morbtofb44jo5r4ppna3vbtiddbod4r4/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/kbproto-1.0.7-morbtofb44jo5r4ppna3vbtiddbod4r4/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/kbproto-1.0.7-morbtofb44jo5r4ppna3vbtiddbod4r4/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/kbproto-1.0.7-morbtofb44jo5r4ppna3vbtiddbod4r4/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/kbproto-1.0.7-morbtofb44jo5r4ppna3vbtiddbod4r4/.} +setenv KBPROTO_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/kbproto-1.0.7-morbtofb44jo5r4ppna3vbtiddbod4r4} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/kbproto/1.0.7-nbmp5hf b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/kbproto/1.0.7-nbmp5hf new file mode 100644 index 00000000..c7537d27 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/kbproto/1.0.7-nbmp5hf @@ -0,0 +1,67 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:43.410146 +## +## kbproto@1.0.7%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/nbmp5hf +## + + +module-whatis {X Keyboard Extension.} + +proc ModulesHelp { } { + puts stderr {Name : kbproto} + puts stderr {Version: 1.0.7} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {X Keyboard Extension. This extension defines a protcol to provide a} + puts stderr {number of new capabilities and controls for text keyboards.} +} + +conflict kbproto + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/kbproto-1.0.7-nbmp5hfkt3ay5vakdzwuahmwslrxqlgq/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/kbproto-1.0.7-nbmp5hfkt3ay5vakdzwuahmwslrxqlgq/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/kbproto-1.0.7-nbmp5hfkt3ay5vakdzwuahmwslrxqlgq/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/kbproto-1.0.7-nbmp5hfkt3ay5vakdzwuahmwslrxqlgq/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/kbproto-1.0.7-nbmp5hfkt3ay5vakdzwuahmwslrxqlgq/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/kbproto-1.0.7-nbmp5hfkt3ay5vakdzwuahmwslrxqlgq/.} +setenv KBPROTO_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/kbproto-1.0.7-nbmp5hfkt3ay5vakdzwuahmwslrxqlgq} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/kmergenie/1.7051 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/kmergenie/1.7051 new file mode 100644 index 00000000..e62dd8ce --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/kmergenie/1.7051 @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:43.418936 +## +## kmergenie@1.7051%gcc@13.2.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/7vu7o2y +## + + +module-whatis {KmerGenie estimates the best k-mer length for genome de novo assembly.} + +proc ModulesHelp { } { + puts stderr {Name : kmergenie} + puts stderr {Version: 1.7051} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {KmerGenie estimates the best k-mer length for genome de novo assembly.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-setuptools/69.2.0-xquxuec + module load python/3.13.0-xf4zxxe + module load r/4.4.1-gwsuul6 +} else { + depends-on py-setuptools/69.2.0-xquxuec + depends-on python/3.13.0-xf4zxxe + depends-on r/4.4.1-gwsuul6 +} +conflict kmergenie + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/kmergenie-1.7051/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/kmergenie-1.7051/.} +setenv R_HOME {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/r-4.4.1/rlib/R} +setenv KMERGENIE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/kmergenie-1.7051-7vu7o2yjxsnokwqahqtuakrmr7fl7k6p} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/kokkos/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/kokkos/.modulerc new file mode 100644 index 00000000..59f61603 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/kokkos/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded kokkos/4.1.00-6bvcn5j diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/kokkos/4.1.00-6bvcn5j b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/kokkos/4.1.00-6bvcn5j new file mode 100644 index 00000000..05869aa3 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/kokkos/4.1.00-6bvcn5j @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:43.580475 +## +## kokkos@4.1.00%gcc@13.2.0~aggressive_vectorization~cmake_lang~compiler_warnings~cuda~debug~debug_bounds_check~debug_dualview_modify_check~deprecated_code~examples~hpx~hpx_async_dispatch~hwloc~ipo~memkind~numactl~openmp~openmptarget~pic~rocm+serial+shared~sycl~tests~threads~tuning~wrapper build_system=cmake build_type=Release cxxstd=17 generator=make intel_gpu_arch=none arch=linux-ubuntu22.04-x86_64_v3/6bvcn5j +## +## Configure options: -DCMAKE_POSITION_INDEPENDENT_CODE:BOOL=OFF -DCMAKE_CXX_STANDARD:STRING=17 -DBUILD_SHARED_LIBS:BOOL=ON -DKokkos_ENABLE_COMPILE_AS_CMAKE_LANGUAGE:BOOL=OFF -DKokkos_ENABLE_CUDA:BOOL=OFF -DKokkos_ENABLE_OPENMP:BOOL=OFF -DKokkos_ENABLE_THREADS:BOOL=OFF -DKokkos_ENABLE_SERIAL:BOOL=ON -DKokkos_ENABLE_HIP:BOOL=OFF -DKokkos_ENABLE_SYCL:BOOL=OFF -DKokkos_ENABLE_OPENMPTARGET:BOOL=OFF -DKokkos_ENABLE_AGGRESSIVE_VECTORIZATION:BOOL=OFF -DKokkos_ENABLE_COMPILER_WARNINGS:BOOL=OFF -DKokkos_ENABLE_DEBUG:BOOL=OFF -DKokkos_ENABLE_DEBUG_BOUNDS_CHECK:BOOL=OFF -DKokkos_ENABLE_DEBUG_DUALVIEW_MODIFY_CHECK:BOOL=OFF -DKokkos_ENABLE_DEPRECATED_CODE:BOOL=OFF -DKokkos_ENABLE_EXAMPLES:BOOL=OFF -DKokkos_ENABLE_HPX_ASYNC_DISPATCH:BOOL=OFF -DKokkos_ENABLE_TUNING:BOOL=OFF -DKokkos_ENABLE_TESTS:BOOL=OFF -DKokkos_ENABLE_HPX:BOOL=OFF -DKokkos_ENABLE_HWLOC:BOOL=OFF -DKokkos_ENABLE_NUMACTL:BOOL=OFF -DKokkos_ENABLE_MEMKIND:BOOL=OFF +## + + +module-whatis {Kokkos implements a programming model in C++ for writing performance portable applications targeting all major HPC platforms.} + +proc ModulesHelp { } { + puts stderr {Name : kokkos} + puts stderr {Version: 4.1.00} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Kokkos implements a programming model in C++ for writing performance} + puts stderr {portable applications targeting all major HPC platforms.} +} + +conflict kokkos + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/kokkos-4.1.00-6bvcn5juqzghk655r6ripurzu44b7eoi/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/kokkos-4.1.00-6bvcn5juqzghk655r6ripurzu44b7eoi/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/kokkos-4.1.00-6bvcn5juqzghk655r6ripurzu44b7eoi/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/kokkos-4.1.00-6bvcn5juqzghk655r6ripurzu44b7eoi/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/kokkos-4.1.00-6bvcn5juqzghk655r6ripurzu44b7eoi/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/kokkos-4.1.00-6bvcn5juqzghk655r6ripurzu44b7eoi/.} +setenv KOKKOS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/kokkos-4.1.00-6bvcn5juqzghk655r6ripurzu44b7eoi} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/kraken/1.1.1 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/kraken/1.1.1 new file mode 100644 index 00000000..6c6b6c0b --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/kraken/1.1.1 @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:43.603858 +## +## kraken@1.1.1%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/ifd57kh +## + + +module-whatis {Kraken is a system for assigning taxonomic labels to short DNA sequences, usually obtained through metagenomic studies.} + +proc ModulesHelp { } { + puts stderr {Name : kraken} + puts stderr {Version: 1.1.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Kraken is a system for assigning taxonomic labels to short DNA} + puts stderr {sequences, usually obtained through metagenomic studies.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict kraken + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/kraken-1.1.1/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/kraken-1.1.1/.} +setenv KRAKEN_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/kraken-1.1.1-ifd57khy2rcveazzq3soro3257bw5jzb} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/kraken2/2.1.2 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/kraken2/2.1.2 new file mode 100644 index 00000000..afc10dc0 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/kraken2/2.1.2 @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:43.636086 +## +## kraken2@2.1.2%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/ck3aehh +## + + +module-whatis {Kraken2 is a system for assigning taxonomic labels to short DNA sequences, usually obtained through metagenomic studies.} + +proc ModulesHelp { } { + puts stderr {Name : kraken2} + puts stderr {Version: 2.1.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Kraken2 is a system for assigning taxonomic labels to short DNA} + puts stderr {sequences, usually obtained through metagenomic studies.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load rsync/3.3.0-fjcfuwt + module load wget/1.24.5-nfbajcs +} else { + depends-on perl/5.40.0-lzbctij + depends-on rsync/3.3.0-fjcfuwt + depends-on wget/1.24.5-nfbajcs +} +conflict kraken2 + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/kraken2-2.1.2/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/kraken2-2.1.2/.} +setenv KRAKEN2_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/kraken2-2.1.2-ck3aehhseu2yvd45z4fv2t46ie52ncyn} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/krb5/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/krb5/.modulerc new file mode 100644 index 00000000..dd0c8222 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/krb5/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded krb5/1.21.3-guutbya +module-hide --soft --hidden-loaded krb5/1.21.3-rpbi5dh diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/krb5/1.21.3-guutbya b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/krb5/1.21.3-guutbya new file mode 100644 index 00000000..66578116 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/krb5/1.21.3-guutbya @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:43.708534 +## +## krb5@1.21.3%gcc@13.2.0+shared build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/guutbya +## +## Configure options: --without-system-verto --without-keyutils --disable-static CFLAGS=-fcommon +## + + +module-whatis {Network authentication protocol} + +proc ModulesHelp { } { + puts stderr {Name : krb5} + puts stderr {Version: 1.21.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Network authentication protocol} +} + +conflict krb5 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/krb5-1.21.3-guutbyab7l7cyttze7icyfvbpvs7s54m/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/krb5-1.21.3-guutbyab7l7cyttze7icyfvbpvs7s54m/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/krb5-1.21.3-guutbyab7l7cyttze7icyfvbpvs7s54m/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/krb5-1.21.3-guutbyab7l7cyttze7icyfvbpvs7s54m/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/krb5-1.21.3-guutbyab7l7cyttze7icyfvbpvs7s54m/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/krb5-1.21.3-guutbyab7l7cyttze7icyfvbpvs7s54m/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/krb5-1.21.3-guutbyab7l7cyttze7icyfvbpvs7s54m/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/krb5-1.21.3-guutbyab7l7cyttze7icyfvbpvs7s54m/.} +setenv KRB5_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/krb5-1.21.3-guutbyab7l7cyttze7icyfvbpvs7s54m} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/krb5/1.21.3-rpbi5dh b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/krb5/1.21.3-rpbi5dh new file mode 100644 index 00000000..e0571ffc --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/krb5/1.21.3-rpbi5dh @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:43.733728 +## +## krb5@1.21.3%gcc@13.2.0+shared build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/rpbi5dh +## +## Configure options: --without-system-verto --without-keyutils --disable-static CFLAGS=-fcommon +## + + +module-whatis {Network authentication protocol} + +proc ModulesHelp { } { + puts stderr {Name : krb5} + puts stderr {Version: 1.21.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Network authentication protocol} +} + +conflict krb5 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/krb5-1.21.3-rpbi5dhsh2kwpdxlxyhvrrmo7itrwfkm/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/krb5-1.21.3-rpbi5dhsh2kwpdxlxyhvrrmo7itrwfkm/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/krb5-1.21.3-rpbi5dhsh2kwpdxlxyhvrrmo7itrwfkm/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/krb5-1.21.3-rpbi5dhsh2kwpdxlxyhvrrmo7itrwfkm/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/krb5-1.21.3-rpbi5dhsh2kwpdxlxyhvrrmo7itrwfkm/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/krb5-1.21.3-rpbi5dhsh2kwpdxlxyhvrrmo7itrwfkm/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/krb5-1.21.3-rpbi5dhsh2kwpdxlxyhvrrmo7itrwfkm/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/krb5-1.21.3-rpbi5dhsh2kwpdxlxyhvrrmo7itrwfkm/.} +setenv KRB5_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/krb5-1.21.3-rpbi5dhsh2kwpdxlxyhvrrmo7itrwfkm} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/lammps/20240829.1 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/lammps/20240829.1 new file mode 100644 index 00000000..121b09ab --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/lammps/20240829.1 @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:43.852885 +## +## lammps@20240829.1%gcc@13.2.0~adios~amoeba~asphere~atc~awpmd~bocs~body~bpm~brownian~cg-dna~cg-spica~class2~colloid~colvars~compress~coreshell+cuda~cuda_mps~curl~dielectric~diffraction~dipole~dpd-basic~dpd-meso~dpd-react~dpd-smooth~drude~eff~electrode~extra-compute~extra-dump~extra-fix~extra-molecule~extra-pair~fep~ffmpeg~granular~h5md~heffte~intel~interlayer~ipo~jpeg~kim~kokkos+kspace~latboltz~lepton+lib~machdyn~manifold+manybody~mc~meam~mesont~mgpt~misc~ml-hdnnp~ml-iap~ml-pod~ml-rann~ml-snap~ml-uf3~mofff+molecule~molfile~mpi~netcdf~opencl+openmp~openmp-package~opt~orient~peri~phonon~plugin~plumed~png~poems~ptm~python~qeq~qtb~reaction~reaxff~replica~rheo+rigid~rocm~shock~smtbq~sph~spin~srd~tally~tools~uef~voronoi~vtk~yaff build_system=cmake build_type=Release cuda_arch=75 fft=fftw3 fftw_precision=double generator=make gpu_precision=mixed lammps_sizes=smallbig arch=linux-ubuntu22.04-x86_64_v3/klm2xl4 +## +## Configure options: -DBUILD_SHARED_LIBS:BOOL=ON -DBUILD_MPI:BOOL=OFF -DBUILD_OMP:BOOL=ON -DBUILD_TOOLS:BOOL=OFF -DENABLE_TESTING:BOOL=OFF -DDOWNLOAD_POTENTIALS:BOOL=OFF -DPKG_GPU:BOOL=ON -DGPU_API:STRING=cuda -DGPU_PREC:STRING=mixed -DGPU_ARCH:STRING=sm_75 -DCUDA_MPS_SUPPORT:BOOL=OFF -DBUILD_LIB:BOOL=ON -DCMAKE_TUNE_FLAGS:STRING=-march=x86-64-v3 -mtune=generic -DLAMMPS_SIZES:STRING=smallbig -DWITH_JPEG:BOOL=OFF -DWITH_PNG:BOOL=OFF -DWITH_FFMPEG:BOOL=OFF -DWITH_CURL:BOOL=OFF -DPKG_ADIOS:BOOL=OFF -DPKG_AMOEBA:BOOL=OFF -DPKG_ASPHERE:BOOL=OFF -DPKG_ATC:BOOL=OFF -DPKG_AWPMD:BOOL=OFF -DPKG_BOCS:BOOL=OFF -DPKG_BODY:BOOL=OFF -DPKG_BPM:BOOL=OFF -DPKG_BROWNIAN:BOOL=OFF -DPKG_CG-DNA:BOOL=OFF -DPKG_CG-SPICA:BOOL=OFF -DPKG_CLASS2:BOOL=OFF -DPKG_COLLOID:BOOL=OFF -DPKG_COLVARS:BOOL=OFF -DPKG_COMPRESS:BOOL=OFF -DPKG_CORESHELL:BOOL=OFF -DPKG_DIELECTRIC:BOOL=OFF -DPKG_DIFFRACTION:BOOL=OFF -DPKG_DIPOLE:BOOL=OFF -DPKG_DPD-BASIC:BOOL=OFF -DPKG_DPD-MESO:BOOL=OFF -DPKG_DPD-REACT:BOOL=OFF -DPKG_DPD-SMOOTH:BOOL=OFF -DPKG_DRUDE:BOOL=OFF -DPKG_EFF:BOOL=OFF -DPKG_ELECTRODE:BOOL=OFF -DPKG_EXTRA-COMPUTE:BOOL=OFF -DPKG_EXTRA-DUMP:BOOL=OFF -DPKG_EXTRA-FIX:BOOL=OFF -DPKG_EXTRA-MOLECULE:BOOL=OFF -DPKG_EXTRA-PAIR:BOOL=OFF -DPKG_FEP:BOOL=OFF -DPKG_GRANULAR:BOOL=OFF -DPKG_H5MD:BOOL=OFF -DPKG_INTEL:BOOL=OFF -DPKG_INTERLAYER:BOOL=OFF -DPKG_KIM:BOOL=OFF -DPKG_KOKKOS:BOOL=OFF -DPKG_KSPACE:BOOL=ON -DPKG_LATBOLTZ:BOOL=OFF -DPKG_LEPTON:BOOL=OFF -DPKG_MACHDYN:BOOL=OFF -DPKG_MANIFOLD:BOOL=OFF -DPKG_MANYBODY:BOOL=ON -DPKG_MC:BOOL=OFF -DPKG_MEAM:BOOL=OFF -DPKG_MESONT:BOOL=OFF -DPKG_MGPT:BOOL=OFF -DPKG_MISC:BOOL=OFF -DPKG_ML-HDNNP:BOOL=OFF -DPKG_ML-IAP:BOOL=OFF -DPKG_ML-POD:BOOL=OFF -DPKG_ML-RANN:BOOL=OFF -DPKG_ML-SNAP:BOOL=OFF -DPKG_ML-UF3:BOOL=OFF -DPKG_MOFFF:BOOL=OFF -DPKG_MOLECULE:BOOL=ON -DPKG_MOLFILE:BOOL=OFF -DPKG_NETCDF:BOOL=OFF -DPKG_OPENMP:BOOL=OFF -DPKG_OPT:BOOL=OFF -DPKG_ORIENT:BOOL=OFF -DPKG_PERI:BOOL=OFF -DPKG_PHONON:BOOL=OFF -DPKG_PLUGIN:BOOL=OFF -DPKG_PLUMED:BOOL=OFF -DPKG_POEMS:BOOL=OFF -DPKG_PTM:BOOL=OFF -DPKG_PYTHON:BOOL=OFF -DPKG_QEQ:BOOL=OFF -DPKG_QTB:BOOL=OFF -DPKG_REACTION:BOOL=OFF -DPKG_REAXFF:BOOL=OFF -DPKG_RHEO:BOOL=OFF -DPKG_REPLICA:BOOL=OFF -DPKG_RIGID:BOOL=ON -DPKG_SHOCK:BOOL=OFF -DPKG_SMTBQ:BOOL=OFF -DPKG_SPH:BOOL=OFF -DPKG_SPIN:BOOL=OFF -DPKG_SRD:BOOL=OFF -DPKG_TALLY:BOOL=OFF -DPKG_UEF:BOOL=OFF -DPKG_VORONOI:BOOL=OFF -DPKG_VTK:BOOL=OFF -DPKG_YAFF:BOOL=OFF -DFFT:STRING=fftw3 -DFFT_USE_HEFFTE:BOOL=OFF -DFFT_SINGLE:BOOL=OFF +## + + +module-whatis {LAMMPS stands for Large-scale Atomic/Molecular Massively Parallel Simulator. } + +proc ModulesHelp { } { + puts stderr {Name : lammps} + puts stderr {Version: 20240829.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {LAMMPS stands for Large-scale Atomic/Molecular Massively Parallel} + puts stderr {Simulator.} +} + +conflict lammps + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/lammps-20240829.1/lib64} +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/lammps-20240829.1/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/lammps-20240829.1/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/lammps-20240829.1/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/lammps-20240829.1/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/lammps-20240829.1/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/lammps-20240829.1/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/lammps-20240829.1/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/lammps-20240829.1/.} +setenv LAMMPS_POTENTIALS {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/lammps-20240829.1/share/lammps/potentials} +setenv LAMMPS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/lammps-20240829.1-klm2xl4hsr2ljt52packokgb57w4y7dz} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/last/1499 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/last/1499 new file mode 100644 index 00000000..785226d1 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/last/1499 @@ -0,0 +1,64 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:43.879576 +## +## last@1499%gcc@13.2.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/ay4qjf5 +## + + +module-whatis {LAST finds similar regions between sequences, and aligns them. It is designed for comparing large datasets to each other (e.g. vertebrate genomes and/or large numbers of DNA reads).} + +proc ModulesHelp { } { + puts stderr {Name : last} + puts stderr {Version: 1499} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {LAST finds similar regions between sequences, and aligns them. It is} + puts stderr {designed for comparing large datasets to each other (e.g. vertebrate} + puts stderr {genomes and/or large numbers of DNA reads).} +} + +conflict last + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/last-1499/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/last-1499/.} +setenv LAST_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/last-1499-ay4qjf5tvwzrhqtyctigl5q4wrigygtk} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/lcms/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/lcms/.modulerc new file mode 100644 index 00000000..f2047dcf --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/lcms/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded lcms/2.16-jmkello +module-hide --soft --hidden-loaded lcms/2.16-o2alvig diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/lcms/2.16-jmkello b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/lcms/2.16-jmkello new file mode 100644 index 00000000..612cdced --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/lcms/2.16-jmkello @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2024-12-19 13:36:42.958699 +## +## lcms@2.16%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/jmkello +## + + +module-whatis {Little cms is a color management library. Implements fast transforms between ICC profiles. It is focused on speed, and is portable across several platforms (MIT license).} + +proc ModulesHelp { } { + puts stderr {Name : lcms} + puts stderr {Version: 2.16} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Little cms is a color management library. Implements fast transforms} + puts stderr {between ICC profiles. It is focused on speed, and is portable across} + puts stderr {several platforms (MIT license).} +} + +conflict lcms + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/lcms-2.16-jmkello5mzzdwoafnqv6dvkhhommpkpq/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/lcms-2.16-jmkello5mzzdwoafnqv6dvkhhommpkpq/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/lcms-2.16-jmkello5mzzdwoafnqv6dvkhhommpkpq/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/lcms-2.16-jmkello5mzzdwoafnqv6dvkhhommpkpq/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/lcms-2.16-jmkello5mzzdwoafnqv6dvkhhommpkpq/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/lcms-2.16-jmkello5mzzdwoafnqv6dvkhhommpkpq/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/lcms-2.16-jmkello5mzzdwoafnqv6dvkhhommpkpq/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/lcms-2.16-jmkello5mzzdwoafnqv6dvkhhommpkpq/.} +setenv LCMS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/lcms-2.16-jmkello5mzzdwoafnqv6dvkhhommpkpq} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/lcms/2.16-o2alvig b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/lcms/2.16-o2alvig new file mode 100644 index 00000000..208a83a2 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/lcms/2.16-o2alvig @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:43.902259 +## +## lcms@2.16%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/o2alvig +## + + +module-whatis {Little cms is a color management library. Implements fast transforms between ICC profiles. It is focused on speed, and is portable across several platforms (MIT license).} + +proc ModulesHelp { } { + puts stderr {Name : lcms} + puts stderr {Version: 2.16} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Little cms is a color management library. Implements fast transforms} + puts stderr {between ICC profiles. It is focused on speed, and is portable across} + puts stderr {several platforms (MIT license).} +} + +conflict lcms + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/lcms-2.16-o2alviglpwowuzlhly3c3hg5gmoou7g5/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/lcms-2.16-o2alviglpwowuzlhly3c3hg5gmoou7g5/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/lcms-2.16-o2alviglpwowuzlhly3c3hg5gmoou7g5/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/lcms-2.16-o2alviglpwowuzlhly3c3hg5gmoou7g5/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/lcms-2.16-o2alviglpwowuzlhly3c3hg5gmoou7g5/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/lcms-2.16-o2alviglpwowuzlhly3c3hg5gmoou7g5/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/lcms-2.16-o2alviglpwowuzlhly3c3hg5gmoou7g5/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/lcms-2.16-o2alviglpwowuzlhly3c3hg5gmoou7g5/.} +setenv LCMS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/lcms-2.16-o2alviglpwowuzlhly3c3hg5gmoou7g5} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/lcov/2.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/lcov/2.0 new file mode 100644 index 00000000..262128aa --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/lcov/2.0 @@ -0,0 +1,126 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:43.914638 +## +## lcov@2.0%gcc@13.2.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/d2oguqv +## + + +module-whatis {LCOV is a graphical front-end for GCC's coverage testing tool gcov. It collects gcov data for multiple source files and creates HTML pages containing the source code annotated with coverage information. It also adds overview pages for easy navigation within the file structure. LCOV supports statement, function and branch coverage measurement.} + +proc ModulesHelp { } { + puts stderr {Name : lcov} + puts stderr {Version: 2.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {LCOV is a graphical front-end for GCC's coverage testing tool gcov. It} + puts stderr {collects gcov data for multiple source files and creates HTML pages} + puts stderr {containing the source code annotated with coverage information. It also} + puts stderr {adds overview pages for easy navigation within the file structure. LCOV} + puts stderr {supports statement, function and branch coverage measurement.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load perl-b-hooks-endofscope/0.26-of4f42j + module load perl-capture-tiny/0.48-avgxeiw + module load perl-class-inspector/1.36-odg2nxk + module load perl-class-singleton/1.6-iim55dr + module load perl-datetime/1.65-bef5fte + module load perl-datetime-locale/1.40-ckk7n3n + module load perl-datetime-timezone/2.60-bvysweh + module load perl-devel-cover/1.42-ln22bue + module load perl-devel-stacktrace/2.05-ttfoh5u + module load perl-digest-md5/2.55-g35blic + module load perl-eval-closure/0.14-o2yh2ho + module load perl-exception-class/1.45-ashse2v + module load perl-file-sharedir/1.118-byamuhe + module load perl-file-spec/0.90-3rojs7j + module load perl-json/4.10-bc2iipf + module load perl-memory-process/0.06-5ef6fmq + module load perl-module-implementation/0.09-llwz36d + module load perl-mro-compat/0.15-rqmggtp + module load perl-namespace-clean/0.27-ppjbany + module load perl-package-stash/0.40-nr63dpd + module load perl-params-validationcompiler/0.31-66qysom + module load perl-role-tiny/2.002004-usqyn5l + module load perl-specio/0.48-osggrtx + module load perl-sub-identify/0.14-mbwevo6 + module load perl-time-hires/1.9758-m54hiwg + module load perl-timedate/2.33-pdpr62y +} else { + depends-on perl/5.40.0-lzbctij + depends-on perl-b-hooks-endofscope/0.26-of4f42j + depends-on perl-capture-tiny/0.48-avgxeiw + depends-on perl-class-inspector/1.36-odg2nxk + depends-on perl-class-singleton/1.6-iim55dr + depends-on perl-datetime/1.65-bef5fte + depends-on perl-datetime-locale/1.40-ckk7n3n + depends-on perl-datetime-timezone/2.60-bvysweh + depends-on perl-devel-cover/1.42-ln22bue + depends-on perl-devel-stacktrace/2.05-ttfoh5u + depends-on perl-digest-md5/2.55-g35blic + depends-on perl-eval-closure/0.14-o2yh2ho + depends-on perl-exception-class/1.45-ashse2v + depends-on perl-file-sharedir/1.118-byamuhe + depends-on perl-file-spec/0.90-3rojs7j + depends-on perl-json/4.10-bc2iipf + depends-on perl-memory-process/0.06-5ef6fmq + depends-on perl-module-implementation/0.09-llwz36d + depends-on perl-mro-compat/0.15-rqmggtp + depends-on perl-namespace-clean/0.27-ppjbany + depends-on perl-package-stash/0.40-nr63dpd + depends-on perl-params-validationcompiler/0.31-66qysom + depends-on perl-role-tiny/2.002004-usqyn5l + depends-on perl-specio/0.48-osggrtx + depends-on perl-sub-identify/0.14-mbwevo6 + depends-on perl-time-hires/1.9758-m54hiwg + depends-on perl-timedate/2.33-pdpr62y +} +conflict lcov + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/lcov-2.0/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/lcov-2.0/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/lcov-2.0/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/lcov-2.0/.} +setenv LCOV_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/lcov-2.0-d2oguqvjs7sk5ast6tvv5diryfcwzuay} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libaec/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libaec/.modulerc new file mode 100644 index 00000000..c428ef47 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libaec/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libaec/1.0.6-z6cuhzw +module-hide --soft --hidden-loaded libaec/1.0.6-j6vsk27 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libaec/1.0.6-j6vsk27 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libaec/1.0.6-j6vsk27 new file mode 100644 index 00000000..3d83947d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libaec/1.0.6-j6vsk27 @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:44.511154 +## +## libaec@1.0.6%gcc@13.2.0~ipo+shared build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/j6vsk27 +## +## Configure options: -DBUILD_SHARED_LIBS:BOOL=ON +## + + +module-whatis {Libaec provides fast lossless compression of 1 up to 32 bit wide signed or unsigned integers (samples). It implements Golomb-Rice compression method under the BSD license and includes a free drop-in replacement for the SZIP library. } + +proc ModulesHelp { } { + puts stderr {Name : libaec} + puts stderr {Version: 1.0.6} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Libaec provides fast lossless compression of 1 up to 32 bit wide signed} + puts stderr {or unsigned integers (samples). It implements Golomb-Rice compression} + puts stderr {method under the BSD license and includes a free drop-in replacement for} + puts stderr {the SZIP library.} +} + +conflict libaec + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libaec-1.0.6-j6vsk27rnowtkndtomw3fovt6wwxilya/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libaec-1.0.6-j6vsk27rnowtkndtomw3fovt6wwxilya/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libaec-1.0.6-j6vsk27rnowtkndtomw3fovt6wwxilya/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libaec-1.0.6-j6vsk27rnowtkndtomw3fovt6wwxilya/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libaec-1.0.6-j6vsk27rnowtkndtomw3fovt6wwxilya/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libaec-1.0.6-j6vsk27rnowtkndtomw3fovt6wwxilya/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libaec-1.0.6-j6vsk27rnowtkndtomw3fovt6wwxilya/.} +setenv LIBAEC_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libaec-1.0.6-j6vsk27rnowtkndtomw3fovt6wwxilya} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libaec/1.0.6-z6cuhzw b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libaec/1.0.6-z6cuhzw new file mode 100644 index 00000000..31bb9e82 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libaec/1.0.6-z6cuhzw @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:44.490462 +## +## libaec@1.0.6%gcc@11.4.0~ipo+shared build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/z6cuhzw +## +## Configure options: -DBUILD_SHARED_LIBS:BOOL=ON +## + + +module-whatis {Libaec provides fast lossless compression of 1 up to 32 bit wide signed or unsigned integers (samples). It implements Golomb-Rice compression method under the BSD license and includes a free drop-in replacement for the SZIP library. } + +proc ModulesHelp { } { + puts stderr {Name : libaec} + puts stderr {Version: 1.0.6} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Libaec provides fast lossless compression of 1 up to 32 bit wide signed} + puts stderr {or unsigned integers (samples). It implements Golomb-Rice compression} + puts stderr {method under the BSD license and includes a free drop-in replacement for} + puts stderr {the SZIP library.} +} + +conflict libaec + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libaec-1.0.6-z6cuhzwrhu4j5kjesoyihdse3foiygss/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libaec-1.0.6-z6cuhzwrhu4j5kjesoyihdse3foiygss/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libaec-1.0.6-z6cuhzwrhu4j5kjesoyihdse3foiygss/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libaec-1.0.6-z6cuhzwrhu4j5kjesoyihdse3foiygss/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libaec-1.0.6-z6cuhzwrhu4j5kjesoyihdse3foiygss/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libaec-1.0.6-z6cuhzwrhu4j5kjesoyihdse3foiygss/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libaec-1.0.6-z6cuhzwrhu4j5kjesoyihdse3foiygss/.} +setenv LIBAEC_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libaec-1.0.6-z6cuhzwrhu4j5kjesoyihdse3foiygss} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libbeato/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libbeato/.modulerc new file mode 100644 index 00000000..a78b2ad5 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libbeato/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libbeato/master-vra5fxs diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libbeato/master-vra5fxs b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libbeato/master-vra5fxs new file mode 100644 index 00000000..dba1b7d8 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libbeato/master-vra5fxs @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:44.561880 +## +## libbeato@master%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/vra5fxs +## + + +module-whatis {libbeato is a C library containing routines for various uses in Genomics, and includes a copy of the freeware portion of the C library from UCSC's Genome Browser Group.} + +proc ModulesHelp { } { + puts stderr {Name : libbeato} + puts stderr {Version: master} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {libbeato is a C library containing routines for various uses in} + puts stderr {Genomics, and includes a copy of the freeware portion of the C library} + puts stderr {from UCSC's Genome Browser Group.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load htslib/1.20-m6sxxvy +} else { + depends-on htslib/1.20-m6sxxvy +} +conflict libbeato + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libbeato-master-vra5fxsvgthwmnvxncapy755ay7nde2v/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libbeato-master-vra5fxsvgthwmnvxncapy755ay7nde2v/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libbeato-master-vra5fxsvgthwmnvxncapy755ay7nde2v/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libbeato-master-vra5fxsvgthwmnvxncapy755ay7nde2v/include} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libbeato-master-vra5fxsvgthwmnvxncapy755ay7nde2v/.} +setenv LIBBEATO_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libbeato-master-vra5fxsvgthwmnvxncapy755ay7nde2v} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libbsd/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libbsd/.modulerc new file mode 100644 index 00000000..a337203f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libbsd/.modulerc @@ -0,0 +1,4 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libbsd/0.12.2-hwya6i6 +module-hide --soft --hidden-loaded libbsd/0.12.2-z4ofzgk +module-hide --soft --hidden-loaded libbsd/0.12.2-2xkxa63 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libbsd/0.12.2-2xkxa63 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libbsd/0.12.2-2xkxa63 new file mode 100644 index 00000000..fb7dd687 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libbsd/0.12.2-2xkxa63 @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:44.573858 +## +## libbsd@0.12.2%gcc@7.5.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/2xkxa63 +## + + +module-whatis {This library provides useful functions commonly found on BSD systems, and lacking on others like GNU systems, thus making it easier to port projects with strong BSD origins, without needing to embed the same code over and over again on each project. } + +proc ModulesHelp { } { + puts stderr {Name : libbsd} + puts stderr {Version: 0.12.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {This library provides useful functions commonly found on BSD systems,} + puts stderr {and lacking on others like GNU systems, thus making it easier to port} + puts stderr {projects with strong BSD origins, without needing to embed the same code} + puts stderr {over and over again on each project.} +} + +conflict libbsd + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/libbsd-0.12.2-2xkxa63x5pzrdmuysd2rwg6efbnzbvly/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/libbsd-0.12.2-2xkxa63x5pzrdmuysd2rwg6efbnzbvly/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/libbsd-0.12.2-2xkxa63x5pzrdmuysd2rwg6efbnzbvly/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/libbsd-0.12.2-2xkxa63x5pzrdmuysd2rwg6efbnzbvly/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/libbsd-0.12.2-2xkxa63x5pzrdmuysd2rwg6efbnzbvly/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/libbsd-0.12.2-2xkxa63x5pzrdmuysd2rwg6efbnzbvly/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/libbsd-0.12.2-2xkxa63x5pzrdmuysd2rwg6efbnzbvly/.} +setenv LIBBSD_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/libbsd-0.12.2-2xkxa63x5pzrdmuysd2rwg6efbnzbvly} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libbsd/0.12.2-hwya6i6 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libbsd/0.12.2-hwya6i6 new file mode 100644 index 00000000..82424aca --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libbsd/0.12.2-hwya6i6 @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:44.581174 +## +## libbsd@0.12.2%gcc@11.4.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/hwya6i6 +## + + +module-whatis {This library provides useful functions commonly found on BSD systems, and lacking on others like GNU systems, thus making it easier to port projects with strong BSD origins, without needing to embed the same code over and over again on each project. } + +proc ModulesHelp { } { + puts stderr {Name : libbsd} + puts stderr {Version: 0.12.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {This library provides useful functions commonly found on BSD systems,} + puts stderr {and lacking on others like GNU systems, thus making it easier to port} + puts stderr {projects with strong BSD origins, without needing to embed the same code} + puts stderr {over and over again on each project.} +} + +conflict libbsd + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libbsd-0.12.2-hwya6i63fvxczwxqtfz3ujel55as7dlp/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libbsd-0.12.2-hwya6i63fvxczwxqtfz3ujel55as7dlp/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libbsd-0.12.2-hwya6i63fvxczwxqtfz3ujel55as7dlp/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libbsd-0.12.2-hwya6i63fvxczwxqtfz3ujel55as7dlp/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libbsd-0.12.2-hwya6i63fvxczwxqtfz3ujel55as7dlp/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libbsd-0.12.2-hwya6i63fvxczwxqtfz3ujel55as7dlp/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libbsd-0.12.2-hwya6i63fvxczwxqtfz3ujel55as7dlp/.} +setenv LIBBSD_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libbsd-0.12.2-hwya6i63fvxczwxqtfz3ujel55as7dlp} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libbsd/0.12.2-z4ofzgk b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libbsd/0.12.2-z4ofzgk new file mode 100644 index 00000000..b81e2424 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libbsd/0.12.2-z4ofzgk @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:44.588748 +## +## libbsd@0.12.2%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/z4ofzgk +## + + +module-whatis {This library provides useful functions commonly found on BSD systems, and lacking on others like GNU systems, thus making it easier to port projects with strong BSD origins, without needing to embed the same code over and over again on each project. } + +proc ModulesHelp { } { + puts stderr {Name : libbsd} + puts stderr {Version: 0.12.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {This library provides useful functions commonly found on BSD systems,} + puts stderr {and lacking on others like GNU systems, thus making it easier to port} + puts stderr {projects with strong BSD origins, without needing to embed the same code} + puts stderr {over and over again on each project.} +} + +conflict libbsd + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libbsd-0.12.2-z4ofzgkdzkfsx4wrvp62ousmigaoi3p5/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libbsd-0.12.2-z4ofzgkdzkfsx4wrvp62ousmigaoi3p5/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libbsd-0.12.2-z4ofzgkdzkfsx4wrvp62ousmigaoi3p5/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libbsd-0.12.2-z4ofzgkdzkfsx4wrvp62ousmigaoi3p5/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libbsd-0.12.2-z4ofzgkdzkfsx4wrvp62ousmigaoi3p5/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libbsd-0.12.2-z4ofzgkdzkfsx4wrvp62ousmigaoi3p5/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libbsd-0.12.2-z4ofzgkdzkfsx4wrvp62ousmigaoi3p5/.} +setenv LIBBSD_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libbsd-0.12.2-z4ofzgkdzkfsx4wrvp62ousmigaoi3p5} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libcerf/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libcerf/.modulerc new file mode 100644 index 00000000..5a2a6672 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libcerf/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libcerf/1.3-b5bbt2x diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libcerf/1.3-b5bbt2x b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libcerf/1.3-b5bbt2x new file mode 100644 index 00000000..fa343f1d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libcerf/1.3-b5bbt2x @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:44.613587 +## +## libcerf@1.3%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/b5bbt2x +## + + +module-whatis {A self-contained C library providing complex error functions, based on Faddeeva's plasma dispersion function w(z). Also provides Dawson's integral and Voigt's convolution of a Gaussian and a Lorentzian} + +proc ModulesHelp { } { + puts stderr {Name : libcerf} + puts stderr {Version: 1.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A self-contained C library providing complex error functions, based on} + puts stderr {Faddeeva's plasma dispersion function w(z). Also provides Dawson's} + puts stderr {integral and Voigt's convolution of a Gaussian and a Lorentzian} +} + +conflict libcerf + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libcerf-1.3-b5bbt2xg5ycklky7zmo7o2iwcsb5sgmq/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libcerf-1.3-b5bbt2xg5ycklky7zmo7o2iwcsb5sgmq/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libcerf-1.3-b5bbt2xg5ycklky7zmo7o2iwcsb5sgmq/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libcerf-1.3-b5bbt2xg5ycklky7zmo7o2iwcsb5sgmq/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libcerf-1.3-b5bbt2xg5ycklky7zmo7o2iwcsb5sgmq/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libcerf-1.3-b5bbt2xg5ycklky7zmo7o2iwcsb5sgmq/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libcerf-1.3-b5bbt2xg5ycklky7zmo7o2iwcsb5sgmq/.} +setenv LIBCERF_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libcerf-1.3-b5bbt2xg5ycklky7zmo7o2iwcsb5sgmq} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libdeflate/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libdeflate/.modulerc new file mode 100644 index 00000000..a85e3879 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libdeflate/.modulerc @@ -0,0 +1,4 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libdeflate/1.18-jccly7b +module-hide --soft --hidden-loaded libdeflate/1.18-ds4nftb +module-hide --soft --hidden-loaded libdeflate/1.18-uljyin5 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libdeflate/1.18-ds4nftb b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libdeflate/1.18-ds4nftb new file mode 100644 index 00000000..7ec293c9 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libdeflate/1.18-ds4nftb @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:44.630239 +## +## libdeflate@1.18%gcc@13.2.0~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/ds4nftb +## + + +module-whatis {Heavily optimized library for DEFLATE/zlib/gzip compression and decompression} + +proc ModulesHelp { } { + puts stderr {Name : libdeflate} + puts stderr {Version: 1.18} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Heavily optimized library for DEFLATE/zlib/gzip compression and} + puts stderr {decompression} +} + +conflict libdeflate + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libdeflate-1.18-ds4nftbspv2xe7zjzebkbwaudgxxb532/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libdeflate-1.18-ds4nftbspv2xe7zjzebkbwaudgxxb532/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libdeflate-1.18-ds4nftbspv2xe7zjzebkbwaudgxxb532/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libdeflate-1.18-ds4nftbspv2xe7zjzebkbwaudgxxb532/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libdeflate-1.18-ds4nftbspv2xe7zjzebkbwaudgxxb532/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libdeflate-1.18-ds4nftbspv2xe7zjzebkbwaudgxxb532/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libdeflate-1.18-ds4nftbspv2xe7zjzebkbwaudgxxb532/.} +setenv LIBDEFLATE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libdeflate-1.18-ds4nftbspv2xe7zjzebkbwaudgxxb532} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libdeflate/1.18-jccly7b b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libdeflate/1.18-jccly7b new file mode 100644 index 00000000..861591f5 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libdeflate/1.18-jccly7b @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:44.621586 +## +## libdeflate@1.18%gcc@13.2.0~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/jccly7b +## + + +module-whatis {Heavily optimized library for DEFLATE/zlib/gzip compression and decompression} + +proc ModulesHelp { } { + puts stderr {Name : libdeflate} + puts stderr {Version: 1.18} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Heavily optimized library for DEFLATE/zlib/gzip compression and} + puts stderr {decompression} +} + +conflict libdeflate + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libdeflate-1.18-jccly7bsswjt2roge7gbw6sw7gkqwzsh/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libdeflate-1.18-jccly7bsswjt2roge7gbw6sw7gkqwzsh/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libdeflate-1.18-jccly7bsswjt2roge7gbw6sw7gkqwzsh/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libdeflate-1.18-jccly7bsswjt2roge7gbw6sw7gkqwzsh/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libdeflate-1.18-jccly7bsswjt2roge7gbw6sw7gkqwzsh/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libdeflate-1.18-jccly7bsswjt2roge7gbw6sw7gkqwzsh/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libdeflate-1.18-jccly7bsswjt2roge7gbw6sw7gkqwzsh/.} +setenv LIBDEFLATE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libdeflate-1.18-jccly7bsswjt2roge7gbw6sw7gkqwzsh} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libdeflate/1.18-uljyin5 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libdeflate/1.18-uljyin5 new file mode 100644 index 00000000..5b3d1463 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libdeflate/1.18-uljyin5 @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:44.638837 +## +## libdeflate@1.18%gcc@13.2.0~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/uljyin5 +## + + +module-whatis {Heavily optimized library for DEFLATE/zlib/gzip compression and decompression} + +proc ModulesHelp { } { + puts stderr {Name : libdeflate} + puts stderr {Version: 1.18} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Heavily optimized library for DEFLATE/zlib/gzip compression and} + puts stderr {decompression} +} + +conflict libdeflate + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libdeflate-1.18-uljyin53hgcj5zttojt7gx3dy2zswq7o/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libdeflate-1.18-uljyin53hgcj5zttojt7gx3dy2zswq7o/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libdeflate-1.18-uljyin53hgcj5zttojt7gx3dy2zswq7o/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libdeflate-1.18-uljyin53hgcj5zttojt7gx3dy2zswq7o/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libdeflate-1.18-uljyin53hgcj5zttojt7gx3dy2zswq7o/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libdeflate-1.18-uljyin53hgcj5zttojt7gx3dy2zswq7o/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libdeflate-1.18-uljyin53hgcj5zttojt7gx3dy2zswq7o/.} +setenv LIBDEFLATE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libdeflate-1.18-uljyin53hgcj5zttojt7gx3dy2zswq7o} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libedit/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libedit/.modulerc new file mode 100644 index 00000000..29da239d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libedit/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libedit/3.1-20240808-muxcifg diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libedit/3.1-20240808-muxcifg b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libedit/3.1-20240808-muxcifg new file mode 100644 index 00000000..1c389870 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libedit/3.1-20240808-muxcifg @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:44.647431 +## +## libedit@3.1-20240808%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/muxcifg +## +## Configure options: ac_cv_lib_curses_tgetent=no ac_cv_lib_termcap_tgetent=no ac_cv_lib_ncurses_tgetent=no +## + + +module-whatis {An autotools compatible port of the NetBSD editline library} + +proc ModulesHelp { } { + puts stderr {Name : libedit} + puts stderr {Version: 3.1-20240808} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {An autotools compatible port of the NetBSD editline library} +} + +conflict libedit + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libedit-3.1-20240808-muxcifgrter7naj5yx3y2lzbridy75gg/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libedit-3.1-20240808-muxcifgrter7naj5yx3y2lzbridy75gg/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libedit-3.1-20240808-muxcifgrter7naj5yx3y2lzbridy75gg/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libedit-3.1-20240808-muxcifgrter7naj5yx3y2lzbridy75gg/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libedit-3.1-20240808-muxcifgrter7naj5yx3y2lzbridy75gg/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libedit-3.1-20240808-muxcifgrter7naj5yx3y2lzbridy75gg/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libedit-3.1-20240808-muxcifgrter7naj5yx3y2lzbridy75gg/.} +setenv LIBEDIT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libedit-3.1-20240808-muxcifgrter7naj5yx3y2lzbridy75gg} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libevent/2.1.12 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libevent/2.1.12 new file mode 100644 index 00000000..a481d2e6 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libevent/2.1.12 @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:44.657110 +## +## libevent@2.1.12%gcc@13.2.0+openssl build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/pjlwfkf +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {The libevent API provides a mechanism to execute a callback function when a specific event occurs on a file descriptor or after a timeout has been reached. Furthermore, libevent also support callbacks due to signals or regular timeouts.} + +proc ModulesHelp { } { + puts stderr {Name : libevent} + puts stderr {Version: 2.1.12} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The libevent API provides a mechanism to execute a callback function} + puts stderr {when a specific event occurs on a file descriptor or after a timeout has} + puts stderr {been reached. Furthermore, libevent also support callbacks due to} + puts stderr {signals or regular timeouts.} +} + +conflict libevent + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/libevent-2.1.12/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/libevent-2.1.12/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/libevent-2.1.12/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/libevent-2.1.12/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/libevent-2.1.12/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/libevent-2.1.12/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/libevent-2.1.12/.} +setenv LIBEVENT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/libevent-2.1.12} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libexif/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libexif/.modulerc new file mode 100644 index 00000000..8199fdf6 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libexif/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libexif/0.6.24-mrlqtfz diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libexif/0.6.24-mrlqtfz b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libexif/0.6.24-mrlqtfz new file mode 100644 index 00000000..22725c58 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libexif/0.6.24-mrlqtfz @@ -0,0 +1,66 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:44.713273 +## +## libexif@0.6.24%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/mrlqtfz +## + + +module-whatis {A library to parse an EXIF file and read the data from those tags} + +proc ModulesHelp { } { + puts stderr {Name : libexif} + puts stderr {Version: 0.6.24} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A library to parse an EXIF file and read the data from those tags} +} + +conflict libexif + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libexif-0.6.24-mrlqtfzr6hv5aaqpyydtmb7hhr6x26cs/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libexif-0.6.24-mrlqtfzr6hv5aaqpyydtmb7hhr6x26cs/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libexif-0.6.24-mrlqtfzr6hv5aaqpyydtmb7hhr6x26cs/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libexif-0.6.24-mrlqtfzr6hv5aaqpyydtmb7hhr6x26cs/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libexif-0.6.24-mrlqtfzr6hv5aaqpyydtmb7hhr6x26cs/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libexif-0.6.24-mrlqtfzr6hv5aaqpyydtmb7hhr6x26cs/.} +setenv LIBEXIF_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libexif-0.6.24-mrlqtfzr6hv5aaqpyydtmb7hhr6x26cs} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libffi/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libffi/.modulerc new file mode 100644 index 00000000..a56f0cfa --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libffi/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libffi/3.4.6-b4gt4pe +module-hide --soft --hidden-loaded libffi/3.4.6-uwa3bci diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libffi/3.4.6-b4gt4pe b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libffi/3.4.6-b4gt4pe new file mode 100644 index 00000000..2d091018 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libffi/3.4.6-b4gt4pe @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:44.751174 +## +## libffi@3.4.6%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/b4gt4pe +## +## Configure options: --with-pic --without-gcc-arch +## + + +module-whatis {The libffi library provides a portable, high level programming interface to various calling conventions. This allows a programmer to call any function specified by a call interface description at run time.} + +proc ModulesHelp { } { + puts stderr {Name : libffi} + puts stderr {Version: 3.4.6} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The libffi library provides a portable, high level programming interface} + puts stderr {to various calling conventions. This allows a programmer to call any} + puts stderr {function specified by a call interface description at run time.} +} + +conflict libffi + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libffi-3.4.6-b4gt4pey3o47maqabjqfb5baiuz2a5my/lib64} +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libffi-3.4.6-b4gt4pey3o47maqabjqfb5baiuz2a5my/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libffi-3.4.6-b4gt4pey3o47maqabjqfb5baiuz2a5my/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libffi-3.4.6-b4gt4pey3o47maqabjqfb5baiuz2a5my/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libffi-3.4.6-b4gt4pey3o47maqabjqfb5baiuz2a5my/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libffi-3.4.6-b4gt4pey3o47maqabjqfb5baiuz2a5my/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libffi-3.4.6-b4gt4pey3o47maqabjqfb5baiuz2a5my/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libffi-3.4.6-b4gt4pey3o47maqabjqfb5baiuz2a5my/.} +setenv LIBFFI_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libffi-3.4.6-b4gt4pey3o47maqabjqfb5baiuz2a5my} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libffi/3.4.6-uwa3bci b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libffi/3.4.6-uwa3bci new file mode 100644 index 00000000..887e01fa --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libffi/3.4.6-uwa3bci @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:44.731430 +## +## libffi@3.4.6%gcc@7.5.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/uwa3bci +## +## Configure options: --with-pic --without-gcc-arch +## + + +module-whatis {The libffi library provides a portable, high level programming interface to various calling conventions. This allows a programmer to call any function specified by a call interface description at run time.} + +proc ModulesHelp { } { + puts stderr {Name : libffi} + puts stderr {Version: 3.4.6} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The libffi library provides a portable, high level programming interface} + puts stderr {to various calling conventions. This allows a programmer to call any} + puts stderr {function specified by a call interface description at run time.} +} + +conflict libffi + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/libffi-3.4.6-uwa3bcijsnblbhytwtprqxn7m7jhykce/lib64} +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/libffi-3.4.6-uwa3bcijsnblbhytwtprqxn7m7jhykce/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/libffi-3.4.6-uwa3bcijsnblbhytwtprqxn7m7jhykce/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/libffi-3.4.6-uwa3bcijsnblbhytwtprqxn7m7jhykce/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/libffi-3.4.6-uwa3bcijsnblbhytwtprqxn7m7jhykce/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/libffi-3.4.6-uwa3bcijsnblbhytwtprqxn7m7jhykce/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/libffi-3.4.6-uwa3bcijsnblbhytwtprqxn7m7jhykce/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/libffi-3.4.6-uwa3bcijsnblbhytwtprqxn7m7jhykce/.} +setenv LIBFFI_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/libffi-3.4.6-uwa3bcijsnblbhytwtprqxn7m7jhykce} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libfuse/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libfuse/.modulerc new file mode 100644 index 00000000..a0410b86 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libfuse/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libfuse/3.16.2-d2xufg6 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libfuse/3.16.2-d2xufg6 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libfuse/3.16.2-d2xufg6 new file mode 100644 index 00000000..aaa15439 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libfuse/3.16.2-d2xufg6 @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:44.801426 +## +## libfuse@3.16.2%gcc@13.2.0~strip~system_install~useroot+utils build_system=meson buildtype=release default_library=shared patches=3ad6719 arch=linux-ubuntu22.04-x86_64_v3/d2xufg6 +## + + +module-whatis {The reference implementation of the Linux FUSE (Filesystem in Userspace) interface} + +proc ModulesHelp { } { + puts stderr {Name : libfuse} + puts stderr {Version: 3.16.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The reference implementation of the Linux FUSE (Filesystem in Userspace)} + puts stderr {interface} +} + +conflict libfuse + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libfuse-3.16.2-d2xufg6mmk6csxcmqbgzylbwwgyxiglo/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libfuse-3.16.2-d2xufg6mmk6csxcmqbgzylbwwgyxiglo/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libfuse-3.16.2-d2xufg6mmk6csxcmqbgzylbwwgyxiglo/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libfuse-3.16.2-d2xufg6mmk6csxcmqbgzylbwwgyxiglo/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libfuse-3.16.2-d2xufg6mmk6csxcmqbgzylbwwgyxiglo/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libfuse-3.16.2-d2xufg6mmk6csxcmqbgzylbwwgyxiglo/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libfuse-3.16.2-d2xufg6mmk6csxcmqbgzylbwwgyxiglo/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libfuse-3.16.2-d2xufg6mmk6csxcmqbgzylbwwgyxiglo/.} +setenv LIBFUSE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libfuse-3.16.2-d2xufg6mmk6csxcmqbgzylbwwgyxiglo} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libgcrypt/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libgcrypt/.modulerc new file mode 100644 index 00000000..31ed16fd --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libgcrypt/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libgcrypt/1.11.0-xulmhko diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libgcrypt/1.11.0-xulmhko b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libgcrypt/1.11.0-xulmhko new file mode 100644 index 00000000..3aa434d0 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libgcrypt/1.11.0-xulmhko @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:44.809413 +## +## libgcrypt@1.11.0%gcc@13.2.0 build_system=autotools patches=4e308ba arch=linux-ubuntu22.04-x86_64_v3/xulmhko +## + + +module-whatis {Cryptographic library based on the code from GnuPG.} + +proc ModulesHelp { } { + puts stderr {Name : libgcrypt} + puts stderr {Version: 1.11.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Cryptographic library based on the code from GnuPG.} +} + +conflict libgcrypt + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libgcrypt-1.11.0-xulmhkoapktstzeev6uq4hozdv6slduc/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libgcrypt-1.11.0-xulmhkoapktstzeev6uq4hozdv6slduc/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libgcrypt-1.11.0-xulmhkoapktstzeev6uq4hozdv6slduc/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libgcrypt-1.11.0-xulmhkoapktstzeev6uq4hozdv6slduc/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libgcrypt-1.11.0-xulmhkoapktstzeev6uq4hozdv6slduc/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libgcrypt-1.11.0-xulmhkoapktstzeev6uq4hozdv6slduc/share/man} +prepend-path ACLOCAL_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libgcrypt-1.11.0-xulmhkoapktstzeev6uq4hozdv6slduc/share/aclocal} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libgcrypt-1.11.0-xulmhkoapktstzeev6uq4hozdv6slduc/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libgcrypt-1.11.0-xulmhkoapktstzeev6uq4hozdv6slduc/.} +setenv LIBGCRYPT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libgcrypt-1.11.0-xulmhkoapktstzeev6uq4hozdv6slduc} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libgd/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libgd/.modulerc new file mode 100644 index 00000000..e69c45e6 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libgd/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libgd/2.3.3-ze35fpc +module-hide --soft --hidden-loaded libgd/2.3.3-p5cgbnf diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libgd/2.3.3-p5cgbnf b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libgd/2.3.3-p5cgbnf new file mode 100644 index 00000000..784fe233 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libgd/2.3.3-p5cgbnf @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:44.832543 +## +## libgd@2.3.3%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/p5cgbnf +## + + +module-whatis {GD is an open source code library for the dynamic creation of images by programmers. GD is written in C, and 'wrappers' are available for Perl, PHP and other languages. GD creates PNG, JPEG, GIF, WebP, XPM, BMP images, among other formats. GD is commonly used to generate charts, graphics, thumbnails, and most anything else, on the fly. While not restricted to use on the web, the most common applications of GD involve website development.} + +proc ModulesHelp { } { + puts stderr {Name : libgd} + puts stderr {Version: 2.3.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {GD is an open source code library for the dynamic creation of images by} + puts stderr {programmers. GD is written in C, and "wrappers" are available for Perl,} + puts stderr {PHP and other languages. GD creates PNG, JPEG, GIF, WebP, XPM, BMP} + puts stderr {images, among other formats. GD is commonly used to generate charts,} + puts stderr {graphics, thumbnails, and most anything else, on the fly. While not} + puts stderr {restricted to use on the web, the most common applications of GD involve} + puts stderr {website development.} +} + +conflict libgd + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libgd-2.3.3-p5cgbnf2gyzrcnnbajbrpdjz46lig6mf/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libgd-2.3.3-p5cgbnf2gyzrcnnbajbrpdjz46lig6mf/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libgd-2.3.3-p5cgbnf2gyzrcnnbajbrpdjz46lig6mf/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libgd-2.3.3-p5cgbnf2gyzrcnnbajbrpdjz46lig6mf/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libgd-2.3.3-p5cgbnf2gyzrcnnbajbrpdjz46lig6mf/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libgd-2.3.3-p5cgbnf2gyzrcnnbajbrpdjz46lig6mf/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libgd-2.3.3-p5cgbnf2gyzrcnnbajbrpdjz46lig6mf/.} +prepend-path XLOCALEDIR {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libx11-1.8.10-n3dtxzp75boymvcyqfvknxqtrputklxn/share/X11/locale} +setenv LIBGD_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libgd-2.3.3-p5cgbnf2gyzrcnnbajbrpdjz46lig6mf} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libgd/2.3.3-ze35fpc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libgd/2.3.3-ze35fpc new file mode 100644 index 00000000..69d124db --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libgd/2.3.3-ze35fpc @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:44.817857 +## +## libgd@2.3.3%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/ze35fpc +## + + +module-whatis {GD is an open source code library for the dynamic creation of images by programmers. GD is written in C, and 'wrappers' are available for Perl, PHP and other languages. GD creates PNG, JPEG, GIF, WebP, XPM, BMP images, among other formats. GD is commonly used to generate charts, graphics, thumbnails, and most anything else, on the fly. While not restricted to use on the web, the most common applications of GD involve website development.} + +proc ModulesHelp { } { + puts stderr {Name : libgd} + puts stderr {Version: 2.3.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {GD is an open source code library for the dynamic creation of images by} + puts stderr {programmers. GD is written in C, and "wrappers" are available for Perl,} + puts stderr {PHP and other languages. GD creates PNG, JPEG, GIF, WebP, XPM, BMP} + puts stderr {images, among other formats. GD is commonly used to generate charts,} + puts stderr {graphics, thumbnails, and most anything else, on the fly. While not} + puts stderr {restricted to use on the web, the most common applications of GD involve} + puts stderr {website development.} +} + +conflict libgd + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libgd-2.3.3-ze35fpc7dsf6s7wkynbs4okeoy3udese/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libgd-2.3.3-ze35fpc7dsf6s7wkynbs4okeoy3udese/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libgd-2.3.3-ze35fpc7dsf6s7wkynbs4okeoy3udese/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libgd-2.3.3-ze35fpc7dsf6s7wkynbs4okeoy3udese/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libgd-2.3.3-ze35fpc7dsf6s7wkynbs4okeoy3udese/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libgd-2.3.3-ze35fpc7dsf6s7wkynbs4okeoy3udese/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libgd-2.3.3-ze35fpc7dsf6s7wkynbs4okeoy3udese/.} +prepend-path XLOCALEDIR {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libx11-1.8.10-dufv2eokil27hgb3ao7tuotsswt65llr/share/X11/locale} +setenv LIBGD_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libgd-2.3.3-ze35fpc7dsf6s7wkynbs4okeoy3udese} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libgpg-error/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libgpg-error/.modulerc new file mode 100644 index 00000000..7c717eea --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libgpg-error/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libgpg-error/1.49-wkxxrw7 +module-hide --soft --hidden-loaded libgpg-error/1.50-lxu2f7x diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libgpg-error/1.49-wkxxrw7 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libgpg-error/1.49-wkxxrw7 new file mode 100644 index 00000000..8a27e5e3 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libgpg-error/1.49-wkxxrw7 @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:44.847142 +## +## libgpg-error@1.49%gcc@11.4.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/wkxxrw7 +## +## Configure options: --enable-static --enable-shared --disable-tests --enable-install-gpg-error-config +## + + +module-whatis {Common error values for all GnuPG components.} + +proc ModulesHelp { } { + puts stderr {Name : libgpg-error} + puts stderr {Version: 1.49} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Common error values for all GnuPG components.} +} + +conflict libgpg-error + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libgpg-error-1.49-wkxxrw7n5yx3f7ra6x2brgecu54nwtd6/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libgpg-error-1.49-wkxxrw7n5yx3f7ra6x2brgecu54nwtd6/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libgpg-error-1.49-wkxxrw7n5yx3f7ra6x2brgecu54nwtd6/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libgpg-error-1.49-wkxxrw7n5yx3f7ra6x2brgecu54nwtd6/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libgpg-error-1.49-wkxxrw7n5yx3f7ra6x2brgecu54nwtd6/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libgpg-error-1.49-wkxxrw7n5yx3f7ra6x2brgecu54nwtd6/share/man} +prepend-path ACLOCAL_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libgpg-error-1.49-wkxxrw7n5yx3f7ra6x2brgecu54nwtd6/share/aclocal} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libgpg-error-1.49-wkxxrw7n5yx3f7ra6x2brgecu54nwtd6/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libgpg-error-1.49-wkxxrw7n5yx3f7ra6x2brgecu54nwtd6/.} +setenv LIBGPG_ERROR_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libgpg-error-1.49-wkxxrw7n5yx3f7ra6x2brgecu54nwtd6} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libgpg-error/1.50-lxu2f7x b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libgpg-error/1.50-lxu2f7x new file mode 100644 index 00000000..bfaeec9a --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libgpg-error/1.50-lxu2f7x @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:44.854244 +## +## libgpg-error@1.50%gcc@13.2.0 build_system=autotools patches=0b2a0ff arch=linux-ubuntu22.04-x86_64_v3/lxu2f7x +## +## Configure options: --enable-static --enable-shared --disable-tests --enable-install-gpg-error-config +## + + +module-whatis {Common error values for all GnuPG components.} + +proc ModulesHelp { } { + puts stderr {Name : libgpg-error} + puts stderr {Version: 1.50} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Common error values for all GnuPG components.} +} + +conflict libgpg-error + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libgpg-error-1.50-lxu2f7xu4pwla56wbt6t2uhspstuevow/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libgpg-error-1.50-lxu2f7xu4pwla56wbt6t2uhspstuevow/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libgpg-error-1.50-lxu2f7xu4pwla56wbt6t2uhspstuevow/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libgpg-error-1.50-lxu2f7xu4pwla56wbt6t2uhspstuevow/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libgpg-error-1.50-lxu2f7xu4pwla56wbt6t2uhspstuevow/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libgpg-error-1.50-lxu2f7xu4pwla56wbt6t2uhspstuevow/share/man} +prepend-path ACLOCAL_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libgpg-error-1.50-lxu2f7xu4pwla56wbt6t2uhspstuevow/share/aclocal} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libgpg-error-1.50-lxu2f7xu4pwla56wbt6t2uhspstuevow/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libgpg-error-1.50-lxu2f7xu4pwla56wbt6t2uhspstuevow/.} +setenv LIBGPG_ERROR_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libgpg-error-1.50-lxu2f7xu4pwla56wbt6t2uhspstuevow} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libgtextutils/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libgtextutils/.modulerc new file mode 100644 index 00000000..d2c48e2e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libgtextutils/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libgtextutils/0.7-rc7nd62 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libgtextutils/0.7-rc7nd62 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libgtextutils/0.7-rc7nd62 new file mode 100644 index 00000000..901a6003 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libgtextutils/0.7-rc7nd62 @@ -0,0 +1,67 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:44.862165 +## +## libgtextutils@0.7%gcc@13.2.0 build_system=autotools patches=ba9e181 arch=linux-ubuntu22.04-x86_64_v3/rc7nd62 +## + + +module-whatis {Gordon's Text utils Library.} + +proc ModulesHelp { } { + puts stderr {Name : libgtextutils} + puts stderr {Version: 0.7} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Gordon's Text utils Library.} +} + +conflict libgtextutils + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libgtextutils-0.7-rc7nd626fbpbjo3k6osllzhajksknkek/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libgtextutils-0.7-rc7nd626fbpbjo3k6osllzhajksknkek/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libgtextutils-0.7-rc7nd626fbpbjo3k6osllzhajksknkek/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libgtextutils-0.7-rc7nd626fbpbjo3k6osllzhajksknkek/include} +prepend-path ACLOCAL_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libgtextutils-0.7-rc7nd626fbpbjo3k6osllzhajksknkek/share/aclocal} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libgtextutils-0.7-rc7nd626fbpbjo3k6osllzhajksknkek/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libgtextutils-0.7-rc7nd626fbpbjo3k6osllzhajksknkek/.} +setenv LIBGTEXTUTILS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libgtextutils-0.7-rc7nd626fbpbjo3k6osllzhajksknkek} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libice/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libice/.modulerc new file mode 100644 index 00000000..160a7e7c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libice/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libice/1.1.1-o2s34i4 +module-hide --soft --hidden-loaded libice/1.1.1-lcr4lny diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libice/1.1.1-lcr4lny b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libice/1.1.1-lcr4lny new file mode 100644 index 00000000..92d64e73 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libice/1.1.1-lcr4lny @@ -0,0 +1,66 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:44.878314 +## +## libice@1.1.1%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/lcr4lny +## + + +module-whatis {libICE - Inter-Client Exchange Library.} + +proc ModulesHelp { } { + puts stderr {Name : libice} + puts stderr {Version: 1.1.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {libICE - Inter-Client Exchange Library.} +} + +conflict libice + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libice-1.1.1-lcr4lny6z3qfrqnafzebm3iv7l5nzgyk/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libice-1.1.1-lcr4lny6z3qfrqnafzebm3iv7l5nzgyk/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libice-1.1.1-lcr4lny6z3qfrqnafzebm3iv7l5nzgyk/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libice-1.1.1-lcr4lny6z3qfrqnafzebm3iv7l5nzgyk/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libice-1.1.1-lcr4lny6z3qfrqnafzebm3iv7l5nzgyk/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libice-1.1.1-lcr4lny6z3qfrqnafzebm3iv7l5nzgyk/.} +setenv LIBICE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libice-1.1.1-lcr4lny6z3qfrqnafzebm3iv7l5nzgyk} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libice/1.1.1-o2s34i4 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libice/1.1.1-o2s34i4 new file mode 100644 index 00000000..9b8187fc --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libice/1.1.1-o2s34i4 @@ -0,0 +1,66 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:44.870056 +## +## libice@1.1.1%gcc@11.4.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/o2s34i4 +## + + +module-whatis {libICE - Inter-Client Exchange Library.} + +proc ModulesHelp { } { + puts stderr {Name : libice} + puts stderr {Version: 1.1.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {libICE - Inter-Client Exchange Library.} +} + +conflict libice + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libice-1.1.1-o2s34i4bwygo5maypujftlbm6jlqmvab/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libice-1.1.1-o2s34i4bwygo5maypujftlbm6jlqmvab/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libice-1.1.1-o2s34i4bwygo5maypujftlbm6jlqmvab/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libice-1.1.1-o2s34i4bwygo5maypujftlbm6jlqmvab/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libice-1.1.1-o2s34i4bwygo5maypujftlbm6jlqmvab/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libice-1.1.1-o2s34i4bwygo5maypujftlbm6jlqmvab/.} +setenv LIBICE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libice-1.1.1-o2s34i4bwygo5maypujftlbm6jlqmvab} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libiconv/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libiconv/.modulerc new file mode 100644 index 00000000..898c7e26 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libiconv/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libiconv/1.17-bsga3no +module-hide --soft --hidden-loaded libiconv/1.17-6o2z744 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libiconv/1.17-6o2z744 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libiconv/1.17-6o2z744 new file mode 100644 index 00000000..85ab1e5f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libiconv/1.17-6o2z744 @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:44.894247 +## +## libiconv@1.17%gcc@13.2.0 build_system=autotools libs=shared,static arch=linux-ubuntu22.04-x86_64_v3/6o2z744 +## +## Configure options: --enable-extra-encodings --enable-shared --enable-static --with-pic +## + + +module-whatis {GNU libiconv provides an implementation of the iconv() function and the iconv program for character set conversion.} + +proc ModulesHelp { } { + puts stderr {Name : libiconv} + puts stderr {Version: 1.17} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {GNU libiconv provides an implementation of the iconv() function and the} + puts stderr {iconv program for character set conversion.} +} + +conflict libiconv + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libiconv-1.17-6o2z744tb5afz6tfp5pgeffkiinbhvpd/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libiconv-1.17-6o2z744tb5afz6tfp5pgeffkiinbhvpd/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libiconv-1.17-6o2z744tb5afz6tfp5pgeffkiinbhvpd/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libiconv-1.17-6o2z744tb5afz6tfp5pgeffkiinbhvpd/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libiconv-1.17-6o2z744tb5afz6tfp5pgeffkiinbhvpd/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libiconv-1.17-6o2z744tb5afz6tfp5pgeffkiinbhvpd/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libiconv-1.17-6o2z744tb5afz6tfp5pgeffkiinbhvpd/.} +setenv LIBICONV_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libiconv-1.17-6o2z744tb5afz6tfp5pgeffkiinbhvpd} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libiconv/1.17-bsga3no b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libiconv/1.17-bsga3no new file mode 100644 index 00000000..fb5c4e72 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libiconv/1.17-bsga3no @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:44.887261 +## +## libiconv@1.17%gcc@11.4.0 build_system=autotools libs=shared,static arch=linux-ubuntu22.04-x86_64_v3/bsga3no +## +## Configure options: --enable-extra-encodings --enable-shared --enable-static --with-pic +## + + +module-whatis {GNU libiconv provides an implementation of the iconv() function and the iconv program for character set conversion.} + +proc ModulesHelp { } { + puts stderr {Name : libiconv} + puts stderr {Version: 1.17} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {GNU libiconv provides an implementation of the iconv() function and the} + puts stderr {iconv program for character set conversion.} +} + +conflict libiconv + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libiconv-1.17-bsga3novxptycgb4bpv4mldtq3f5m7mj/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libiconv-1.17-bsga3novxptycgb4bpv4mldtq3f5m7mj/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libiconv-1.17-bsga3novxptycgb4bpv4mldtq3f5m7mj/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libiconv-1.17-bsga3novxptycgb4bpv4mldtq3f5m7mj/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libiconv-1.17-bsga3novxptycgb4bpv4mldtq3f5m7mj/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libiconv-1.17-bsga3novxptycgb4bpv4mldtq3f5m7mj/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libiconv-1.17-bsga3novxptycgb4bpv4mldtq3f5m7mj/.} +setenv LIBICONV_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libiconv-1.17-bsga3novxptycgb4bpv4mldtq3f5m7mj} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libid3tag/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libid3tag/.modulerc new file mode 100644 index 00000000..68a80522 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libid3tag/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libid3tag/0.15.1b-7pl5fnk diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libid3tag/0.15.1b-7pl5fnk b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libid3tag/0.15.1b-7pl5fnk new file mode 100644 index 00000000..472c4282 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libid3tag/0.15.1b-7pl5fnk @@ -0,0 +1,65 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:44.918311 +## +## libid3tag@0.15.1b%gcc@13.2.0 build_system=autotools patches=33464d8,43ea3e0,8aa2ef2,f58b782 arch=linux-ubuntu22.04-x86_64_v3/7pl5fnk +## + + +module-whatis {library for id3 tagging} + +proc ModulesHelp { } { + puts stderr {Name : libid3tag} + puts stderr {Version: 0.15.1b} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {library for id3 tagging} +} + +conflict libid3tag + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libid3tag-0.15.1b-7pl5fnkawqldcno3drinppjqj4e6uqo3/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libid3tag-0.15.1b-7pl5fnkawqldcno3drinppjqj4e6uqo3/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libid3tag-0.15.1b-7pl5fnkawqldcno3drinppjqj4e6uqo3/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libid3tag-0.15.1b-7pl5fnkawqldcno3drinppjqj4e6uqo3/include} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libid3tag-0.15.1b-7pl5fnkawqldcno3drinppjqj4e6uqo3/.} +setenv LIBID3TAG_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libid3tag-0.15.1b-7pl5fnkawqldcno3drinppjqj4e6uqo3} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libidn/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libidn/.modulerc new file mode 100644 index 00000000..3acaa142 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libidn/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libidn/1.34-slq7cdc diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libidn/1.34-slq7cdc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libidn/1.34-slq7cdc new file mode 100644 index 00000000..c11adf0c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libidn/1.34-slq7cdc @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:44.927693 +## +## libidn@1.34%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/slq7cdc +## + + +module-whatis {GNU Libidn is a fully documented implementation of the Stringprep, Punycode and IDNA 2003 specifications. Libidn's purpose is to encode and decode internationalized domain names.} + +proc ModulesHelp { } { + puts stderr {Name : libidn} + puts stderr {Version: 1.34} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {GNU Libidn is a fully documented implementation of the Stringprep,} + puts stderr {Punycode and IDNA 2003 specifications. Libidn's purpose is to encode and} + puts stderr {decode internationalized domain names.} +} + +conflict libidn + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libidn-1.34-slq7cdcjcfdj2c7zqhhghgujyeb4dthp/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libidn-1.34-slq7cdcjcfdj2c7zqhhghgujyeb4dthp/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libidn-1.34-slq7cdcjcfdj2c7zqhhghgujyeb4dthp/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libidn-1.34-slq7cdcjcfdj2c7zqhhghgujyeb4dthp/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libidn-1.34-slq7cdcjcfdj2c7zqhhghgujyeb4dthp/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libidn-1.34-slq7cdcjcfdj2c7zqhhghgujyeb4dthp/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libidn-1.34-slq7cdcjcfdj2c7zqhhghgujyeb4dthp/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libidn-1.34-slq7cdcjcfdj2c7zqhhghgujyeb4dthp/.} +setenv LIBIDN_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libidn-1.34-slq7cdcjcfdj2c7zqhhghgujyeb4dthp} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libidn2/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libidn2/.modulerc new file mode 100644 index 00000000..ce7e1e9e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libidn2/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libidn2/2.3.7-73hoohr diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libidn2/2.3.7-73hoohr b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libidn2/2.3.7-73hoohr new file mode 100644 index 00000000..6aab1d54 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libidn2/2.3.7-73hoohr @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:44.948759 +## +## libidn2@2.3.7%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/73hoohr +## + + +module-whatis {Libidn2 is a free software implementation of IDNA2008, Punycode and TR46. Its purpose is to encode and decode internationalized domain names.} + +proc ModulesHelp { } { + puts stderr {Name : libidn2} + puts stderr {Version: 2.3.7} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Libidn2 is a free software implementation of IDNA2008, Punycode and} + puts stderr {TR46. Its purpose is to encode and decode internationalized domain} + puts stderr {names.} +} + +conflict libidn2 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libidn2-2.3.7-73hoohruiaspa57ohnopxkfordefylzz/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libidn2-2.3.7-73hoohruiaspa57ohnopxkfordefylzz/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libidn2-2.3.7-73hoohruiaspa57ohnopxkfordefylzz/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libidn2-2.3.7-73hoohruiaspa57ohnopxkfordefylzz/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libidn2-2.3.7-73hoohruiaspa57ohnopxkfordefylzz/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libidn2-2.3.7-73hoohruiaspa57ohnopxkfordefylzz/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libidn2-2.3.7-73hoohruiaspa57ohnopxkfordefylzz/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libidn2-2.3.7-73hoohruiaspa57ohnopxkfordefylzz/.} +setenv LIBIDN2_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libidn2-2.3.7-73hoohruiaspa57ohnopxkfordefylzz} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libint/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libint/.modulerc new file mode 100644 index 00000000..0c42483c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libint/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libint/2.9.0-oog3lud diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libint/2.9.0-oog3lud b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libint/2.9.0-oog3lud new file mode 100644 index 00000000..62ab5be9 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libint/2.9.0-oog3lud @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:44.957358 +## +## libint@2.9.0%gcc@13.2.0~debug~fma+fortran build_system=autotools tune=cp2k-lmax-5 arch=linux-ubuntu22.04-x86_64_v3/oog3lud +## +## Configure options: --enable-shared --with-boost=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.86.0-hvbznr2lap6yklu2or4zftdxsizzqild --with-cxx-optflags=-O2 --with-cxxgen-optflags=-O2 --with-libint-exportdir=generated --disable-debug --disable-fma --enable-eri=1 --enable-eri2=1 --enable-eri3=1 --with-max-am=5 --with-eri-max-am=5,4 --with-eri2-max-am=7,6 --with-eri3-max-am=7,6 --with-opt-am=3 --enable-generic-code --disable-unrolling +## + + +module-whatis {Libint is a high-performance library for computing Gaussian integrals in quantum mechanics. } + +proc ModulesHelp { } { + puts stderr {Name : libint} + puts stderr {Version: 2.9.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Libint is a high-performance library for computing Gaussian integrals in} + puts stderr {quantum mechanics.} +} + +conflict libint + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libint-2.9.0-oog3ludsyrqprg2qbfdvs7ii2otv7vpg/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libint-2.9.0-oog3ludsyrqprg2qbfdvs7ii2otv7vpg/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libint-2.9.0-oog3ludsyrqprg2qbfdvs7ii2otv7vpg/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libint-2.9.0-oog3ludsyrqprg2qbfdvs7ii2otv7vpg/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libint-2.9.0-oog3ludsyrqprg2qbfdvs7ii2otv7vpg/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libint-2.9.0-oog3ludsyrqprg2qbfdvs7ii2otv7vpg/.} +setenv LIBINT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libint-2.9.0-oog3ludsyrqprg2qbfdvs7ii2otv7vpg} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libisal/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libisal/.modulerc new file mode 100644 index 00000000..5e2e84cb --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libisal/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libisal/2.31.0-u7oaijg diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libisal/2.31.0-u7oaijg b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libisal/2.31.0-u7oaijg new file mode 100644 index 00000000..ce2bc1d4 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libisal/2.31.0-u7oaijg @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:44.969156 +## +## libisal@2.31.0%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/u7oaijg +## + + +module-whatis {ISA-L is a collection of optimized low-level functions targeting storage applications.} + +proc ModulesHelp { } { + puts stderr {Name : libisal} + puts stderr {Version: 2.31.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {ISA-L is a collection of optimized low-level functions targeting storage} + puts stderr {applications.} +} + +conflict libisal + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libisal-2.31.0-u7oaijgyofplddaduw5fwhn4kffvamk4/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libisal-2.31.0-u7oaijgyofplddaduw5fwhn4kffvamk4/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libisal-2.31.0-u7oaijgyofplddaduw5fwhn4kffvamk4/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libisal-2.31.0-u7oaijgyofplddaduw5fwhn4kffvamk4/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libisal-2.31.0-u7oaijgyofplddaduw5fwhn4kffvamk4/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libisal-2.31.0-u7oaijgyofplddaduw5fwhn4kffvamk4/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libisal-2.31.0-u7oaijgyofplddaduw5fwhn4kffvamk4/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libisal-2.31.0-u7oaijgyofplddaduw5fwhn4kffvamk4/.} +setenv LIBISAL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libisal-2.31.0-u7oaijgyofplddaduw5fwhn4kffvamk4} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libjpeg-turbo/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libjpeg-turbo/.modulerc new file mode 100644 index 00000000..a6b448e0 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libjpeg-turbo/.modulerc @@ -0,0 +1,5 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libjpeg-turbo/3.0.4-yqtw6xc +module-hide --soft --hidden-loaded libjpeg-turbo/3.0.4-izrqhj2 +module-hide --soft --hidden-loaded libjpeg-turbo/3.0.4-ujtiqvv +module-hide --soft --hidden-loaded libjpeg-turbo/3.0.4-hunqm4n diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libjpeg-turbo/3.0.4-hunqm4n b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libjpeg-turbo/3.0.4-hunqm4n new file mode 100644 index 00000000..91bfdb82 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libjpeg-turbo/3.0.4-hunqm4n @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2024-12-19 13:36:44.503722 +## +## libjpeg-turbo@3.0.4%gcc@13.2.0~ipo~jpeg8~partial_decoder+pic build_system=cmake build_type=Release generator=make libs=shared,static arch=linux-ubuntu22.04-x86_64_v3/hunqm4n +## + + +module-whatis {libjpeg-turbo is a fork of the original IJG libjpeg which uses SIMD to accelerate baseline JPEG compression and decompression.} + +proc ModulesHelp { } { + puts stderr {Name : libjpeg-turbo} + puts stderr {Version: 3.0.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {libjpeg-turbo is a fork of the original IJG libjpeg which uses SIMD to} + puts stderr {accelerate baseline JPEG compression and decompression. libjpeg is a} + puts stderr {library that implements JPEG image encoding, decoding and transcoding.} +} + +conflict libjpeg-turbo + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libjpeg-turbo-3.0.4-hunqm4nwv4risqsunafbnmmjzyykvh66/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libjpeg-turbo-3.0.4-hunqm4nwv4risqsunafbnmmjzyykvh66/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libjpeg-turbo-3.0.4-hunqm4nwv4risqsunafbnmmjzyykvh66/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libjpeg-turbo-3.0.4-hunqm4nwv4risqsunafbnmmjzyykvh66/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libjpeg-turbo-3.0.4-hunqm4nwv4risqsunafbnmmjzyykvh66/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libjpeg-turbo-3.0.4-hunqm4nwv4risqsunafbnmmjzyykvh66/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libjpeg-turbo-3.0.4-hunqm4nwv4risqsunafbnmmjzyykvh66/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libjpeg-turbo-3.0.4-hunqm4nwv4risqsunafbnmmjzyykvh66/.} +setenv LIBJPEG_TURBO_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libjpeg-turbo-3.0.4-hunqm4nwv4risqsunafbnmmjzyykvh66} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libjpeg-turbo/3.0.4-izrqhj2 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libjpeg-turbo/3.0.4-izrqhj2 new file mode 100644 index 00000000..13ad93be --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libjpeg-turbo/3.0.4-izrqhj2 @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.010201 +## +## libjpeg-turbo@3.0.4%gcc@13.2.0~ipo~jpeg8~partial_decoder+pic build_system=cmake build_type=Release generator=make libs=shared,static arch=linux-ubuntu22.04-x86_64_v3/izrqhj2 +## + + +module-whatis {libjpeg-turbo is a fork of the original IJG libjpeg which uses SIMD to accelerate baseline JPEG compression and decompression.} + +proc ModulesHelp { } { + puts stderr {Name : libjpeg-turbo} + puts stderr {Version: 3.0.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {libjpeg-turbo is a fork of the original IJG libjpeg which uses SIMD to} + puts stderr {accelerate baseline JPEG compression and decompression. libjpeg is a} + puts stderr {library that implements JPEG image encoding, decoding and transcoding.} +} + +conflict libjpeg-turbo + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libjpeg-turbo-3.0.4-izrqhj2nnhk66smfgabjp6j5ethclads/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libjpeg-turbo-3.0.4-izrqhj2nnhk66smfgabjp6j5ethclads/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libjpeg-turbo-3.0.4-izrqhj2nnhk66smfgabjp6j5ethclads/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libjpeg-turbo-3.0.4-izrqhj2nnhk66smfgabjp6j5ethclads/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libjpeg-turbo-3.0.4-izrqhj2nnhk66smfgabjp6j5ethclads/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libjpeg-turbo-3.0.4-izrqhj2nnhk66smfgabjp6j5ethclads/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libjpeg-turbo-3.0.4-izrqhj2nnhk66smfgabjp6j5ethclads/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libjpeg-turbo-3.0.4-izrqhj2nnhk66smfgabjp6j5ethclads/.} +setenv LIBJPEG_TURBO_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libjpeg-turbo-3.0.4-izrqhj2nnhk66smfgabjp6j5ethclads} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libjpeg-turbo/3.0.4-ujtiqvv b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libjpeg-turbo/3.0.4-ujtiqvv new file mode 100644 index 00000000..ee78b145 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libjpeg-turbo/3.0.4-ujtiqvv @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.018291 +## +## libjpeg-turbo@3.0.4%gcc@13.2.0~ipo~jpeg8~partial_decoder+pic build_system=cmake build_type=Release generator=make libs=shared,static arch=linux-ubuntu22.04-x86_64_v3/ujtiqvv +## + + +module-whatis {libjpeg-turbo is a fork of the original IJG libjpeg which uses SIMD to accelerate baseline JPEG compression and decompression.} + +proc ModulesHelp { } { + puts stderr {Name : libjpeg-turbo} + puts stderr {Version: 3.0.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {libjpeg-turbo is a fork of the original IJG libjpeg which uses SIMD to} + puts stderr {accelerate baseline JPEG compression and decompression. libjpeg is a} + puts stderr {library that implements JPEG image encoding, decoding and transcoding.} +} + +conflict libjpeg-turbo + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libjpeg-turbo-3.0.4-ujtiqvv4sbyi2gvs3tqui6eqfwe4igbh/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libjpeg-turbo-3.0.4-ujtiqvv4sbyi2gvs3tqui6eqfwe4igbh/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libjpeg-turbo-3.0.4-ujtiqvv4sbyi2gvs3tqui6eqfwe4igbh/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libjpeg-turbo-3.0.4-ujtiqvv4sbyi2gvs3tqui6eqfwe4igbh/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libjpeg-turbo-3.0.4-ujtiqvv4sbyi2gvs3tqui6eqfwe4igbh/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libjpeg-turbo-3.0.4-ujtiqvv4sbyi2gvs3tqui6eqfwe4igbh/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libjpeg-turbo-3.0.4-ujtiqvv4sbyi2gvs3tqui6eqfwe4igbh/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libjpeg-turbo-3.0.4-ujtiqvv4sbyi2gvs3tqui6eqfwe4igbh/.} +setenv LIBJPEG_TURBO_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libjpeg-turbo-3.0.4-ujtiqvv4sbyi2gvs3tqui6eqfwe4igbh} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libjpeg-turbo/3.0.4-yqtw6xc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libjpeg-turbo/3.0.4-yqtw6xc new file mode 100644 index 00000000..e309f10a --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libjpeg-turbo/3.0.4-yqtw6xc @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:44.990209 +## +## libjpeg-turbo@3.0.4%gcc@11.4.0~ipo~jpeg8~partial_decoder+pic build_system=cmake build_type=Release generator=make libs=shared,static arch=linux-ubuntu22.04-x86_64_v3/yqtw6xc +## + + +module-whatis {libjpeg-turbo is a fork of the original IJG libjpeg which uses SIMD to accelerate baseline JPEG compression and decompression.} + +proc ModulesHelp { } { + puts stderr {Name : libjpeg-turbo} + puts stderr {Version: 3.0.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {libjpeg-turbo is a fork of the original IJG libjpeg which uses SIMD to} + puts stderr {accelerate baseline JPEG compression and decompression. libjpeg is a} + puts stderr {library that implements JPEG image encoding, decoding and transcoding.} +} + +conflict libjpeg-turbo + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libjpeg-turbo-3.0.4-yqtw6xcmtwcgppr4ezlu3hn5aopxis34/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libjpeg-turbo-3.0.4-yqtw6xcmtwcgppr4ezlu3hn5aopxis34/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libjpeg-turbo-3.0.4-yqtw6xcmtwcgppr4ezlu3hn5aopxis34/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libjpeg-turbo-3.0.4-yqtw6xcmtwcgppr4ezlu3hn5aopxis34/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libjpeg-turbo-3.0.4-yqtw6xcmtwcgppr4ezlu3hn5aopxis34/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libjpeg-turbo-3.0.4-yqtw6xcmtwcgppr4ezlu3hn5aopxis34/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libjpeg-turbo-3.0.4-yqtw6xcmtwcgppr4ezlu3hn5aopxis34/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libjpeg-turbo-3.0.4-yqtw6xcmtwcgppr4ezlu3hn5aopxis34/.} +setenv LIBJPEG_TURBO_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libjpeg-turbo-3.0.4-yqtw6xcmtwcgppr4ezlu3hn5aopxis34} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libmd/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libmd/.modulerc new file mode 100644 index 00000000..a5aecd81 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libmd/.modulerc @@ -0,0 +1,4 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libmd/1.0.4-qcfzttd +module-hide --soft --hidden-loaded libmd/1.0.4-4xdlekk +module-hide --soft --hidden-loaded libmd/1.0.4-uphkcmd diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libmd/1.0.4-4xdlekk b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libmd/1.0.4-4xdlekk new file mode 100644 index 00000000..2feba886 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libmd/1.0.4-4xdlekk @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.040402 +## +## libmd@1.0.4%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/4xdlekk +## + + +module-whatis {This library provides message digest functions found on BSD systems either on their libc (NetBSD, OpenBSD) or libmd (FreeBSD, DragonflyBSD, macOS, Solaris) libraries and lacking on others like GNU systems.} + +proc ModulesHelp { } { + puts stderr {Name : libmd} + puts stderr {Version: 1.0.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {This library provides message digest functions found on BSD systems} + puts stderr {either on their libc (NetBSD, OpenBSD) or libmd (FreeBSD, DragonflyBSD,} + puts stderr {macOS, Solaris) libraries and lacking on others like GNU systems.} +} + +conflict libmd + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libmd-1.0.4-4xdlekkw2dcljlss7mtl5mcqtyyo4xnn/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libmd-1.0.4-4xdlekkw2dcljlss7mtl5mcqtyyo4xnn/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libmd-1.0.4-4xdlekkw2dcljlss7mtl5mcqtyyo4xnn/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libmd-1.0.4-4xdlekkw2dcljlss7mtl5mcqtyyo4xnn/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libmd-1.0.4-4xdlekkw2dcljlss7mtl5mcqtyyo4xnn/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libmd-1.0.4-4xdlekkw2dcljlss7mtl5mcqtyyo4xnn/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libmd-1.0.4-4xdlekkw2dcljlss7mtl5mcqtyyo4xnn/.} +setenv LIBMD_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libmd-1.0.4-4xdlekkw2dcljlss7mtl5mcqtyyo4xnn} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libmd/1.0.4-qcfzttd b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libmd/1.0.4-qcfzttd new file mode 100644 index 00000000..c854748b --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libmd/1.0.4-qcfzttd @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.033375 +## +## libmd@1.0.4%gcc@11.4.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/qcfzttd +## + + +module-whatis {This library provides message digest functions found on BSD systems either on their libc (NetBSD, OpenBSD) or libmd (FreeBSD, DragonflyBSD, macOS, Solaris) libraries and lacking on others like GNU systems.} + +proc ModulesHelp { } { + puts stderr {Name : libmd} + puts stderr {Version: 1.0.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {This library provides message digest functions found on BSD systems} + puts stderr {either on their libc (NetBSD, OpenBSD) or libmd (FreeBSD, DragonflyBSD,} + puts stderr {macOS, Solaris) libraries and lacking on others like GNU systems.} +} + +conflict libmd + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libmd-1.0.4-qcfzttdxovswz34pjuvrsjnuwsvrbhko/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libmd-1.0.4-qcfzttdxovswz34pjuvrsjnuwsvrbhko/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libmd-1.0.4-qcfzttdxovswz34pjuvrsjnuwsvrbhko/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libmd-1.0.4-qcfzttdxovswz34pjuvrsjnuwsvrbhko/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libmd-1.0.4-qcfzttdxovswz34pjuvrsjnuwsvrbhko/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libmd-1.0.4-qcfzttdxovswz34pjuvrsjnuwsvrbhko/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libmd-1.0.4-qcfzttdxovswz34pjuvrsjnuwsvrbhko/.} +setenv LIBMD_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libmd-1.0.4-qcfzttdxovswz34pjuvrsjnuwsvrbhko} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libmd/1.0.4-uphkcmd b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libmd/1.0.4-uphkcmd new file mode 100644 index 00000000..2d8b070b --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libmd/1.0.4-uphkcmd @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.026444 +## +## libmd@1.0.4%gcc@7.5.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/uphkcmd +## + + +module-whatis {This library provides message digest functions found on BSD systems either on their libc (NetBSD, OpenBSD) or libmd (FreeBSD, DragonflyBSD, macOS, Solaris) libraries and lacking on others like GNU systems.} + +proc ModulesHelp { } { + puts stderr {Name : libmd} + puts stderr {Version: 1.0.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {This library provides message digest functions found on BSD systems} + puts stderr {either on their libc (NetBSD, OpenBSD) or libmd (FreeBSD, DragonflyBSD,} + puts stderr {macOS, Solaris) libraries and lacking on others like GNU systems.} +} + +conflict libmd + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/libmd-1.0.4-uphkcmdh2mh4yupwkokh4jo6fddq3etc/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/libmd-1.0.4-uphkcmdh2mh4yupwkokh4jo6fddq3etc/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/libmd-1.0.4-uphkcmdh2mh4yupwkokh4jo6fddq3etc/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/libmd-1.0.4-uphkcmdh2mh4yupwkokh4jo6fddq3etc/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/libmd-1.0.4-uphkcmdh2mh4yupwkokh4jo6fddq3etc/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/libmd-1.0.4-uphkcmdh2mh4yupwkokh4jo6fddq3etc/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/libmd-1.0.4-uphkcmdh2mh4yupwkokh4jo6fddq3etc/.} +setenv LIBMD_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/libmd-1.0.4-uphkcmdh2mh4yupwkokh4jo6fddq3etc} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libmng/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libmng/.modulerc new file mode 100644 index 00000000..aeb045b0 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libmng/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libmng/2.0.3-rpitzws +module-hide --soft --hidden-loaded libmng/2.0.3-3cmmfw3 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libmng/2.0.3-3cmmfw3 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libmng/2.0.3-3cmmfw3 new file mode 100644 index 00000000..f5a41aff --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libmng/2.0.3-3cmmfw3 @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.064181 +## +## libmng@2.0.3%gcc@13.2.0~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/3cmmfw3 +## + + +module-whatis {THE reference library for reading, displaying, writing and examining Multiple-Image Network Graphics. MNG is the animation extension to the popular PNG image format.} + +proc ModulesHelp { } { + puts stderr {Name : libmng} + puts stderr {Version: 2.0.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {THE reference library for reading, displaying, writing and examining} + puts stderr {Multiple-Image Network Graphics. MNG is the animation extension to the} + puts stderr {popular PNG image format.} +} + +conflict libmng + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libmng-2.0.3-3cmmfw3djxozewj3onm2rtltaepktr7a/lib64} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libmng-2.0.3-3cmmfw3djxozewj3onm2rtltaepktr7a/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libmng-2.0.3-3cmmfw3djxozewj3onm2rtltaepktr7a/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libmng-2.0.3-3cmmfw3djxozewj3onm2rtltaepktr7a/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libmng-2.0.3-3cmmfw3djxozewj3onm2rtltaepktr7a/lib64/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libmng-2.0.3-3cmmfw3djxozewj3onm2rtltaepktr7a/.} +setenv LIBMNG_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libmng-2.0.3-3cmmfw3djxozewj3onm2rtltaepktr7a} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libmng/2.0.3-rpitzws b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libmng/2.0.3-rpitzws new file mode 100644 index 00000000..c3a670c6 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libmng/2.0.3-rpitzws @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2024-12-19 13:36:44.544297 +## +## libmng@2.0.3%gcc@13.2.0~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/rpitzws +## + + +module-whatis {THE reference library for reading, displaying, writing and examining Multiple-Image Network Graphics. MNG is the animation extension to the popular PNG image format.} + +proc ModulesHelp { } { + puts stderr {Name : libmng} + puts stderr {Version: 2.0.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {THE reference library for reading, displaying, writing and examining} + puts stderr {Multiple-Image Network Graphics. MNG is the animation extension to the} + puts stderr {popular PNG image format.} +} + +conflict libmng + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libmng-2.0.3-rpitzwsl6vzv4aizxsq4g7bl233nsxui/lib64} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libmng-2.0.3-rpitzwsl6vzv4aizxsq4g7bl233nsxui/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libmng-2.0.3-rpitzwsl6vzv4aizxsq4g7bl233nsxui/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libmng-2.0.3-rpitzwsl6vzv4aizxsq4g7bl233nsxui/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libmng-2.0.3-rpitzwsl6vzv4aizxsq4g7bl233nsxui/lib64/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libmng-2.0.3-rpitzwsl6vzv4aizxsq4g7bl233nsxui/.} +setenv LIBMNG_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libmng-2.0.3-rpitzwsl6vzv4aizxsq4g7bl233nsxui} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libnl/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libnl/.modulerc new file mode 100644 index 00000000..8d8cd1ca --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libnl/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libnl/3.3.0-utx6wa2 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libnl/3.3.0-utx6wa2 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libnl/3.3.0-utx6wa2 new file mode 100644 index 00000000..ec0c869f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libnl/3.3.0-utx6wa2 @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.074731 +## +## libnl@3.3.0%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/utx6wa2 +## + + +module-whatis {libnl - Netlink Protocol Library Suite} + +proc ModulesHelp { } { + puts stderr {Name : libnl} + puts stderr {Version: 3.3.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {libnl - Netlink Protocol Library Suite} +} + +conflict libnl + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libnl-3.3.0-utx6wa2oh45ba37bhlbbmqlgxaz5ztht/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libnl-3.3.0-utx6wa2oh45ba37bhlbbmqlgxaz5ztht/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libnl-3.3.0-utx6wa2oh45ba37bhlbbmqlgxaz5ztht/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libnl-3.3.0-utx6wa2oh45ba37bhlbbmqlgxaz5ztht/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libnl-3.3.0-utx6wa2oh45ba37bhlbbmqlgxaz5ztht/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libnl-3.3.0-utx6wa2oh45ba37bhlbbmqlgxaz5ztht/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libnl-3.3.0-utx6wa2oh45ba37bhlbbmqlgxaz5ztht/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libnl-3.3.0-utx6wa2oh45ba37bhlbbmqlgxaz5ztht/.} +setenv LIBNL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libnl-3.3.0-utx6wa2oh45ba37bhlbbmqlgxaz5ztht} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libnsl/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libnsl/.modulerc new file mode 100644 index 00000000..a6b98673 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libnsl/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libnsl/2.0.1-6rwl3ch diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libnsl/2.0.1-6rwl3ch b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libnsl/2.0.1-6rwl3ch new file mode 100644 index 00000000..d828c02c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libnsl/2.0.1-6rwl3ch @@ -0,0 +1,67 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.097457 +## +## libnsl@2.0.1%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/6rwl3ch +## + + +module-whatis {This library contains the public client interface for NIS(YP) and NIS+ in a IPv6 ready version.} + +proc ModulesHelp { } { + puts stderr {Name : libnsl} + puts stderr {Version: 2.0.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {This library contains the public client interface for NIS(YP) and NIS+} + puts stderr {in a IPv6 ready version.} +} + +conflict libnsl + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libnsl-2.0.1-6rwl3chfayux463djsyjr7ubuwovaou7/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libnsl-2.0.1-6rwl3chfayux463djsyjr7ubuwovaou7/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libnsl-2.0.1-6rwl3chfayux463djsyjr7ubuwovaou7/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libnsl-2.0.1-6rwl3chfayux463djsyjr7ubuwovaou7/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libnsl-2.0.1-6rwl3chfayux463djsyjr7ubuwovaou7/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libnsl-2.0.1-6rwl3chfayux463djsyjr7ubuwovaou7/.} +setenv LIBNSL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libnsl-2.0.1-6rwl3chfayux463djsyjr7ubuwovaou7} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libogg/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libogg/.modulerc new file mode 100644 index 00000000..62445fb1 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libogg/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libogg/1.3.5-o4qn6cg diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libogg/1.3.5-o4qn6cg b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libogg/1.3.5-o4qn6cg new file mode 100644 index 00000000..c891a062 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libogg/1.3.5-o4qn6cg @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.240872 +## +## libogg@1.3.5%gcc@11.4.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/o4qn6cg +## + + +module-whatis {Ogg is a multimedia container format, and the native file and stream format for the Xiph.org multimedia codecs.} + +proc ModulesHelp { } { + puts stderr {Name : libogg} + puts stderr {Version: 1.3.5} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Ogg is a multimedia container format, and the native file and stream} + puts stderr {format for the Xiph.org multimedia codecs.} +} + +conflict libogg + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libogg-1.3.5-o4qn6cgaavpn3tklff5cqk5363gtwv4c/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libogg-1.3.5-o4qn6cgaavpn3tklff5cqk5363gtwv4c/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libogg-1.3.5-o4qn6cgaavpn3tklff5cqk5363gtwv4c/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libogg-1.3.5-o4qn6cgaavpn3tklff5cqk5363gtwv4c/include} +prepend-path ACLOCAL_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libogg-1.3.5-o4qn6cgaavpn3tklff5cqk5363gtwv4c/share/aclocal} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libogg-1.3.5-o4qn6cgaavpn3tklff5cqk5363gtwv4c/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libogg-1.3.5-o4qn6cgaavpn3tklff5cqk5363gtwv4c/.} +setenv LIBOGG_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libogg-1.3.5-o4qn6cgaavpn3tklff5cqk5363gtwv4c} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libpam/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libpam/.modulerc new file mode 100644 index 00000000..a5a7c041 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libpam/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libpam/1.09-uholhiy diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libpam/1.09-uholhiy b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libpam/1.09-uholhiy new file mode 100644 index 00000000..95f8728d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libpam/1.09-uholhiy @@ -0,0 +1,66 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.262265 +## +## libpam@1.09%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/uholhiy +## + + +module-whatis {Example PAM module demonstrating two-factor authentication for logging into servers via SSH, OpenVPN, etc} + +proc ModulesHelp { } { + puts stderr {Name : libpam} + puts stderr {Version: 1.09} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Example PAM module demonstrating two-factor authentication for logging} + puts stderr {into servers via SSH, OpenVPN, etc} +} + +conflict libpam + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libpam-1.09-uholhiymcl654qrn5bafl2g3ofdbzcwh/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libpam-1.09-uholhiymcl654qrn5bafl2g3ofdbzcwh/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libpam-1.09-uholhiymcl654qrn5bafl2g3ofdbzcwh/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libpam-1.09-uholhiymcl654qrn5bafl2g3ofdbzcwh/.} +setenv LIBPAM_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libpam-1.09-uholhiymcl654qrn5bafl2g3ofdbzcwh} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libpng/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libpng/.modulerc new file mode 100644 index 00000000..a333a788 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libpng/.modulerc @@ -0,0 +1,4 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libpng/1.6.39-r6u6z5r +module-hide --soft --hidden-loaded libpng/1.6.39-phtly5n +module-hide --soft --hidden-loaded libpng/1.6.39-6565ndy diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libpng/1.6.39-6565ndy b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libpng/1.6.39-6565ndy new file mode 100644 index 00000000..18917af1 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libpng/1.6.39-6565ndy @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.311302 +## +## libpng@1.6.39%gcc@13.2.0~ipo~pic build_system=cmake build_type=Release generator=make libs=shared,static arch=linux-ubuntu22.04-x86_64_v3/6565ndy +## + + +module-whatis {libpng is the official PNG reference library.} + +proc ModulesHelp { } { + puts stderr {Name : libpng} + puts stderr {Version: 1.6.39} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {libpng is the official PNG reference library.} +} + +conflict libpng + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libpng-1.6.39-6565ndyqqpaj6epbfx7wtvzg4qkgogmy/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libpng-1.6.39-6565ndyqqpaj6epbfx7wtvzg4qkgogmy/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libpng-1.6.39-6565ndyqqpaj6epbfx7wtvzg4qkgogmy/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libpng-1.6.39-6565ndyqqpaj6epbfx7wtvzg4qkgogmy/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libpng-1.6.39-6565ndyqqpaj6epbfx7wtvzg4qkgogmy/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libpng-1.6.39-6565ndyqqpaj6epbfx7wtvzg4qkgogmy/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libpng-1.6.39-6565ndyqqpaj6epbfx7wtvzg4qkgogmy/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libpng-1.6.39-6565ndyqqpaj6epbfx7wtvzg4qkgogmy/.} +setenv LIBPNG_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libpng-1.6.39-6565ndyqqpaj6epbfx7wtvzg4qkgogmy} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libpng/1.6.39-phtly5n b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libpng/1.6.39-phtly5n new file mode 100644 index 00000000..8bdcb647 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libpng/1.6.39-phtly5n @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2024-12-19 13:36:44.815124 +## +## libpng@1.6.39%gcc@13.2.0~ipo~pic build_system=cmake build_type=Release generator=make libs=shared,static arch=linux-ubuntu22.04-x86_64_v3/phtly5n +## + + +module-whatis {libpng is the official PNG reference library.} + +proc ModulesHelp { } { + puts stderr {Name : libpng} + puts stderr {Version: 1.6.39} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {libpng is the official PNG reference library.} +} + +conflict libpng + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libpng-1.6.39-phtly5n454t5h5lzjlpfkifpqjzfdnl6/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libpng-1.6.39-phtly5n454t5h5lzjlpfkifpqjzfdnl6/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libpng-1.6.39-phtly5n454t5h5lzjlpfkifpqjzfdnl6/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libpng-1.6.39-phtly5n454t5h5lzjlpfkifpqjzfdnl6/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libpng-1.6.39-phtly5n454t5h5lzjlpfkifpqjzfdnl6/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libpng-1.6.39-phtly5n454t5h5lzjlpfkifpqjzfdnl6/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libpng-1.6.39-phtly5n454t5h5lzjlpfkifpqjzfdnl6/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libpng-1.6.39-phtly5n454t5h5lzjlpfkifpqjzfdnl6/.} +setenv LIBPNG_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libpng-1.6.39-phtly5n454t5h5lzjlpfkifpqjzfdnl6} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libpng/1.6.39-r6u6z5r b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libpng/1.6.39-r6u6z5r new file mode 100644 index 00000000..b37d7c72 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libpng/1.6.39-r6u6z5r @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.303968 +## +## libpng@1.6.39%gcc@11.4.0~ipo~pic build_system=cmake build_type=Release generator=make libs=shared,static arch=linux-ubuntu22.04-x86_64_v3/r6u6z5r +## + + +module-whatis {libpng is the official PNG reference library.} + +proc ModulesHelp { } { + puts stderr {Name : libpng} + puts stderr {Version: 1.6.39} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {libpng is the official PNG reference library.} +} + +conflict libpng + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libpng-1.6.39-r6u6z5rg6kykwvczjagmxjhb6bcg42h4/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libpng-1.6.39-r6u6z5rg6kykwvczjagmxjhb6bcg42h4/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libpng-1.6.39-r6u6z5rg6kykwvczjagmxjhb6bcg42h4/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libpng-1.6.39-r6u6z5rg6kykwvczjagmxjhb6bcg42h4/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libpng-1.6.39-r6u6z5rg6kykwvczjagmxjhb6bcg42h4/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libpng-1.6.39-r6u6z5rg6kykwvczjagmxjhb6bcg42h4/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libpng-1.6.39-r6u6z5rg6kykwvczjagmxjhb6bcg42h4/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libpng-1.6.39-r6u6z5rg6kykwvczjagmxjhb6bcg42h4/.} +setenv LIBPNG_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libpng-1.6.39-r6u6z5rg6kykwvczjagmxjhb6bcg42h4} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libpthread-stubs/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libpthread-stubs/.modulerc new file mode 100644 index 00000000..4d9a1432 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libpthread-stubs/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libpthread-stubs/0.5-zavdm3b +module-hide --soft --hidden-loaded libpthread-stubs/0.5-4nj3ufu diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libpthread-stubs/0.5-4nj3ufu b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libpthread-stubs/0.5-4nj3ufu new file mode 100644 index 00000000..ce788f84 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libpthread-stubs/0.5-4nj3ufu @@ -0,0 +1,64 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.326373 +## +## libpthread-stubs@0.5%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/4nj3ufu +## + + +module-whatis {The libpthread-stubs package provides weak aliases for pthread functions not provided in libc or otherwise available by default.} + +proc ModulesHelp { } { + puts stderr {Name : libpthread-stubs} + puts stderr {Version: 0.5} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The libpthread-stubs package provides weak aliases for pthread functions} + puts stderr {not provided in libc or otherwise available by default.} +} + +conflict libpthread-stubs + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libpthread-stubs-0.5-4nj3ufunt5v7rlztg7stnbyrdpyrllf6/lib} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libpthread-stubs-0.5-4nj3ufunt5v7rlztg7stnbyrdpyrllf6/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libpthread-stubs-0.5-4nj3ufunt5v7rlztg7stnbyrdpyrllf6/.} +setenv LIBPTHREAD_STUBS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libpthread-stubs-0.5-4nj3ufunt5v7rlztg7stnbyrdpyrllf6} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libpthread-stubs/0.5-zavdm3b b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libpthread-stubs/0.5-zavdm3b new file mode 100644 index 00000000..196f1309 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libpthread-stubs/0.5-zavdm3b @@ -0,0 +1,64 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.319465 +## +## libpthread-stubs@0.5%gcc@11.4.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/zavdm3b +## + + +module-whatis {The libpthread-stubs package provides weak aliases for pthread functions not provided in libc or otherwise available by default.} + +proc ModulesHelp { } { + puts stderr {Name : libpthread-stubs} + puts stderr {Version: 0.5} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The libpthread-stubs package provides weak aliases for pthread functions} + puts stderr {not provided in libc or otherwise available by default.} +} + +conflict libpthread-stubs + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libpthread-stubs-0.5-zavdm3bpqocu76kmp4sruxjbicugfsjr/lib} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libpthread-stubs-0.5-zavdm3bpqocu76kmp4sruxjbicugfsjr/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libpthread-stubs-0.5-zavdm3bpqocu76kmp4sruxjbicugfsjr/.} +setenv LIBPTHREAD_STUBS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libpthread-stubs-0.5-zavdm3bpqocu76kmp4sruxjbicugfsjr} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libseccomp/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libseccomp/.modulerc new file mode 100644 index 00000000..b0c3eca0 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libseccomp/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libseccomp/2.5.4-fppzja3 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libseccomp/2.5.4-fppzja3 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libseccomp/2.5.4-fppzja3 new file mode 100644 index 00000000..589daf77 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libseccomp/2.5.4-fppzja3 @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.334221 +## +## libseccomp@2.5.4%gcc@13.2.0+python build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/fppzja3 +## +## Configure options: --enable-python +## + + +module-whatis {The main libseccomp repository} + +proc ModulesHelp { } { + puts stderr {Name : libseccomp} + puts stderr {Version: 2.5.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The main libseccomp repository} +} + +conflict libseccomp + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libseccomp-2.5.4-fppzja3pjusyycwm7jszfmiueqml2p6h/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libseccomp-2.5.4-fppzja3pjusyycwm7jszfmiueqml2p6h/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libseccomp-2.5.4-fppzja3pjusyycwm7jszfmiueqml2p6h/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libseccomp-2.5.4-fppzja3pjusyycwm7jszfmiueqml2p6h/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libseccomp-2.5.4-fppzja3pjusyycwm7jszfmiueqml2p6h/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libseccomp-2.5.4-fppzja3pjusyycwm7jszfmiueqml2p6h/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libseccomp-2.5.4-fppzja3pjusyycwm7jszfmiueqml2p6h/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libseccomp-2.5.4-fppzja3pjusyycwm7jszfmiueqml2p6h/.} +setenv LIBSECCOMP_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libseccomp-2.5.4-fppzja3pjusyycwm7jszfmiueqml2p6h} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libsigsegv/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libsigsegv/.modulerc new file mode 100644 index 00000000..482839a2 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libsigsegv/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libsigsegv/2.14-h5kxasm diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libsigsegv/2.14-h5kxasm b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libsigsegv/2.14-h5kxasm new file mode 100644 index 00000000..44295fd3 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libsigsegv/2.14-h5kxasm @@ -0,0 +1,67 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.342073 +## +## libsigsegv@2.14%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/h5kxasm +## +## Configure options: --enable-shared +## + + +module-whatis {GNU libsigsegv is a library for handling page faults in user mode.} + +proc ModulesHelp { } { + puts stderr {Name : libsigsegv} + puts stderr {Version: 2.14} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {GNU libsigsegv is a library for handling page faults in user mode.} +} + +conflict libsigsegv + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libsigsegv-2.14-h5kxasm6ra2zsuyivutnb6zy46bc5vwa/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libsigsegv-2.14-h5kxasm6ra2zsuyivutnb6zy46bc5vwa/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libsigsegv-2.14-h5kxasm6ra2zsuyivutnb6zy46bc5vwa/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libsigsegv-2.14-h5kxasm6ra2zsuyivutnb6zy46bc5vwa/include} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libsigsegv-2.14-h5kxasm6ra2zsuyivutnb6zy46bc5vwa/.} +setenv LIBSIGSEGV_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libsigsegv-2.14-h5kxasm6ra2zsuyivutnb6zy46bc5vwa} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libsm/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libsm/.modulerc new file mode 100644 index 00000000..c313f01a --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libsm/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libsm/1.2.4-uilgf2i +module-hide --soft --hidden-loaded libsm/1.2.4-xhpjpex diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libsm/1.2.4-uilgf2i b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libsm/1.2.4-uilgf2i new file mode 100644 index 00000000..30973e0c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libsm/1.2.4-uilgf2i @@ -0,0 +1,66 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.350003 +## +## libsm@1.2.4%gcc@11.4.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/uilgf2i +## + + +module-whatis {libSM - X Session Management Library.} + +proc ModulesHelp { } { + puts stderr {Name : libsm} + puts stderr {Version: 1.2.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {libSM - X Session Management Library.} +} + +conflict libsm + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libsm-1.2.4-uilgf2iwiveke6nflfp4p66sd2eo6eod/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libsm-1.2.4-uilgf2iwiveke6nflfp4p66sd2eo6eod/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libsm-1.2.4-uilgf2iwiveke6nflfp4p66sd2eo6eod/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libsm-1.2.4-uilgf2iwiveke6nflfp4p66sd2eo6eod/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libsm-1.2.4-uilgf2iwiveke6nflfp4p66sd2eo6eod/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libsm-1.2.4-uilgf2iwiveke6nflfp4p66sd2eo6eod/.} +setenv LIBSM_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libsm-1.2.4-uilgf2iwiveke6nflfp4p66sd2eo6eod} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libsm/1.2.4-xhpjpex b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libsm/1.2.4-xhpjpex new file mode 100644 index 00000000..972de0e3 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libsm/1.2.4-xhpjpex @@ -0,0 +1,66 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.358746 +## +## libsm@1.2.4%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/xhpjpex +## + + +module-whatis {libSM - X Session Management Library.} + +proc ModulesHelp { } { + puts stderr {Name : libsm} + puts stderr {Version: 1.2.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {libSM - X Session Management Library.} +} + +conflict libsm + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libsm-1.2.4-xhpjpexvdrllz4nmidc3b7nlz52doqoo/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libsm-1.2.4-xhpjpexvdrllz4nmidc3b7nlz52doqoo/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libsm-1.2.4-xhpjpexvdrllz4nmidc3b7nlz52doqoo/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libsm-1.2.4-xhpjpexvdrllz4nmidc3b7nlz52doqoo/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libsm-1.2.4-xhpjpexvdrllz4nmidc3b7nlz52doqoo/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libsm-1.2.4-xhpjpexvdrllz4nmidc3b7nlz52doqoo/.} +setenv LIBSM_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libsm-1.2.4-xhpjpexvdrllz4nmidc3b7nlz52doqoo} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libssh2/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libssh2/.modulerc new file mode 100644 index 00000000..362dd71f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libssh2/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libssh2/1.11.1-ywgkbte diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libssh2/1.11.1-ywgkbte b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libssh2/1.11.1-ywgkbte new file mode 100644 index 00000000..7da0ab80 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libssh2/1.11.1-ywgkbte @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.368325 +## +## libssh2@1.11.1%gcc@13.2.0+shared build_system=autotools crypto=openssl arch=linux-ubuntu22.04-x86_64_v3/ywgkbte +## + + +module-whatis {libssh2 is a client-side C library implementing the SSH2 protocol} + +proc ModulesHelp { } { + puts stderr {Name : libssh2} + puts stderr {Version: 1.11.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {libssh2 is a client-side C library implementing the SSH2 protocol} +} + +conflict libssh2 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libssh2-1.11.1-ywgkbtenz6lgewt2jcffqophv76luq7c/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libssh2-1.11.1-ywgkbtenz6lgewt2jcffqophv76luq7c/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libssh2-1.11.1-ywgkbtenz6lgewt2jcffqophv76luq7c/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libssh2-1.11.1-ywgkbtenz6lgewt2jcffqophv76luq7c/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libssh2-1.11.1-ywgkbtenz6lgewt2jcffqophv76luq7c/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libssh2-1.11.1-ywgkbtenz6lgewt2jcffqophv76luq7c/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libssh2-1.11.1-ywgkbtenz6lgewt2jcffqophv76luq7c/.} +setenv LIBSSH2_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libssh2-1.11.1-ywgkbtenz6lgewt2jcffqophv76luq7c} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libsvm/323 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libsvm/323 new file mode 100644 index 00000000..c8160fb4 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libsvm/323 @@ -0,0 +1,64 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.377672 +## +## libsvm@323%gcc@13.2.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/axnxmr6 +## + + +module-whatis {Libsvm is a simple, easy-to-use, and efficient software for SVM classification and regression.} + +proc ModulesHelp { } { + puts stderr {Name : libsvm} + puts stderr {Version: 323} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Libsvm is a simple, easy-to-use, and efficient software for SVM} + puts stderr {classification and regression.} +} + +conflict libsvm + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/libsvm-323/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/libsvm-323/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/libsvm-323/.} +setenv LIBSVM_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libsvm-323-axnxmr6ena5ilvhdahaujsfsiqg27noj} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libszip/2.1.1 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libszip/2.1.1 new file mode 100644 index 00000000..453c1090 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libszip/2.1.1 @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.442323 +## +## libszip@2.1.1%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/kmt2tov +## +## Configure options: --enable-production --enable-shared --enable-static --enable-encoding +## + + +module-whatis {Szip is an implementation of the extended-Rice lossless compression algorithm.} + +proc ModulesHelp { } { + puts stderr {Name : libszip} + puts stderr {Version: 2.1.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Szip is an implementation of the extended-Rice lossless compression} + puts stderr {algorithm. It provides lossless compression of scientific data, and is} + puts stderr {provided with HDF software products.} +} + +conflict libszip + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/libszip-2.1.1/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/libszip-2.1.1/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/libszip-2.1.1/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/libszip-2.1.1/include} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/libszip-2.1.1/.} +setenv LIBSZIP_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libszip-2.1.1-kmt2tov3z2wkl4tlsslzkezyi7lfwnuy} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libtheora/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libtheora/.modulerc new file mode 100644 index 00000000..3820111c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libtheora/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libtheora/1.1.1-qya2iit diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libtheora/1.1.1-qya2iit b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libtheora/1.1.1-qya2iit new file mode 100644 index 00000000..9dfcd9c4 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libtheora/1.1.1-qya2iit @@ -0,0 +1,66 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.509671 +## +## libtheora@1.1.1%gcc@11.4.0~doc build_system=autotools patches=d9bb5a9,e01511a,e01ef71,ff8478d arch=linux-ubuntu22.04-x86_64_v3/qya2iit +## + + +module-whatis {Theora Video Compression.} + +proc ModulesHelp { } { + puts stderr {Name : libtheora} + puts stderr {Version: 1.1.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Theora Video Compression.} +} + +conflict libtheora + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libtheora-1.1.1-qya2iitjr2ymffx6kogijneoki3fouxg/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libtheora-1.1.1-qya2iitjr2ymffx6kogijneoki3fouxg/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libtheora-1.1.1-qya2iitjr2ymffx6kogijneoki3fouxg/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libtheora-1.1.1-qya2iitjr2ymffx6kogijneoki3fouxg/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libtheora-1.1.1-qya2iitjr2ymffx6kogijneoki3fouxg/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libtheora-1.1.1-qya2iitjr2ymffx6kogijneoki3fouxg/.} +setenv LIBTHEORA_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libtheora-1.1.1-qya2iitjr2ymffx6kogijneoki3fouxg} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libtiff/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libtiff/.modulerc new file mode 100644 index 00000000..2748d266 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libtiff/.modulerc @@ -0,0 +1,4 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libtiff/4.7.0-gboozwa +module-hide --soft --hidden-loaded libtiff/4.7.0-lb74ztd +module-hide --soft --hidden-loaded libtiff/4.7.0-c2zwvvw diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libtiff/4.7.0-c2zwvvw b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libtiff/4.7.0-c2zwvvw new file mode 100644 index 00000000..9737bb27 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libtiff/4.7.0-c2zwvvw @@ -0,0 +1,67 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2024-12-19 13:36:45.079427 +## +## libtiff@4.7.0%gcc@13.2.0+ccitt~ipo~jbig+jpeg~jpeg12~lerc~libdeflate+logluv~lzma+lzw+next~old-jpeg~opengl+packbits~pic~pixarlog+shared+thunder~webp+zlib~zstd build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/c2zwvvw +## + + +module-whatis {LibTIFF - Tag Image File Format (TIFF) Library and Utilities.} + +proc ModulesHelp { } { + puts stderr {Name : libtiff} + puts stderr {Version: 4.7.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {LibTIFF - Tag Image File Format (TIFF) Library and Utilities.} +} + +conflict libtiff + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libtiff-4.7.0-c2zwvvwrtni63x6xqmnt2npmayiqx5qw/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libtiff-4.7.0-c2zwvvwrtni63x6xqmnt2npmayiqx5qw/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libtiff-4.7.0-c2zwvvwrtni63x6xqmnt2npmayiqx5qw/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libtiff-4.7.0-c2zwvvwrtni63x6xqmnt2npmayiqx5qw/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libtiff-4.7.0-c2zwvvwrtni63x6xqmnt2npmayiqx5qw/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libtiff-4.7.0-c2zwvvwrtni63x6xqmnt2npmayiqx5qw/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libtiff-4.7.0-c2zwvvwrtni63x6xqmnt2npmayiqx5qw/.} +setenv LIBTIFF_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libtiff-4.7.0-c2zwvvwrtni63x6xqmnt2npmayiqx5qw} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libtiff/4.7.0-gboozwa b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libtiff/4.7.0-gboozwa new file mode 100644 index 00000000..6770066d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libtiff/4.7.0-gboozwa @@ -0,0 +1,67 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.530926 +## +## libtiff@4.7.0%gcc@11.4.0+ccitt~ipo~jbig+jpeg~jpeg12~lerc~libdeflate+logluv~lzma+lzw+next~old-jpeg~opengl+packbits~pic~pixarlog+shared+thunder~webp+zlib~zstd build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/gboozwa +## + + +module-whatis {LibTIFF - Tag Image File Format (TIFF) Library and Utilities.} + +proc ModulesHelp { } { + puts stderr {Name : libtiff} + puts stderr {Version: 4.7.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {LibTIFF - Tag Image File Format (TIFF) Library and Utilities.} +} + +conflict libtiff + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libtiff-4.7.0-gboozwascrameul5qs7halttarwsb2sb/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libtiff-4.7.0-gboozwascrameul5qs7halttarwsb2sb/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libtiff-4.7.0-gboozwascrameul5qs7halttarwsb2sb/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libtiff-4.7.0-gboozwascrameul5qs7halttarwsb2sb/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libtiff-4.7.0-gboozwascrameul5qs7halttarwsb2sb/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libtiff-4.7.0-gboozwascrameul5qs7halttarwsb2sb/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libtiff-4.7.0-gboozwascrameul5qs7halttarwsb2sb/.} +setenv LIBTIFF_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libtiff-4.7.0-gboozwascrameul5qs7halttarwsb2sb} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libtiff/4.7.0-lb74ztd b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libtiff/4.7.0-lb74ztd new file mode 100644 index 00000000..f65198a0 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libtiff/4.7.0-lb74ztd @@ -0,0 +1,67 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.551626 +## +## libtiff@4.7.0%gcc@13.2.0+ccitt~ipo~jbig+jpeg~jpeg12~lerc~libdeflate+logluv~lzma+lzw+next~old-jpeg~opengl+packbits~pic~pixarlog+shared+thunder~webp+zlib~zstd build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/lb74ztd +## + + +module-whatis {LibTIFF - Tag Image File Format (TIFF) Library and Utilities.} + +proc ModulesHelp { } { + puts stderr {Name : libtiff} + puts stderr {Version: 4.7.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {LibTIFF - Tag Image File Format (TIFF) Library and Utilities.} +} + +conflict libtiff + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libtiff-4.7.0-lb74ztdsur3bwwmjvlw23txtqfwpq2rp/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libtiff-4.7.0-lb74ztdsur3bwwmjvlw23txtqfwpq2rp/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libtiff-4.7.0-lb74ztdsur3bwwmjvlw23txtqfwpq2rp/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libtiff-4.7.0-lb74ztdsur3bwwmjvlw23txtqfwpq2rp/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libtiff-4.7.0-lb74ztdsur3bwwmjvlw23txtqfwpq2rp/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libtiff-4.7.0-lb74ztdsur3bwwmjvlw23txtqfwpq2rp/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libtiff-4.7.0-lb74ztdsur3bwwmjvlw23txtqfwpq2rp/.} +setenv LIBTIFF_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libtiff-4.7.0-lb74ztdsur3bwwmjvlw23txtqfwpq2rp} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libtirpc/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libtirpc/.modulerc new file mode 100644 index 00000000..1bfb1d80 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libtirpc/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libtirpc/1.3.3-dfw5ayx +module-hide --soft --hidden-loaded libtirpc/1.3.3-qtskuyg diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libtirpc/1.3.3-dfw5ayx b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libtirpc/1.3.3-dfw5ayx new file mode 100644 index 00000000..797cc632 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libtirpc/1.3.3-dfw5ayx @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.560651 +## +## libtirpc@1.3.3%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/dfw5ayx +## + + +module-whatis {Libtirpc is a port of Suns Transport-Independent RPC library to Linux.} + +proc ModulesHelp { } { + puts stderr {Name : libtirpc} + puts stderr {Version: 1.3.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Libtirpc is a port of Suns Transport-Independent RPC library to Linux.} +} + +conflict libtirpc + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libtirpc-1.3.3-dfw5ayxyhgvj6q3coax5fzr247zc2ppy/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libtirpc-1.3.3-dfw5ayxyhgvj6q3coax5fzr247zc2ppy/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libtirpc-1.3.3-dfw5ayxyhgvj6q3coax5fzr247zc2ppy/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libtirpc-1.3.3-dfw5ayxyhgvj6q3coax5fzr247zc2ppy/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libtirpc-1.3.3-dfw5ayxyhgvj6q3coax5fzr247zc2ppy/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libtirpc-1.3.3-dfw5ayxyhgvj6q3coax5fzr247zc2ppy/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libtirpc-1.3.3-dfw5ayxyhgvj6q3coax5fzr247zc2ppy/.} +setenv LIBTIRPC_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libtirpc-1.3.3-dfw5ayxyhgvj6q3coax5fzr247zc2ppy} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libtirpc/1.3.3-qtskuyg b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libtirpc/1.3.3-qtskuyg new file mode 100644 index 00000000..8b04a024 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libtirpc/1.3.3-qtskuyg @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.572393 +## +## libtirpc@1.3.3%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/qtskuyg +## + + +module-whatis {Libtirpc is a port of Suns Transport-Independent RPC library to Linux.} + +proc ModulesHelp { } { + puts stderr {Name : libtirpc} + puts stderr {Version: 1.3.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Libtirpc is a port of Suns Transport-Independent RPC library to Linux.} +} + +conflict libtirpc + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libtirpc-1.3.3-qtskuygbscdmglcpphmj3si54lech6i7/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libtirpc-1.3.3-qtskuygbscdmglcpphmj3si54lech6i7/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libtirpc-1.3.3-qtskuygbscdmglcpphmj3si54lech6i7/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libtirpc-1.3.3-qtskuygbscdmglcpphmj3si54lech6i7/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libtirpc-1.3.3-qtskuygbscdmglcpphmj3si54lech6i7/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libtirpc-1.3.3-qtskuygbscdmglcpphmj3si54lech6i7/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libtirpc-1.3.3-qtskuygbscdmglcpphmj3si54lech6i7/.} +setenv LIBTIRPC_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libtirpc-1.3.3-qtskuygbscdmglcpphmj3si54lech6i7} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libunistring/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libunistring/.modulerc new file mode 100644 index 00000000..65863934 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libunistring/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libunistring/1.2-2n5dfdp diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libunistring/1.2-2n5dfdp b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libunistring/1.2-2n5dfdp new file mode 100644 index 00000000..cd10ea12 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libunistring/1.2-2n5dfdp @@ -0,0 +1,66 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.620236 +## +## libunistring@1.2%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/2n5dfdp +## + + +module-whatis {This library provides functions for manipulating Unicode strings and for manipulating C strings according to the Unicode standard.} + +proc ModulesHelp { } { + puts stderr {Name : libunistring} + puts stderr {Version: 1.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {This library provides functions for manipulating Unicode strings and for} + puts stderr {manipulating C strings according to the Unicode standard.} +} + +conflict libunistring + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libunistring-1.2-2n5dfdp6cylekda2tfu5peql7zdjx5qc/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libunistring-1.2-2n5dfdp6cylekda2tfu5peql7zdjx5qc/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libunistring-1.2-2n5dfdp6cylekda2tfu5peql7zdjx5qc/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libunistring-1.2-2n5dfdp6cylekda2tfu5peql7zdjx5qc/include} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libunistring-1.2-2n5dfdp6cylekda2tfu5peql7zdjx5qc/.} +setenv LIBUNISTRING_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libunistring-1.2-2n5dfdp6cylekda2tfu5peql7zdjx5qc} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libunwind/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libunwind/.modulerc new file mode 100644 index 00000000..d325fa16 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libunwind/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libunwind/1.8.1-czc4tue +module-hide --soft --hidden-loaded libunwind/1.8.1-zy2xto3 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libunwind/1.8.1-czc4tue b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libunwind/1.8.1-czc4tue new file mode 100644 index 00000000..276a648f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libunwind/1.8.1-czc4tue @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.628547 +## +## libunwind@1.8.1%gcc@11.4.0~block_signals~conservative_checks~cxx_exceptions~debug~debug_frame+docs~pic+tests+weak_backtrace~xz~zlib build_system=autotools components=none libs=shared,static arch=linux-ubuntu22.04-x86_64_v3/czc4tue +## +## Configure options: --enable-documentation --enable-shared --enable-static --enable-tests --disable-block-signals --disable-ptrace --disable-setjump --disable-coredump --disable-conservative-checks --disable-cxx-exceptions --disable-debug --disable-debug-frame --disable-minidebuginfo --enable-weak-backtrace --disable-zlibdebuginfo +## + + +module-whatis {A portable and efficient C programming interface (API) to determine the call-chain of a program.} + +proc ModulesHelp { } { + puts stderr {Name : libunwind} + puts stderr {Version: 1.8.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A portable and efficient C programming interface (API) to determine the} + puts stderr {call-chain of a program.} +} + +conflict libunwind + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libunwind-1.8.1-czc4tueqs33yy673jc7655teusdlaymd/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libunwind-1.8.1-czc4tueqs33yy673jc7655teusdlaymd/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libunwind-1.8.1-czc4tueqs33yy673jc7655teusdlaymd/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libunwind-1.8.1-czc4tueqs33yy673jc7655teusdlaymd/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libunwind-1.8.1-czc4tueqs33yy673jc7655teusdlaymd/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libunwind-1.8.1-czc4tueqs33yy673jc7655teusdlaymd/.} +setenv LIBUNWIND_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libunwind-1.8.1-czc4tueqs33yy673jc7655teusdlaymd} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libunwind/1.8.1-zy2xto3 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libunwind/1.8.1-zy2xto3 new file mode 100644 index 00000000..398bbf00 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libunwind/1.8.1-zy2xto3 @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.635686 +## +## libunwind@1.8.1%gcc@13.2.0~block_signals~conservative_checks~cxx_exceptions~debug~debug_frame+docs~pic+tests+weak_backtrace~xz~zlib build_system=autotools components=none libs=shared,static arch=linux-ubuntu22.04-x86_64_v3/zy2xto3 +## +## Configure options: --enable-documentation --enable-shared --enable-static --enable-tests --disable-block-signals --disable-ptrace --disable-setjump --disable-coredump --disable-conservative-checks --disable-cxx-exceptions --disable-debug --disable-debug-frame --disable-minidebuginfo --enable-weak-backtrace --disable-zlibdebuginfo +## + + +module-whatis {A portable and efficient C programming interface (API) to determine the call-chain of a program.} + +proc ModulesHelp { } { + puts stderr {Name : libunwind} + puts stderr {Version: 1.8.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A portable and efficient C programming interface (API) to determine the} + puts stderr {call-chain of a program.} +} + +conflict libunwind + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libunwind-1.8.1-zy2xto3ouwb65ki23j6mgtkwmqzkmm7o/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libunwind-1.8.1-zy2xto3ouwb65ki23j6mgtkwmqzkmm7o/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libunwind-1.8.1-zy2xto3ouwb65ki23j6mgtkwmqzkmm7o/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libunwind-1.8.1-zy2xto3ouwb65ki23j6mgtkwmqzkmm7o/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libunwind-1.8.1-zy2xto3ouwb65ki23j6mgtkwmqzkmm7o/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libunwind-1.8.1-zy2xto3ouwb65ki23j6mgtkwmqzkmm7o/.} +setenv LIBUNWIND_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libunwind-1.8.1-zy2xto3ouwb65ki23j6mgtkwmqzkmm7o} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libuuid/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libuuid/.modulerc new file mode 100644 index 00000000..fc5935a8 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libuuid/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libuuid/1.0.3-434knir diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libuuid/1.0.3-434knir b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libuuid/1.0.3-434knir new file mode 100644 index 00000000..4a9a79ed --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libuuid/1.0.3-434knir @@ -0,0 +1,66 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.643800 +## +## libuuid@1.0.3%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/434knir +## + + +module-whatis {Portable uuid C library} + +proc ModulesHelp { } { + puts stderr {Name : libuuid} + puts stderr {Version: 1.0.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Portable uuid C library} +} + +conflict libuuid + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libuuid-1.0.3-434knirvmfecbxivuhvhnuhc7wuzdyga/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libuuid-1.0.3-434knirvmfecbxivuhvhnuhc7wuzdyga/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libuuid-1.0.3-434knirvmfecbxivuhvhnuhc7wuzdyga/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libuuid-1.0.3-434knirvmfecbxivuhvhnuhc7wuzdyga/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libuuid-1.0.3-434knirvmfecbxivuhvhnuhc7wuzdyga/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libuuid-1.0.3-434knirvmfecbxivuhvhnuhc7wuzdyga/.} +setenv LIBUUID_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libuuid-1.0.3-434knirvmfecbxivuhvhnuhc7wuzdyga} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libvdwxc/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libvdwxc/.modulerc new file mode 100644 index 00000000..9efebf52 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libvdwxc/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libvdwxc/0.4.0-vnemmfu diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libvdwxc/0.4.0-vnemmfu b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libvdwxc/0.4.0-vnemmfu new file mode 100644 index 00000000..76a4500e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libvdwxc/0.4.0-vnemmfu @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.653176 +## +## libvdwxc@0.4.0%gcc@13.2.0~mpi~pfft build_system=autotools patches=efe99ea arch=linux-ubuntu22.04-x86_64_v3/vnemmfu +## +## Configure options: --without-pfft MPICC= MPIFC= --without-mpi +## + + +module-whatis {Portable C library of density functionals with van der Waals interactions for density functional theory} + +proc ModulesHelp { } { + puts stderr {Name : libvdwxc} + puts stderr {Version: 0.4.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Portable C library of density functionals with van der Waals} + puts stderr {interactions for density functional theory} +} + +conflict libvdwxc + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libvdwxc-0.4.0-vnemmfubtf5xk74i45byhaucpmpuyvjv/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libvdwxc-0.4.0-vnemmfubtf5xk74i45byhaucpmpuyvjv/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libvdwxc-0.4.0-vnemmfubtf5xk74i45byhaucpmpuyvjv/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libvdwxc-0.4.0-vnemmfubtf5xk74i45byhaucpmpuyvjv/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libvdwxc-0.4.0-vnemmfubtf5xk74i45byhaucpmpuyvjv/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libvdwxc-0.4.0-vnemmfubtf5xk74i45byhaucpmpuyvjv/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libvdwxc-0.4.0-vnemmfubtf5xk74i45byhaucpmpuyvjv/.} +setenv LIBVDWXC_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libvdwxc-0.4.0-vnemmfubtf5xk74i45byhaucpmpuyvjv} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libx11/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libx11/.modulerc new file mode 100644 index 00000000..1441aa01 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libx11/.modulerc @@ -0,0 +1,5 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libx11/1.8.10-unej5ji +module-hide --soft --hidden-loaded libx11/1.8.10-4ysbix3 +module-hide --soft --hidden-loaded libx11/1.8.10-n3dtxzp +module-hide --soft --hidden-loaded libx11/1.8.10-dufv2eo diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libx11/1.8.10-4ysbix3 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libx11/1.8.10-4ysbix3 new file mode 100644 index 00000000..f43d1938 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libx11/1.8.10-4ysbix3 @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.684383 +## +## libx11@1.8.10%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/4ysbix3 +## + + +module-whatis {libX11 - Core X11 protocol client library.} + +proc ModulesHelp { } { + puts stderr {Name : libx11} + puts stderr {Version: 1.8.10} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {libX11 - Core X11 protocol client library.} +} + +conflict libx11 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libx11-1.8.10-4ysbix3phyqds2vcfaitukap5yprk6rq/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libx11-1.8.10-4ysbix3phyqds2vcfaitukap5yprk6rq/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libx11-1.8.10-4ysbix3phyqds2vcfaitukap5yprk6rq/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libx11-1.8.10-4ysbix3phyqds2vcfaitukap5yprk6rq/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libx11-1.8.10-4ysbix3phyqds2vcfaitukap5yprk6rq/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libx11-1.8.10-4ysbix3phyqds2vcfaitukap5yprk6rq/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libx11-1.8.10-4ysbix3phyqds2vcfaitukap5yprk6rq/.} +setenv LIBX11_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libx11-1.8.10-4ysbix3phyqds2vcfaitukap5yprk6rq} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libx11/1.8.10-dufv2eo b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libx11/1.8.10-dufv2eo new file mode 100644 index 00000000..e45ba95b --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libx11/1.8.10-dufv2eo @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.705460 +## +## libx11@1.8.10%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/dufv2eo +## + + +module-whatis {libX11 - Core X11 protocol client library.} + +proc ModulesHelp { } { + puts stderr {Name : libx11} + puts stderr {Version: 1.8.10} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {libX11 - Core X11 protocol client library.} +} + +conflict libx11 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libx11-1.8.10-dufv2eokil27hgb3ao7tuotsswt65llr/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libx11-1.8.10-dufv2eokil27hgb3ao7tuotsswt65llr/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libx11-1.8.10-dufv2eokil27hgb3ao7tuotsswt65llr/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libx11-1.8.10-dufv2eokil27hgb3ao7tuotsswt65llr/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libx11-1.8.10-dufv2eokil27hgb3ao7tuotsswt65llr/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libx11-1.8.10-dufv2eokil27hgb3ao7tuotsswt65llr/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libx11-1.8.10-dufv2eokil27hgb3ao7tuotsswt65llr/.} +setenv LIBX11_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libx11-1.8.10-dufv2eokil27hgb3ao7tuotsswt65llr} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libx11/1.8.10-n3dtxzp b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libx11/1.8.10-n3dtxzp new file mode 100644 index 00000000..71b8b520 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libx11/1.8.10-n3dtxzp @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.694960 +## +## libx11@1.8.10%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/n3dtxzp +## + + +module-whatis {libX11 - Core X11 protocol client library.} + +proc ModulesHelp { } { + puts stderr {Name : libx11} + puts stderr {Version: 1.8.10} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {libX11 - Core X11 protocol client library.} +} + +conflict libx11 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libx11-1.8.10-n3dtxzp75boymvcyqfvknxqtrputklxn/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libx11-1.8.10-n3dtxzp75boymvcyqfvknxqtrputklxn/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libx11-1.8.10-n3dtxzp75boymvcyqfvknxqtrputklxn/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libx11-1.8.10-n3dtxzp75boymvcyqfvknxqtrputklxn/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libx11-1.8.10-n3dtxzp75boymvcyqfvknxqtrputklxn/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libx11-1.8.10-n3dtxzp75boymvcyqfvknxqtrputklxn/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libx11-1.8.10-n3dtxzp75boymvcyqfvknxqtrputklxn/.} +setenv LIBX11_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libx11-1.8.10-n3dtxzp75boymvcyqfvknxqtrputklxn} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libx11/1.8.10-unej5ji b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libx11/1.8.10-unej5ji new file mode 100644 index 00000000..4624441e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libx11/1.8.10-unej5ji @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.674675 +## +## libx11@1.8.10%gcc@11.4.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/unej5ji +## + + +module-whatis {libX11 - Core X11 protocol client library.} + +proc ModulesHelp { } { + puts stderr {Name : libx11} + puts stderr {Version: 1.8.10} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {libX11 - Core X11 protocol client library.} +} + +conflict libx11 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libx11-1.8.10-unej5ji4ptyf5ujs2ovph2sfuxtdmdqc/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libx11-1.8.10-unej5ji4ptyf5ujs2ovph2sfuxtdmdqc/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libx11-1.8.10-unej5ji4ptyf5ujs2ovph2sfuxtdmdqc/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libx11-1.8.10-unej5ji4ptyf5ujs2ovph2sfuxtdmdqc/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libx11-1.8.10-unej5ji4ptyf5ujs2ovph2sfuxtdmdqc/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libx11-1.8.10-unej5ji4ptyf5ujs2ovph2sfuxtdmdqc/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libx11-1.8.10-unej5ji4ptyf5ujs2ovph2sfuxtdmdqc/.} +setenv LIBX11_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libx11-1.8.10-unej5ji4ptyf5ujs2ovph2sfuxtdmdqc} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxau/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxau/.modulerc new file mode 100644 index 00000000..b5d310f0 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxau/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libxau/1.0.11-u2743i7 +module-hide --soft --hidden-loaded libxau/1.0.11-eslnmko diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxau/1.0.11-eslnmko b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxau/1.0.11-eslnmko new file mode 100644 index 00000000..f3957424 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxau/1.0.11-eslnmko @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.723293 +## +## libxau@1.0.11%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/eslnmko +## + + +module-whatis {The libXau package contains a library implementing the X11 Authorization Protocol. This is useful for restricting client access to the display.} + +proc ModulesHelp { } { + puts stderr {Name : libxau} + puts stderr {Version: 1.0.11} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The libXau package contains a library implementing the X11 Authorization} + puts stderr {Protocol. This is useful for restricting client access to the display.} +} + +conflict libxau + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxau-1.0.11-eslnmko6g4xu65gxbxnzc533shfqdld3/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxau-1.0.11-eslnmko6g4xu65gxbxnzc533shfqdld3/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxau-1.0.11-eslnmko6g4xu65gxbxnzc533shfqdld3/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxau-1.0.11-eslnmko6g4xu65gxbxnzc533shfqdld3/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxau-1.0.11-eslnmko6g4xu65gxbxnzc533shfqdld3/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxau-1.0.11-eslnmko6g4xu65gxbxnzc533shfqdld3/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxau-1.0.11-eslnmko6g4xu65gxbxnzc533shfqdld3/.} +setenv LIBXAU_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxau-1.0.11-eslnmko6g4xu65gxbxnzc533shfqdld3} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxau/1.0.11-u2743i7 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxau/1.0.11-u2743i7 new file mode 100644 index 00000000..68134687 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxau/1.0.11-u2743i7 @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.715968 +## +## libxau@1.0.11%gcc@11.4.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/u2743i7 +## + + +module-whatis {The libXau package contains a library implementing the X11 Authorization Protocol. This is useful for restricting client access to the display.} + +proc ModulesHelp { } { + puts stderr {Name : libxau} + puts stderr {Version: 1.0.11} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The libXau package contains a library implementing the X11 Authorization} + puts stderr {Protocol. This is useful for restricting client access to the display.} +} + +conflict libxau + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxau-1.0.11-u2743i72zdicdlbsl5eqqvbwrlwsmvo3/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxau-1.0.11-u2743i72zdicdlbsl5eqqvbwrlwsmvo3/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxau-1.0.11-u2743i72zdicdlbsl5eqqvbwrlwsmvo3/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxau-1.0.11-u2743i72zdicdlbsl5eqqvbwrlwsmvo3/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxau-1.0.11-u2743i72zdicdlbsl5eqqvbwrlwsmvo3/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxau-1.0.11-u2743i72zdicdlbsl5eqqvbwrlwsmvo3/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxau-1.0.11-u2743i72zdicdlbsl5eqqvbwrlwsmvo3/.} +setenv LIBXAU_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxau-1.0.11-u2743i72zdicdlbsl5eqqvbwrlwsmvo3} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxc/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxc/.modulerc new file mode 100644 index 00000000..c5c059dc --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxc/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libxc/3.0.0-3lvpmdg +module-hide --soft --hidden-loaded libxc/6.2.2-2j5sare diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxc/3.0.0-3lvpmdg b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxc/3.0.0-3lvpmdg new file mode 100644 index 00000000..a8e8b975 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxc/3.0.0-3lvpmdg @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.731541 +## +## libxc@3.0.0%gcc@13.2.0~cuda+shared build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/3lvpmdg +## +## Configure options: --enable-shared --disable-cuda +## + + +module-whatis {Libxc is a library of exchange-correlation functionals for density-functional theory.} + +proc ModulesHelp { } { + puts stderr {Name : libxc} + puts stderr {Version: 3.0.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Libxc is a library of exchange-correlation functionals for density-} + puts stderr {functional theory.} +} + +conflict libxc + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxc-3.0.0-3lvpmdgxgxpktqd3sjbbuzuztx4kyuf6/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxc-3.0.0-3lvpmdgxgxpktqd3sjbbuzuztx4kyuf6/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxc-3.0.0-3lvpmdgxgxpktqd3sjbbuzuztx4kyuf6/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxc-3.0.0-3lvpmdgxgxpktqd3sjbbuzuztx4kyuf6/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxc-3.0.0-3lvpmdgxgxpktqd3sjbbuzuztx4kyuf6/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxc-3.0.0-3lvpmdgxgxpktqd3sjbbuzuztx4kyuf6/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxc-3.0.0-3lvpmdgxgxpktqd3sjbbuzuztx4kyuf6/.} +setenv LIBXC_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxc-3.0.0-3lvpmdgxgxpktqd3sjbbuzuztx4kyuf6} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxc/6.1.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxc/6.1.0 new file mode 100644 index 00000000..57adf78c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxc/6.1.0 @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.752197 +## +## libxc@6.1.0%gcc@13.2.0~cuda~kxc~lxc+shared build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/u2flnhg +## +## Configure options: --enable-shared --disable-cuda +## + + +module-whatis {Libxc is a library of exchange-correlation functionals for density-functional theory.} + +proc ModulesHelp { } { + puts stderr {Name : libxc} + puts stderr {Version: 6.1.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Libxc is a library of exchange-correlation functionals for density-} + puts stderr {functional theory.} +} + +conflict libxc + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/libxc-6.1.0/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/libxc-6.1.0/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/libxc-6.1.0/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/libxc-6.1.0/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/libxc-6.1.0/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/libxc-6.1.0/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/libxc-6.1.0/.} +setenv LIBXC_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxc-6.1.0-u2flnhgalcsn6fspqxjqvhp7mosbl7oy} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxc/6.2.2-2j5sare b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxc/6.2.2-2j5sare new file mode 100644 index 00000000..dd757b78 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxc/6.2.2-2j5sare @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.820479 +## +## libxc@6.2.2%gcc@13.2.0~cuda~kxc~lxc+shared build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/2j5sare +## +## Configure options: --enable-shared --disable-cuda +## + + +module-whatis {Libxc is a library of exchange-correlation functionals for density-functional theory.} + +proc ModulesHelp { } { + puts stderr {Name : libxc} + puts stderr {Version: 6.2.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Libxc is a library of exchange-correlation functionals for density-} + puts stderr {functional theory.} +} + +conflict libxc + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxc-6.2.2-2j5sareibuk2shfb7wepzibs3hlsufow/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxc-6.2.2-2j5sareibuk2shfb7wepzibs3hlsufow/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxc-6.2.2-2j5sareibuk2shfb7wepzibs3hlsufow/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxc-6.2.2-2j5sareibuk2shfb7wepzibs3hlsufow/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxc-6.2.2-2j5sareibuk2shfb7wepzibs3hlsufow/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxc-6.2.2-2j5sareibuk2shfb7wepzibs3hlsufow/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxc-6.2.2-2j5sareibuk2shfb7wepzibs3hlsufow/.} +setenv LIBXC_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxc-6.2.2-2j5sareibuk2shfb7wepzibs3hlsufow} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxcb/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxcb/.modulerc new file mode 100644 index 00000000..494f6110 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxcb/.modulerc @@ -0,0 +1,5 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libxcb/1.17.0-vistj7z +module-hide --soft --hidden-loaded libxcb/1.17.0-muhfowi +module-hide --soft --hidden-loaded libxcb/1.17.0-7cm2sa3 +module-hide --soft --hidden-loaded libxcb/1.17.0-3qjaxt7 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxcb/1.17.0-3qjaxt7 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxcb/1.17.0-3qjaxt7 new file mode 100644 index 00000000..c6b637ea --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxcb/1.17.0-3qjaxt7 @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.856854 +## +## libxcb@1.17.0%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/3qjaxt7 +## + + +module-whatis {The X protocol C-language Binding (XCB) is a replacement for Xlib featuring a small footprint, latency hiding, direct access to the protocol, improved threading support, and extensibility.} + +proc ModulesHelp { } { + puts stderr {Name : libxcb} + puts stderr {Version: 1.17.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The X protocol C-language Binding (XCB) is a replacement for Xlib} + puts stderr {featuring a small footprint, latency hiding, direct access to the} + puts stderr {protocol, improved threading support, and extensibility.} +} + +conflict libxcb + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxcb-1.17.0-3qjaxt7usr7ek35fiu3fk6hhfn4bfbnf/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxcb-1.17.0-3qjaxt7usr7ek35fiu3fk6hhfn4bfbnf/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxcb-1.17.0-3qjaxt7usr7ek35fiu3fk6hhfn4bfbnf/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxcb-1.17.0-3qjaxt7usr7ek35fiu3fk6hhfn4bfbnf/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxcb-1.17.0-3qjaxt7usr7ek35fiu3fk6hhfn4bfbnf/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxcb-1.17.0-3qjaxt7usr7ek35fiu3fk6hhfn4bfbnf/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxcb-1.17.0-3qjaxt7usr7ek35fiu3fk6hhfn4bfbnf/.} +setenv LIBXCB_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxcb-1.17.0-3qjaxt7usr7ek35fiu3fk6hhfn4bfbnf} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxcb/1.17.0-7cm2sa3 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxcb/1.17.0-7cm2sa3 new file mode 100644 index 00000000..1534ad5a --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxcb/1.17.0-7cm2sa3 @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.847227 +## +## libxcb@1.17.0%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/7cm2sa3 +## + + +module-whatis {The X protocol C-language Binding (XCB) is a replacement for Xlib featuring a small footprint, latency hiding, direct access to the protocol, improved threading support, and extensibility.} + +proc ModulesHelp { } { + puts stderr {Name : libxcb} + puts stderr {Version: 1.17.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The X protocol C-language Binding (XCB) is a replacement for Xlib} + puts stderr {featuring a small footprint, latency hiding, direct access to the} + puts stderr {protocol, improved threading support, and extensibility.} +} + +conflict libxcb + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxcb-1.17.0-7cm2sa3hv2ppzi7uogpduwcyrxf6ts5h/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxcb-1.17.0-7cm2sa3hv2ppzi7uogpduwcyrxf6ts5h/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxcb-1.17.0-7cm2sa3hv2ppzi7uogpduwcyrxf6ts5h/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxcb-1.17.0-7cm2sa3hv2ppzi7uogpduwcyrxf6ts5h/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxcb-1.17.0-7cm2sa3hv2ppzi7uogpduwcyrxf6ts5h/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxcb-1.17.0-7cm2sa3hv2ppzi7uogpduwcyrxf6ts5h/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxcb-1.17.0-7cm2sa3hv2ppzi7uogpduwcyrxf6ts5h/.} +setenv LIBXCB_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxcb-1.17.0-7cm2sa3hv2ppzi7uogpduwcyrxf6ts5h} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxcb/1.17.0-muhfowi b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxcb/1.17.0-muhfowi new file mode 100644 index 00000000..c773d934 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxcb/1.17.0-muhfowi @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.837328 +## +## libxcb@1.17.0%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/muhfowi +## + + +module-whatis {The X protocol C-language Binding (XCB) is a replacement for Xlib featuring a small footprint, latency hiding, direct access to the protocol, improved threading support, and extensibility.} + +proc ModulesHelp { } { + puts stderr {Name : libxcb} + puts stderr {Version: 1.17.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The X protocol C-language Binding (XCB) is a replacement for Xlib} + puts stderr {featuring a small footprint, latency hiding, direct access to the} + puts stderr {protocol, improved threading support, and extensibility.} +} + +conflict libxcb + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxcb-1.17.0-muhfowifp3yrje7x6xhaubu75aa2lzzm/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxcb-1.17.0-muhfowifp3yrje7x6xhaubu75aa2lzzm/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxcb-1.17.0-muhfowifp3yrje7x6xhaubu75aa2lzzm/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxcb-1.17.0-muhfowifp3yrje7x6xhaubu75aa2lzzm/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxcb-1.17.0-muhfowifp3yrje7x6xhaubu75aa2lzzm/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxcb-1.17.0-muhfowifp3yrje7x6xhaubu75aa2lzzm/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxcb-1.17.0-muhfowifp3yrje7x6xhaubu75aa2lzzm/.} +setenv LIBXCB_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxcb-1.17.0-muhfowifp3yrje7x6xhaubu75aa2lzzm} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxcb/1.17.0-vistj7z b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxcb/1.17.0-vistj7z new file mode 100644 index 00000000..ef497abb --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxcb/1.17.0-vistj7z @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.828568 +## +## libxcb@1.17.0%gcc@11.4.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/vistj7z +## + + +module-whatis {The X protocol C-language Binding (XCB) is a replacement for Xlib featuring a small footprint, latency hiding, direct access to the protocol, improved threading support, and extensibility.} + +proc ModulesHelp { } { + puts stderr {Name : libxcb} + puts stderr {Version: 1.17.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The X protocol C-language Binding (XCB) is a replacement for Xlib} + puts stderr {featuring a small footprint, latency hiding, direct access to the} + puts stderr {protocol, improved threading support, and extensibility.} +} + +conflict libxcb + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxcb-1.17.0-vistj7z6hzdhdxsu2ubmbunijrtjljve/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxcb-1.17.0-vistj7z6hzdhdxsu2ubmbunijrtjljve/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxcb-1.17.0-vistj7z6hzdhdxsu2ubmbunijrtjljve/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxcb-1.17.0-vistj7z6hzdhdxsu2ubmbunijrtjljve/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxcb-1.17.0-vistj7z6hzdhdxsu2ubmbunijrtjljve/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxcb-1.17.0-vistj7z6hzdhdxsu2ubmbunijrtjljve/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxcb-1.17.0-vistj7z6hzdhdxsu2ubmbunijrtjljve/.} +setenv LIBXCB_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxcb-1.17.0-vistj7z6hzdhdxsu2ubmbunijrtjljve} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxcrypt/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxcrypt/.modulerc new file mode 100644 index 00000000..78ef922d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxcrypt/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libxcrypt/4.4.35-yjmurvg +module-hide --soft --hidden-loaded libxcrypt/4.4.35-adkk6fx diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxcrypt/4.4.35-adkk6fx b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxcrypt/4.4.35-adkk6fx new file mode 100644 index 00000000..448ebeab --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxcrypt/4.4.35-adkk6fx @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.874450 +## +## libxcrypt@4.4.35%gcc@13.2.0~obsolete_api build_system=autotools patches=4885da3 arch=linux-ubuntu22.04-x86_64_v3/adkk6fx +## +## Configure options: ac_cv_path_python3_passlib=not found --disable-werror --disable-obsolete-api +## + + +module-whatis {libxcrypt is a modern library for one-way hashing of passwords.} + +proc ModulesHelp { } { + puts stderr {Name : libxcrypt} + puts stderr {Version: 4.4.35} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {libxcrypt is a modern library for one-way hashing of passwords.} +} + +conflict libxcrypt + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxcrypt-4.4.35-adkk6fx23wglhmr54zdgysteopagasbp/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxcrypt-4.4.35-adkk6fx23wglhmr54zdgysteopagasbp/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxcrypt-4.4.35-adkk6fx23wglhmr54zdgysteopagasbp/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxcrypt-4.4.35-adkk6fx23wglhmr54zdgysteopagasbp/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxcrypt-4.4.35-adkk6fx23wglhmr54zdgysteopagasbp/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxcrypt-4.4.35-adkk6fx23wglhmr54zdgysteopagasbp/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxcrypt-4.4.35-adkk6fx23wglhmr54zdgysteopagasbp/.} +setenv LIBXCRYPT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxcrypt-4.4.35-adkk6fx23wglhmr54zdgysteopagasbp} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxcrypt/4.4.35-yjmurvg b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxcrypt/4.4.35-yjmurvg new file mode 100644 index 00000000..56f98139 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxcrypt/4.4.35-yjmurvg @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.866535 +## +## libxcrypt@4.4.35%gcc@13.2.0~obsolete_api build_system=autotools patches=4885da3 arch=linux-ubuntu22.04-x86_64_v3/yjmurvg +## +## Configure options: ac_cv_path_python3_passlib=not found --disable-werror --disable-obsolete-api +## + + +module-whatis {libxcrypt is a modern library for one-way hashing of passwords.} + +proc ModulesHelp { } { + puts stderr {Name : libxcrypt} + puts stderr {Version: 4.4.35} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {libxcrypt is a modern library for one-way hashing of passwords.} +} + +conflict libxcrypt + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxcrypt-4.4.35-yjmurvgfmpmhmmng7uzmnai5omtnfnj5/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxcrypt-4.4.35-yjmurvgfmpmhmmng7uzmnai5omtnfnj5/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxcrypt-4.4.35-yjmurvgfmpmhmmng7uzmnai5omtnfnj5/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxcrypt-4.4.35-yjmurvgfmpmhmmng7uzmnai5omtnfnj5/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxcrypt-4.4.35-yjmurvgfmpmhmmng7uzmnai5omtnfnj5/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxcrypt-4.4.35-yjmurvgfmpmhmmng7uzmnai5omtnfnj5/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxcrypt-4.4.35-yjmurvgfmpmhmmng7uzmnai5omtnfnj5/.} +setenv LIBXCRYPT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxcrypt-4.4.35-yjmurvgfmpmhmmng7uzmnai5omtnfnj5} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxdmcp/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxdmcp/.modulerc new file mode 100644 index 00000000..a88da590 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxdmcp/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libxdmcp/1.1.5-2zxgmno +module-hide --soft --hidden-loaded libxdmcp/1.1.5-vvsollr diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxdmcp/1.1.5-2zxgmno b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxdmcp/1.1.5-2zxgmno new file mode 100644 index 00000000..1bf728b1 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxdmcp/1.1.5-2zxgmno @@ -0,0 +1,66 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.924520 +## +## libxdmcp@1.1.5%gcc@11.4.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/2zxgmno +## + + +module-whatis {libXdmcp - X Display Manager Control Protocol library.} + +proc ModulesHelp { } { + puts stderr {Name : libxdmcp} + puts stderr {Version: 1.1.5} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {libXdmcp - X Display Manager Control Protocol library.} +} + +conflict libxdmcp + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxdmcp-1.1.5-2zxgmnoceacq5eyhprwjk2x6e2s6edwm/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxdmcp-1.1.5-2zxgmnoceacq5eyhprwjk2x6e2s6edwm/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxdmcp-1.1.5-2zxgmnoceacq5eyhprwjk2x6e2s6edwm/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxdmcp-1.1.5-2zxgmnoceacq5eyhprwjk2x6e2s6edwm/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxdmcp-1.1.5-2zxgmnoceacq5eyhprwjk2x6e2s6edwm/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxdmcp-1.1.5-2zxgmnoceacq5eyhprwjk2x6e2s6edwm/.} +setenv LIBXDMCP_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxdmcp-1.1.5-2zxgmnoceacq5eyhprwjk2x6e2s6edwm} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxdmcp/1.1.5-vvsollr b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxdmcp/1.1.5-vvsollr new file mode 100644 index 00000000..65f75185 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxdmcp/1.1.5-vvsollr @@ -0,0 +1,66 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.932232 +## +## libxdmcp@1.1.5%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/vvsollr +## + + +module-whatis {libXdmcp - X Display Manager Control Protocol library.} + +proc ModulesHelp { } { + puts stderr {Name : libxdmcp} + puts stderr {Version: 1.1.5} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {libXdmcp - X Display Manager Control Protocol library.} +} + +conflict libxdmcp + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxdmcp-1.1.5-vvsollr3kmoremyozo77tp34mh7fcmar/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxdmcp-1.1.5-vvsollr3kmoremyozo77tp34mh7fcmar/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxdmcp-1.1.5-vvsollr3kmoremyozo77tp34mh7fcmar/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxdmcp-1.1.5-vvsollr3kmoremyozo77tp34mh7fcmar/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxdmcp-1.1.5-vvsollr3kmoremyozo77tp34mh7fcmar/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxdmcp-1.1.5-vvsollr3kmoremyozo77tp34mh7fcmar/.} +setenv LIBXDMCP_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxdmcp-1.1.5-vvsollr3kmoremyozo77tp34mh7fcmar} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxext/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxext/.modulerc new file mode 100644 index 00000000..8b253258 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxext/.modulerc @@ -0,0 +1,4 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libxext/1.3.6-tnhn7jm +module-hide --soft --hidden-loaded libxext/1.3.6-3duiiol +module-hide --soft --hidden-loaded libxext/1.3.6-qud7ofg diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxext/1.3.6-3duiiol b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxext/1.3.6-3duiiol new file mode 100644 index 00000000..6777c092 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxext/1.3.6-3duiiol @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.951503 +## +## libxext@1.3.6%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/3duiiol +## + + +module-whatis {libXext - library for common extensions to the X11 protocol.} + +proc ModulesHelp { } { + puts stderr {Name : libxext} + puts stderr {Version: 1.3.6} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {libXext - library for common extensions to the X11 protocol.} +} + +conflict libxext + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxext-1.3.6-3duiiolvwwymegt3sflrjtot4igyjrqx/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxext-1.3.6-3duiiolvwwymegt3sflrjtot4igyjrqx/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxext-1.3.6-3duiiolvwwymegt3sflrjtot4igyjrqx/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxext-1.3.6-3duiiolvwwymegt3sflrjtot4igyjrqx/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxext-1.3.6-3duiiolvwwymegt3sflrjtot4igyjrqx/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxext-1.3.6-3duiiolvwwymegt3sflrjtot4igyjrqx/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxext-1.3.6-3duiiolvwwymegt3sflrjtot4igyjrqx/.} +prepend-path XLOCALEDIR {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libx11-1.8.10-4ysbix3phyqds2vcfaitukap5yprk6rq/share/X11/locale} +setenv LIBXEXT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxext-1.3.6-3duiiolvwwymegt3sflrjtot4igyjrqx} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxext/1.3.6-qud7ofg b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxext/1.3.6-qud7ofg new file mode 100644 index 00000000..23af5450 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxext/1.3.6-qud7ofg @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.962740 +## +## libxext@1.3.6%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/qud7ofg +## + + +module-whatis {libXext - library for common extensions to the X11 protocol.} + +proc ModulesHelp { } { + puts stderr {Name : libxext} + puts stderr {Version: 1.3.6} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {libXext - library for common extensions to the X11 protocol.} +} + +conflict libxext + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxext-1.3.6-qud7ofgzatwlsznuk5pmbcoq5z2fy53a/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxext-1.3.6-qud7ofgzatwlsznuk5pmbcoq5z2fy53a/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxext-1.3.6-qud7ofgzatwlsznuk5pmbcoq5z2fy53a/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxext-1.3.6-qud7ofgzatwlsznuk5pmbcoq5z2fy53a/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxext-1.3.6-qud7ofgzatwlsznuk5pmbcoq5z2fy53a/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxext-1.3.6-qud7ofgzatwlsznuk5pmbcoq5z2fy53a/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxext-1.3.6-qud7ofgzatwlsznuk5pmbcoq5z2fy53a/.} +prepend-path XLOCALEDIR {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libx11-1.8.10-dufv2eokil27hgb3ao7tuotsswt65llr/share/X11/locale} +setenv LIBXEXT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxext-1.3.6-qud7ofgzatwlsznuk5pmbcoq5z2fy53a} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxext/1.3.6-tnhn7jm b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxext/1.3.6-tnhn7jm new file mode 100644 index 00000000..6ab3961e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxext/1.3.6-tnhn7jm @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.940974 +## +## libxext@1.3.6%gcc@11.4.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/tnhn7jm +## + + +module-whatis {libXext - library for common extensions to the X11 protocol.} + +proc ModulesHelp { } { + puts stderr {Name : libxext} + puts stderr {Version: 1.3.6} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {libXext - library for common extensions to the X11 protocol.} +} + +conflict libxext + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxext-1.3.6-tnhn7jmifhz57qz5miqvshjj3a2a6u47/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxext-1.3.6-tnhn7jmifhz57qz5miqvshjj3a2a6u47/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxext-1.3.6-tnhn7jmifhz57qz5miqvshjj3a2a6u47/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxext-1.3.6-tnhn7jmifhz57qz5miqvshjj3a2a6u47/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxext-1.3.6-tnhn7jmifhz57qz5miqvshjj3a2a6u47/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxext-1.3.6-tnhn7jmifhz57qz5miqvshjj3a2a6u47/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxext-1.3.6-tnhn7jmifhz57qz5miqvshjj3a2a6u47/.} +prepend-path XLOCALEDIR {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libx11-1.8.10-unej5ji4ptyf5ujs2ovph2sfuxtdmdqc/share/X11/locale} +setenv LIBXEXT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxext-1.3.6-tnhn7jmifhz57qz5miqvshjj3a2a6u47} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxft/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxft/.modulerc new file mode 100644 index 00000000..b3cd690f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxft/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libxft/2.3.8-jeiorb7 +module-hide --soft --hidden-loaded libxft/2.3.8-ybkp7ib diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxft/2.3.8-jeiorb7 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxft/2.3.8-jeiorb7 new file mode 100644 index 00000000..5989c1b1 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxft/2.3.8-jeiorb7 @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.973960 +## +## libxft@2.3.8%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/jeiorb7 +## + + +module-whatis {X FreeType library.} + +proc ModulesHelp { } { + puts stderr {Name : libxft} + puts stderr {Version: 2.3.8} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {X FreeType library. Xft version 2.1 was the first stand alone release of} + puts stderr {Xft, a library that connects X applications with the FreeType font} + puts stderr {rasterization library. Xft uses fontconfig to locate fonts so it has no} + puts stderr {configuration files.} +} + +conflict libxft + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxft-2.3.8-jeiorb7cwpbp5c2jbr2fsagpavfmp5hb/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxft-2.3.8-jeiorb7cwpbp5c2jbr2fsagpavfmp5hb/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxft-2.3.8-jeiorb7cwpbp5c2jbr2fsagpavfmp5hb/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxft-2.3.8-jeiorb7cwpbp5c2jbr2fsagpavfmp5hb/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxft-2.3.8-jeiorb7cwpbp5c2jbr2fsagpavfmp5hb/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxft-2.3.8-jeiorb7cwpbp5c2jbr2fsagpavfmp5hb/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxft-2.3.8-jeiorb7cwpbp5c2jbr2fsagpavfmp5hb/.} +prepend-path XLOCALEDIR {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libx11-1.8.10-dufv2eokil27hgb3ao7tuotsswt65llr/share/X11/locale} +setenv LIBXFT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxft-2.3.8-jeiorb7cwpbp5c2jbr2fsagpavfmp5hb} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxft/2.3.8-ybkp7ib b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxft/2.3.8-ybkp7ib new file mode 100644 index 00000000..7f3ccea5 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxft/2.3.8-ybkp7ib @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.988588 +## +## libxft@2.3.8%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/ybkp7ib +## + + +module-whatis {X FreeType library.} + +proc ModulesHelp { } { + puts stderr {Name : libxft} + puts stderr {Version: 2.3.8} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {X FreeType library. Xft version 2.1 was the first stand alone release of} + puts stderr {Xft, a library that connects X applications with the FreeType font} + puts stderr {rasterization library. Xft uses fontconfig to locate fonts so it has no} + puts stderr {configuration files.} +} + +conflict libxft + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxft-2.3.8-ybkp7ib5x3acqela577a6cehnig3brrk/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxft-2.3.8-ybkp7ib5x3acqela577a6cehnig3brrk/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxft-2.3.8-ybkp7ib5x3acqela577a6cehnig3brrk/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxft-2.3.8-ybkp7ib5x3acqela577a6cehnig3brrk/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxft-2.3.8-ybkp7ib5x3acqela577a6cehnig3brrk/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxft-2.3.8-ybkp7ib5x3acqela577a6cehnig3brrk/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxft-2.3.8-ybkp7ib5x3acqela577a6cehnig3brrk/.} +prepend-path XLOCALEDIR {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libx11-1.8.10-4ysbix3phyqds2vcfaitukap5yprk6rq/share/X11/locale} +setenv LIBXFT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxft-2.3.8-ybkp7ib5x3acqela577a6cehnig3brrk} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxinerama/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxinerama/.modulerc new file mode 100644 index 00000000..5ed30cf3 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxinerama/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libxinerama/1.1.5-z2jsqb3 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxinerama/1.1.5-z2jsqb3 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxinerama/1.1.5-z2jsqb3 new file mode 100644 index 00000000..32669328 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxinerama/1.1.5-z2jsqb3 @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:46.002875 +## +## libxinerama@1.1.5%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/z2jsqb3 +## + + +module-whatis {libXinerama - API for Xinerama extension to X11 Protocol.} + +proc ModulesHelp { } { + puts stderr {Name : libxinerama} + puts stderr {Version: 1.1.5} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {libXinerama - API for Xinerama extension to X11 Protocol.} +} + +conflict libxinerama + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxinerama-1.1.5-z2jsqb3vsiln2nqpxpsa2d4og6336axk/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxinerama-1.1.5-z2jsqb3vsiln2nqpxpsa2d4og6336axk/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxinerama-1.1.5-z2jsqb3vsiln2nqpxpsa2d4og6336axk/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxinerama-1.1.5-z2jsqb3vsiln2nqpxpsa2d4og6336axk/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxinerama-1.1.5-z2jsqb3vsiln2nqpxpsa2d4og6336axk/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxinerama-1.1.5-z2jsqb3vsiln2nqpxpsa2d4og6336axk/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxinerama-1.1.5-z2jsqb3vsiln2nqpxpsa2d4og6336axk/.} +prepend-path XLOCALEDIR {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libx11-1.8.10-dufv2eokil27hgb3ao7tuotsswt65llr/share/X11/locale} +setenv LIBXINERAMA_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxinerama-1.1.5-z2jsqb3vsiln2nqpxpsa2d4og6336axk} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxkbcommon/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxkbcommon/.modulerc new file mode 100644 index 00000000..6b2fed38 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxkbcommon/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libxkbcommon/1.7.0-crhidul diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxkbcommon/1.7.0-crhidul b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxkbcommon/1.7.0-crhidul new file mode 100644 index 00000000..6ea79920 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxkbcommon/1.7.0-crhidul @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:46.014992 +## +## libxkbcommon@1.7.0%gcc@13.2.0~strip~wayland build_system=meson buildtype=release default_library=shared arch=linux-ubuntu22.04-x86_64_v3/crhidul +## + + +module-whatis {xkbcommon is a library to handle keyboard descriptions, including loading them from disk, parsing them and handling their state. It's mainly meant for client toolkits, window systems, and other system applications.} + +proc ModulesHelp { } { + puts stderr {Name : libxkbcommon} + puts stderr {Version: 1.7.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {xkbcommon is a library to handle keyboard descriptions, including} + puts stderr {loading them from disk, parsing them and handling their state. It's} + puts stderr {mainly meant for client toolkits, window systems, and other system} + puts stderr {applications.} +} + +conflict libxkbcommon + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxkbcommon-1.7.0-crhiduldwdlnsofoy5oxdyfcekvarnln/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxkbcommon-1.7.0-crhiduldwdlnsofoy5oxdyfcekvarnln/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxkbcommon-1.7.0-crhiduldwdlnsofoy5oxdyfcekvarnln/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxkbcommon-1.7.0-crhiduldwdlnsofoy5oxdyfcekvarnln/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxkbcommon-1.7.0-crhiduldwdlnsofoy5oxdyfcekvarnln/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxkbcommon-1.7.0-crhiduldwdlnsofoy5oxdyfcekvarnln/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxkbcommon-1.7.0-crhiduldwdlnsofoy5oxdyfcekvarnln/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxkbcommon-1.7.0-crhiduldwdlnsofoy5oxdyfcekvarnln/.} +setenv LIBXKBCOMMON_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxkbcommon-1.7.0-crhiduldwdlnsofoy5oxdyfcekvarnln} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxml2/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxml2/.modulerc new file mode 100644 index 00000000..ae1b29f8 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxml2/.modulerc @@ -0,0 +1,5 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libxml2/2.13.4-hjx5fp4 +module-hide --soft --hidden-loaded libxml2/2.13.4-bcm4imb +module-hide --soft --hidden-loaded libxml2/2.13.4-zczopoh +module-hide --soft --hidden-loaded libxml2/2.13.4-s66z527 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxml2/2.13.4-bcm4imb b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxml2/2.13.4-bcm4imb new file mode 100644 index 00000000..35953cc5 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxml2/2.13.4-bcm4imb @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:46.042531 +## +## libxml2@2.13.4%gcc@13.2.0+ftp+pic~python+shared build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/bcm4imb +## + + +module-whatis {Libxml2 is the XML C parser and toolkit developed for the Gnome project (but usable outside of the Gnome platform), it is free software available under the MIT License.} + +proc ModulesHelp { } { + puts stderr {Name : libxml2} + puts stderr {Version: 2.13.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Libxml2 is the XML C parser and toolkit developed for the Gnome project} + puts stderr {(but usable outside of the Gnome platform), it is free software} + puts stderr {available under the MIT License.} +} + +conflict libxml2 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxml2-2.13.4-bcm4imbjivtlgw4v2opnuvhylpxhhx6s/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxml2-2.13.4-bcm4imbjivtlgw4v2opnuvhylpxhhx6s/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxml2-2.13.4-bcm4imbjivtlgw4v2opnuvhylpxhhx6s/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxml2-2.13.4-bcm4imbjivtlgw4v2opnuvhylpxhhx6s/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxml2-2.13.4-bcm4imbjivtlgw4v2opnuvhylpxhhx6s/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxml2-2.13.4-bcm4imbjivtlgw4v2opnuvhylpxhhx6s/share/man} +prepend-path ACLOCAL_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxml2-2.13.4-bcm4imbjivtlgw4v2opnuvhylpxhhx6s/share/aclocal} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxml2-2.13.4-bcm4imbjivtlgw4v2opnuvhylpxhhx6s/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxml2-2.13.4-bcm4imbjivtlgw4v2opnuvhylpxhhx6s/.} +setenv LIBXML2_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxml2-2.13.4-bcm4imbjivtlgw4v2opnuvhylpxhhx6s} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxml2/2.13.4-hjx5fp4 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxml2/2.13.4-hjx5fp4 new file mode 100644 index 00000000..db8a0fcc --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxml2/2.13.4-hjx5fp4 @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:46.034582 +## +## libxml2@2.13.4%gcc@11.4.0+ftp+pic~python+shared build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/hjx5fp4 +## + + +module-whatis {Libxml2 is the XML C parser and toolkit developed for the Gnome project (but usable outside of the Gnome platform), it is free software available under the MIT License.} + +proc ModulesHelp { } { + puts stderr {Name : libxml2} + puts stderr {Version: 2.13.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Libxml2 is the XML C parser and toolkit developed for the Gnome project} + puts stderr {(but usable outside of the Gnome platform), it is free software} + puts stderr {available under the MIT License.} +} + +conflict libxml2 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxml2-2.13.4-hjx5fp4ldhttnhdtkzralwx5typm2mnh/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxml2-2.13.4-hjx5fp4ldhttnhdtkzralwx5typm2mnh/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxml2-2.13.4-hjx5fp4ldhttnhdtkzralwx5typm2mnh/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxml2-2.13.4-hjx5fp4ldhttnhdtkzralwx5typm2mnh/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxml2-2.13.4-hjx5fp4ldhttnhdtkzralwx5typm2mnh/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxml2-2.13.4-hjx5fp4ldhttnhdtkzralwx5typm2mnh/share/man} +prepend-path ACLOCAL_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxml2-2.13.4-hjx5fp4ldhttnhdtkzralwx5typm2mnh/share/aclocal} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxml2-2.13.4-hjx5fp4ldhttnhdtkzralwx5typm2mnh/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxml2-2.13.4-hjx5fp4ldhttnhdtkzralwx5typm2mnh/.} +setenv LIBXML2_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxml2-2.13.4-hjx5fp4ldhttnhdtkzralwx5typm2mnh} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxml2/2.13.4-s66z527 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxml2/2.13.4-s66z527 new file mode 100644 index 00000000..e3540932 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxml2/2.13.4-s66z527 @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:46.026985 +## +## libxml2@2.13.4%gcc@7.5.0+ftp+pic~python+shared build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/s66z527 +## + + +module-whatis {Libxml2 is the XML C parser and toolkit developed for the Gnome project (but usable outside of the Gnome platform), it is free software available under the MIT License.} + +proc ModulesHelp { } { + puts stderr {Name : libxml2} + puts stderr {Version: 2.13.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Libxml2 is the XML C parser and toolkit developed for the Gnome project} + puts stderr {(but usable outside of the Gnome platform), it is free software} + puts stderr {available under the MIT License.} +} + +conflict libxml2 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/libxml2-2.13.4-s66z5277b4brd7gfnobqfc7xdcinjghg/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/libxml2-2.13.4-s66z5277b4brd7gfnobqfc7xdcinjghg/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/libxml2-2.13.4-s66z5277b4brd7gfnobqfc7xdcinjghg/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/libxml2-2.13.4-s66z5277b4brd7gfnobqfc7xdcinjghg/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/libxml2-2.13.4-s66z5277b4brd7gfnobqfc7xdcinjghg/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/libxml2-2.13.4-s66z5277b4brd7gfnobqfc7xdcinjghg/share/man} +prepend-path ACLOCAL_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/libxml2-2.13.4-s66z5277b4brd7gfnobqfc7xdcinjghg/share/aclocal} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/libxml2-2.13.4-s66z5277b4brd7gfnobqfc7xdcinjghg/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/libxml2-2.13.4-s66z5277b4brd7gfnobqfc7xdcinjghg/.} +setenv LIBXML2_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/libxml2-2.13.4-s66z5277b4brd7gfnobqfc7xdcinjghg} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxml2/2.13.4-zczopoh b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxml2/2.13.4-zczopoh new file mode 100644 index 00000000..4210dc49 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxml2/2.13.4-zczopoh @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:46.051467 +## +## libxml2@2.13.4%gcc@13.2.0+ftp+pic~python+shared build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/zczopoh +## + + +module-whatis {Libxml2 is the XML C parser and toolkit developed for the Gnome project (but usable outside of the Gnome platform), it is free software available under the MIT License.} + +proc ModulesHelp { } { + puts stderr {Name : libxml2} + puts stderr {Version: 2.13.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Libxml2 is the XML C parser and toolkit developed for the Gnome project} + puts stderr {(but usable outside of the Gnome platform), it is free software} + puts stderr {available under the MIT License.} +} + +conflict libxml2 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxml2-2.13.4-zczopohznjpqrclxqvpikyriaqhtrfuh/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxml2-2.13.4-zczopohznjpqrclxqvpikyriaqhtrfuh/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxml2-2.13.4-zczopohznjpqrclxqvpikyriaqhtrfuh/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxml2-2.13.4-zczopohznjpqrclxqvpikyriaqhtrfuh/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxml2-2.13.4-zczopohznjpqrclxqvpikyriaqhtrfuh/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxml2-2.13.4-zczopohznjpqrclxqvpikyriaqhtrfuh/share/man} +prepend-path ACLOCAL_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxml2-2.13.4-zczopohznjpqrclxqvpikyriaqhtrfuh/share/aclocal} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxml2-2.13.4-zczopohznjpqrclxqvpikyriaqhtrfuh/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxml2-2.13.4-zczopohznjpqrclxqvpikyriaqhtrfuh/.} +setenv LIBXML2_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxml2-2.13.4-zczopohznjpqrclxqvpikyriaqhtrfuh} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxpm/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxpm/.modulerc new file mode 100644 index 00000000..ade8f849 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxpm/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libxpm/3.5.17-fophdqj +module-hide --soft --hidden-loaded libxpm/3.5.17-zwsjkpz diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxpm/3.5.17-fophdqj b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxpm/3.5.17-fophdqj new file mode 100644 index 00000000..9e05ad45 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxpm/3.5.17-fophdqj @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:46.078340 +## +## libxpm@3.5.17%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/fophdqj +## + + +module-whatis {libXpm - X Pixmap (XPM) image file format library.} + +proc ModulesHelp { } { + puts stderr {Name : libxpm} + puts stderr {Version: 3.5.17} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {libXpm - X Pixmap (XPM) image file format library.} +} + +conflict libxpm + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxpm-3.5.17-fophdqjcvm3oir25sd2vdlxamirzgyep/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxpm-3.5.17-fophdqjcvm3oir25sd2vdlxamirzgyep/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxpm-3.5.17-fophdqjcvm3oir25sd2vdlxamirzgyep/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxpm-3.5.17-fophdqjcvm3oir25sd2vdlxamirzgyep/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxpm-3.5.17-fophdqjcvm3oir25sd2vdlxamirzgyep/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxpm-3.5.17-fophdqjcvm3oir25sd2vdlxamirzgyep/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxpm-3.5.17-fophdqjcvm3oir25sd2vdlxamirzgyep/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxpm-3.5.17-fophdqjcvm3oir25sd2vdlxamirzgyep/.} +prepend-path XLOCALEDIR {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libx11-1.8.10-n3dtxzp75boymvcyqfvknxqtrputklxn/share/X11/locale} +setenv LIBXPM_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxpm-3.5.17-fophdqjcvm3oir25sd2vdlxamirzgyep} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxpm/3.5.17-zwsjkpz b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxpm/3.5.17-zwsjkpz new file mode 100644 index 00000000..005301c5 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxpm/3.5.17-zwsjkpz @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:46.092429 +## +## libxpm@3.5.17%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/zwsjkpz +## + + +module-whatis {libXpm - X Pixmap (XPM) image file format library.} + +proc ModulesHelp { } { + puts stderr {Name : libxpm} + puts stderr {Version: 3.5.17} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {libXpm - X Pixmap (XPM) image file format library.} +} + +conflict libxpm + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxpm-3.5.17-zwsjkpzs3rosuzy6nawivhybs227pydk/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxpm-3.5.17-zwsjkpzs3rosuzy6nawivhybs227pydk/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxpm-3.5.17-zwsjkpzs3rosuzy6nawivhybs227pydk/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxpm-3.5.17-zwsjkpzs3rosuzy6nawivhybs227pydk/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxpm-3.5.17-zwsjkpzs3rosuzy6nawivhybs227pydk/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxpm-3.5.17-zwsjkpzs3rosuzy6nawivhybs227pydk/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxpm-3.5.17-zwsjkpzs3rosuzy6nawivhybs227pydk/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxpm-3.5.17-zwsjkpzs3rosuzy6nawivhybs227pydk/.} +prepend-path XLOCALEDIR {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libx11-1.8.10-dufv2eokil27hgb3ao7tuotsswt65llr/share/X11/locale} +setenv LIBXPM_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxpm-3.5.17-zwsjkpzs3rosuzy6nawivhybs227pydk} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxrandr/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxrandr/.modulerc new file mode 100644 index 00000000..89f7687c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxrandr/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libxrandr/1.5.4-vffb43e +module-hide --soft --hidden-loaded libxrandr/1.5.4-q5hbsvy diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxrandr/1.5.4-q5hbsvy b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxrandr/1.5.4-q5hbsvy new file mode 100644 index 00000000..aac118a0 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxrandr/1.5.4-q5hbsvy @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:46.118057 +## +## libxrandr@1.5.4%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/q5hbsvy +## + + +module-whatis {libXrandr - X Resize, Rotate and Reflection extension library.} + +proc ModulesHelp { } { + puts stderr {Name : libxrandr} + puts stderr {Version: 1.5.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {libXrandr - X Resize, Rotate and Reflection extension library.} +} + +conflict libxrandr + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxrandr-1.5.4-q5hbsvymrx76vv42flv27u53lqvs5a2g/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxrandr-1.5.4-q5hbsvymrx76vv42flv27u53lqvs5a2g/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxrandr-1.5.4-q5hbsvymrx76vv42flv27u53lqvs5a2g/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxrandr-1.5.4-q5hbsvymrx76vv42flv27u53lqvs5a2g/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxrandr-1.5.4-q5hbsvymrx76vv42flv27u53lqvs5a2g/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxrandr-1.5.4-q5hbsvymrx76vv42flv27u53lqvs5a2g/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxrandr-1.5.4-q5hbsvymrx76vv42flv27u53lqvs5a2g/.} +prepend-path XLOCALEDIR {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libx11-1.8.10-dufv2eokil27hgb3ao7tuotsswt65llr/share/X11/locale} +setenv LIBXRANDR_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxrandr-1.5.4-q5hbsvymrx76vv42flv27u53lqvs5a2g} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxrandr/1.5.4-vffb43e b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxrandr/1.5.4-vffb43e new file mode 100644 index 00000000..f172cb2d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxrandr/1.5.4-vffb43e @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:46.106571 +## +## libxrandr@1.5.4%gcc@11.4.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/vffb43e +## + + +module-whatis {libXrandr - X Resize, Rotate and Reflection extension library.} + +proc ModulesHelp { } { + puts stderr {Name : libxrandr} + puts stderr {Version: 1.5.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {libXrandr - X Resize, Rotate and Reflection extension library.} +} + +conflict libxrandr + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxrandr-1.5.4-vffb43enmcqhosweiq7hh35t3vi42kbw/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxrandr-1.5.4-vffb43enmcqhosweiq7hh35t3vi42kbw/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxrandr-1.5.4-vffb43enmcqhosweiq7hh35t3vi42kbw/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxrandr-1.5.4-vffb43enmcqhosweiq7hh35t3vi42kbw/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxrandr-1.5.4-vffb43enmcqhosweiq7hh35t3vi42kbw/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxrandr-1.5.4-vffb43enmcqhosweiq7hh35t3vi42kbw/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxrandr-1.5.4-vffb43enmcqhosweiq7hh35t3vi42kbw/.} +prepend-path XLOCALEDIR {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libx11-1.8.10-unej5ji4ptyf5ujs2ovph2sfuxtdmdqc/share/X11/locale} +setenv LIBXRANDR_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxrandr-1.5.4-vffb43enmcqhosweiq7hh35t3vi42kbw} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxrender/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxrender/.modulerc new file mode 100644 index 00000000..45640808 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxrender/.modulerc @@ -0,0 +1,4 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libxrender/0.9.11-ns462uy +module-hide --soft --hidden-loaded libxrender/0.9.11-ait7so3 +module-hide --soft --hidden-loaded libxrender/0.9.11-y3kc656 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxrender/0.9.11-ait7so3 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxrender/0.9.11-ait7so3 new file mode 100644 index 00000000..90c8a74a --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxrender/0.9.11-ait7so3 @@ -0,0 +1,67 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:46.140909 +## +## libxrender@0.9.11%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/ait7so3 +## + + +module-whatis {libXrender - library for the Render Extension to the X11 protocol.} + +proc ModulesHelp { } { + puts stderr {Name : libxrender} + puts stderr {Version: 0.9.11} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {libXrender - library for the Render Extension to the X11 protocol.} +} + +conflict libxrender + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxrender-0.9.11-ait7so3kye76yobb3rtz56fzk33ukp6h/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxrender-0.9.11-ait7so3kye76yobb3rtz56fzk33ukp6h/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxrender-0.9.11-ait7so3kye76yobb3rtz56fzk33ukp6h/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxrender-0.9.11-ait7so3kye76yobb3rtz56fzk33ukp6h/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxrender-0.9.11-ait7so3kye76yobb3rtz56fzk33ukp6h/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxrender-0.9.11-ait7so3kye76yobb3rtz56fzk33ukp6h/.} +prepend-path XLOCALEDIR {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libx11-1.8.10-dufv2eokil27hgb3ao7tuotsswt65llr/share/X11/locale} +setenv LIBXRENDER_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxrender-0.9.11-ait7so3kye76yobb3rtz56fzk33ukp6h} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxrender/0.9.11-ns462uy b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxrender/0.9.11-ns462uy new file mode 100644 index 00000000..94355c73 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxrender/0.9.11-ns462uy @@ -0,0 +1,67 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:46.130540 +## +## libxrender@0.9.11%gcc@11.4.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/ns462uy +## + + +module-whatis {libXrender - library for the Render Extension to the X11 protocol.} + +proc ModulesHelp { } { + puts stderr {Name : libxrender} + puts stderr {Version: 0.9.11} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {libXrender - library for the Render Extension to the X11 protocol.} +} + +conflict libxrender + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxrender-0.9.11-ns462uybvkwlto34pscodjefghjtbh65/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxrender-0.9.11-ns462uybvkwlto34pscodjefghjtbh65/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxrender-0.9.11-ns462uybvkwlto34pscodjefghjtbh65/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxrender-0.9.11-ns462uybvkwlto34pscodjefghjtbh65/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxrender-0.9.11-ns462uybvkwlto34pscodjefghjtbh65/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxrender-0.9.11-ns462uybvkwlto34pscodjefghjtbh65/.} +prepend-path XLOCALEDIR {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libx11-1.8.10-unej5ji4ptyf5ujs2ovph2sfuxtdmdqc/share/X11/locale} +setenv LIBXRENDER_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxrender-0.9.11-ns462uybvkwlto34pscodjefghjtbh65} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxrender/0.9.11-y3kc656 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxrender/0.9.11-y3kc656 new file mode 100644 index 00000000..9dd6f74e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxrender/0.9.11-y3kc656 @@ -0,0 +1,67 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:46.151951 +## +## libxrender@0.9.11%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/y3kc656 +## + + +module-whatis {libXrender - library for the Render Extension to the X11 protocol.} + +proc ModulesHelp { } { + puts stderr {Name : libxrender} + puts stderr {Version: 0.9.11} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {libXrender - library for the Render Extension to the X11 protocol.} +} + +conflict libxrender + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxrender-0.9.11-y3kc656eubrjjvimn2wuzgcnyjmosztq/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxrender-0.9.11-y3kc656eubrjjvimn2wuzgcnyjmosztq/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxrender-0.9.11-y3kc656eubrjjvimn2wuzgcnyjmosztq/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxrender-0.9.11-y3kc656eubrjjvimn2wuzgcnyjmosztq/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxrender-0.9.11-y3kc656eubrjjvimn2wuzgcnyjmosztq/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxrender-0.9.11-y3kc656eubrjjvimn2wuzgcnyjmosztq/.} +prepend-path XLOCALEDIR {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libx11-1.8.10-4ysbix3phyqds2vcfaitukap5yprk6rq/share/X11/locale} +setenv LIBXRENDER_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxrender-0.9.11-y3kc656eubrjjvimn2wuzgcnyjmosztq} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxsmm/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxsmm/.modulerc new file mode 100644 index 00000000..fce2b88d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxsmm/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libxsmm/1.17-4y55knx diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxsmm/1.17-4y55knx b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxsmm/1.17-4y55knx new file mode 100644 index 00000000..6357c203 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxsmm/1.17-4y55knx @@ -0,0 +1,67 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:46.163000 +## +## libxsmm@1.17%gcc@13.2.0~debug~generator~header-only~large_jit_buffer~shared blas=default build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/4y55knx +## + + +module-whatis {Library for specialized dense and sparse matrix operations, and deep learning primitives.} + +proc ModulesHelp { } { + puts stderr {Name : libxsmm} + puts stderr {Version: 1.17} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Library for specialized dense and sparse matrix operations, and deep} + puts stderr {learning primitives.} +} + +conflict libxsmm + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxsmm-1.17-4y55knxfx2z4ighgqhpa42dgfkibgkvz/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxsmm-1.17-4y55knxfx2z4ighgqhpa42dgfkibgkvz/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxsmm-1.17-4y55knxfx2z4ighgqhpa42dgfkibgkvz/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxsmm-1.17-4y55knxfx2z4ighgqhpa42dgfkibgkvz/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxsmm-1.17-4y55knxfx2z4ighgqhpa42dgfkibgkvz/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxsmm-1.17-4y55knxfx2z4ighgqhpa42dgfkibgkvz/.} +setenv LIBXSMM_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxsmm-1.17-4y55knxfx2z4ighgqhpa42dgfkibgkvz} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxt/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxt/.modulerc new file mode 100644 index 00000000..b87de38c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxt/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libxt/1.3.0-qucgtsl +module-hide --soft --hidden-loaded libxt/1.3.0-sex2gdp diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxt/1.3.0-qucgtsl b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxt/1.3.0-qucgtsl new file mode 100644 index 00000000..6016635c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxt/1.3.0-qucgtsl @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:46.170986 +## +## libxt@1.3.0%gcc@11.4.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/qucgtsl +## + + +module-whatis {libXt - X Toolkit Intrinsics library.} + +proc ModulesHelp { } { + puts stderr {Name : libxt} + puts stderr {Version: 1.3.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {libXt - X Toolkit Intrinsics library.} +} + +conflict libxt + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxt-1.3.0-qucgtslst2n3e2fqthg27kxffddv3avi/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxt-1.3.0-qucgtslst2n3e2fqthg27kxffddv3avi/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxt-1.3.0-qucgtslst2n3e2fqthg27kxffddv3avi/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxt-1.3.0-qucgtslst2n3e2fqthg27kxffddv3avi/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxt-1.3.0-qucgtslst2n3e2fqthg27kxffddv3avi/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxt-1.3.0-qucgtslst2n3e2fqthg27kxffddv3avi/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxt-1.3.0-qucgtslst2n3e2fqthg27kxffddv3avi/.} +prepend-path XLOCALEDIR {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libx11-1.8.10-unej5ji4ptyf5ujs2ovph2sfuxtdmdqc/share/X11/locale} +setenv LIBXT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libxt-1.3.0-qucgtslst2n3e2fqthg27kxffddv3avi} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxt/1.3.0-sex2gdp b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxt/1.3.0-sex2gdp new file mode 100644 index 00000000..c31f2618 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libxt/1.3.0-sex2gdp @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:46.182047 +## +## libxt@1.3.0%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/sex2gdp +## + + +module-whatis {libXt - X Toolkit Intrinsics library.} + +proc ModulesHelp { } { + puts stderr {Name : libxt} + puts stderr {Version: 1.3.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {libXt - X Toolkit Intrinsics library.} +} + +conflict libxt + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxt-1.3.0-sex2gdpl3rw6tds7z42oxw4tvjc7oigp/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxt-1.3.0-sex2gdpl3rw6tds7z42oxw4tvjc7oigp/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxt-1.3.0-sex2gdpl3rw6tds7z42oxw4tvjc7oigp/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxt-1.3.0-sex2gdpl3rw6tds7z42oxw4tvjc7oigp/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxt-1.3.0-sex2gdpl3rw6tds7z42oxw4tvjc7oigp/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxt-1.3.0-sex2gdpl3rw6tds7z42oxw4tvjc7oigp/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxt-1.3.0-sex2gdpl3rw6tds7z42oxw4tvjc7oigp/.} +prepend-path XLOCALEDIR {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libx11-1.8.10-dufv2eokil27hgb3ao7tuotsswt65llr/share/X11/locale} +setenv LIBXT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxt-1.3.0-sex2gdpl3rw6tds7z42oxw4tvjc7oigp} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libyaml/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libyaml/.modulerc new file mode 100644 index 00000000..b504b1cd --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libyaml/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libyaml/0.2.5-x7zh2xl diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libyaml/0.2.5-x7zh2xl b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libyaml/0.2.5-x7zh2xl new file mode 100644 index 00000000..133de8bd --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/libyaml/0.2.5-x7zh2xl @@ -0,0 +1,66 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:46.194109 +## +## libyaml@0.2.5%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/x7zh2xl +## + + +module-whatis {A C library for parsing and emitting YAML.} + +proc ModulesHelp { } { + puts stderr {Name : libyaml} + puts stderr {Version: 0.2.5} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A C library for parsing and emitting YAML.} +} + +conflict libyaml + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libyaml-0.2.5-x7zh2xlulfaugrbiok36252r4w5qyr2v/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libyaml-0.2.5-x7zh2xlulfaugrbiok36252r4w5qyr2v/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libyaml-0.2.5-x7zh2xlulfaugrbiok36252r4w5qyr2v/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libyaml-0.2.5-x7zh2xlulfaugrbiok36252r4w5qyr2v/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libyaml-0.2.5-x7zh2xlulfaugrbiok36252r4w5qyr2v/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libyaml-0.2.5-x7zh2xlulfaugrbiok36252r4w5qyr2v/.} +setenv LIBYAML_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libyaml-0.2.5-x7zh2xlulfaugrbiok36252r4w5qyr2v} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/linux-pam/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/linux-pam/.modulerc new file mode 100644 index 00000000..c409db11 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/linux-pam/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded linux-pam/1.6.1-rjbjzyv diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/linux-pam/1.6.1-rjbjzyv b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/linux-pam/1.6.1-rjbjzyv new file mode 100644 index 00000000..d376d9af --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/linux-pam/1.6.1-rjbjzyv @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:46.202276 +## +## linux-pam@1.6.1%gcc@13.2.0~lastlog~nls~openssl~regenerate-docu~selinux+unix~xauth build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/rjbjzyv +## +## Configure options: --includedir=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/linux-pam-1.6.1-rjbjzyv44szeo522khgkd3ssauuvoa2a/include/security --disable-nls --disable-openssl --enable-unix --disable-lastlog --disable-selinux --disable-regenerate-docu +## + + +module-whatis {Linux PAM (Pluggable Authentication Modules for Linux) project.} + +proc ModulesHelp { } { + puts stderr {Name : linux-pam} + puts stderr {Version: 1.6.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Linux PAM (Pluggable Authentication Modules for Linux) project.} +} + +conflict linux-pam + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/linux-pam-1.6.1-rjbjzyv44szeo522khgkd3ssauuvoa2a/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/linux-pam-1.6.1-rjbjzyv44szeo522khgkd3ssauuvoa2a/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/linux-pam-1.6.1-rjbjzyv44szeo522khgkd3ssauuvoa2a/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/linux-pam-1.6.1-rjbjzyv44szeo522khgkd3ssauuvoa2a/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/linux-pam-1.6.1-rjbjzyv44szeo522khgkd3ssauuvoa2a/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/linux-pam-1.6.1-rjbjzyv44szeo522khgkd3ssauuvoa2a/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/linux-pam-1.6.1-rjbjzyv44szeo522khgkd3ssauuvoa2a/.} +setenv LINUX_PAM_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/linux-pam-1.6.1-rjbjzyv44szeo522khgkd3ssauuvoa2a} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/lmdb/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/lmdb/.modulerc new file mode 100644 index 00000000..fcc78060 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/lmdb/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded lmdb/0.9.31-qbmxppe diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/lmdb/0.9.31-qbmxppe b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/lmdb/0.9.31-qbmxppe new file mode 100644 index 00000000..6fc4c158 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/lmdb/0.9.31-qbmxppe @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:46.280656 +## +## lmdb@0.9.31%gcc@13.2.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/qbmxppe +## + + +module-whatis {Symas LMDB is an extraordinarily fast, memory-efficient database we developed for the Symas OpenLDAP Project. With memory-mapped files, it has the read performance of a pure in-memory database while retaining the persistence of standard disk-based databases.} + +proc ModulesHelp { } { + puts stderr {Name : lmdb} + puts stderr {Version: 0.9.31} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Symas LMDB is an extraordinarily fast, memory-efficient database we} + puts stderr {developed for the Symas OpenLDAP Project. With memory-mapped files, it} + puts stderr {has the read performance of a pure in-memory database while retaining} + puts stderr {the persistence of standard disk-based databases.} +} + +conflict lmdb + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/lmdb-0.9.31-qbmxppel42vmys2nds65qcggpdn3eleg/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/lmdb-0.9.31-qbmxppel42vmys2nds65qcggpdn3eleg/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/lmdb-0.9.31-qbmxppel42vmys2nds65qcggpdn3eleg/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/lmdb-0.9.31-qbmxppel42vmys2nds65qcggpdn3eleg/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/lmdb-0.9.31-qbmxppel42vmys2nds65qcggpdn3eleg/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/lmdb-0.9.31-qbmxppel42vmys2nds65qcggpdn3eleg/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/lmdb-0.9.31-qbmxppel42vmys2nds65qcggpdn3eleg/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/lmdb-0.9.31-qbmxppel42vmys2nds65qcggpdn3eleg/.} +setenv LMDB_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/lmdb-0.9.31-qbmxppel42vmys2nds65qcggpdn3eleg} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ltr-retriever/2.8.7 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ltr-retriever/2.8.7 new file mode 100644 index 00000000..670ccd1d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ltr-retriever/2.8.7 @@ -0,0 +1,76 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:46.289689 +## +## ltr-retriever@2.8.7%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/24eqslh +## + + +module-whatis {LTR_retriever is a highly accurate and sensitive program for identification of LTR retrotransposons.} + +proc ModulesHelp { } { + puts stderr {Name : ltr-retriever} + puts stderr {Version: 2.8.7} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {LTR_retriever is a highly accurate and sensitive program for} + puts stderr {identification of LTR retrotransposons.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load blast-plus/2.16.0-qyzslfm + module load cdhit/4.8.1 + module load hmmer/3.4 + module load perl/5.40.0-lzbctij + module load repeatmasker/4.0.9-oc6ehon +} else { + depends-on blast-plus/2.16.0-qyzslfm + depends-on cdhit/4.8.1 + depends-on hmmer/3.4 + depends-on perl/5.40.0-lzbctij + depends-on repeatmasker/4.0.9-oc6ehon +} +conflict ltr-retriever + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/ltr-retriever-2.8.7/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/ltr-retriever-2.8.7/.} +setenv LTR_RETRIEVER_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/ltr-retriever-2.8.7-24eqslh5jbngix6ewsfpyyh3ptjkrwud} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/lz4/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/lz4/.modulerc new file mode 100644 index 00000000..41865c71 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/lz4/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded lz4/1.10.0-itxj6zz +module-hide --soft --hidden-loaded lz4/1.10.0-yd7ein4 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/lz4/1.10.0-itxj6zz b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/lz4/1.10.0-itxj6zz new file mode 100644 index 00000000..a7ee04af --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/lz4/1.10.0-itxj6zz @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:46.453540 +## +## lz4@1.10.0%gcc@11.4.0+pic build_system=makefile libs=shared,static arch=linux-ubuntu22.04-x86_64_v3/itxj6zz +## + + +module-whatis {LZ4 is lossless compression algorithm, providing compression speed at 400 MB/s per core, scalable with multi-cores CPU. It also features an extremely fast decoder, with speed in multiple GB/s per core, typically reaching RAM speed limits on multi-core systems.} + +proc ModulesHelp { } { + puts stderr {Name : lz4} + puts stderr {Version: 1.10.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {LZ4 is lossless compression algorithm, providing compression speed at} + puts stderr {400 MB/s per core, scalable with multi-cores CPU. It also features an} + puts stderr {extremely fast decoder, with speed in multiple GB/s per core, typically} + puts stderr {reaching RAM speed limits on multi-core systems.} +} + +conflict lz4 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/lz4-1.10.0-itxj6zzegxeda6yubljodvd4hob6cdtm/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/lz4-1.10.0-itxj6zzegxeda6yubljodvd4hob6cdtm/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/lz4-1.10.0-itxj6zzegxeda6yubljodvd4hob6cdtm/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/lz4-1.10.0-itxj6zzegxeda6yubljodvd4hob6cdtm/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/lz4-1.10.0-itxj6zzegxeda6yubljodvd4hob6cdtm/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/lz4-1.10.0-itxj6zzegxeda6yubljodvd4hob6cdtm/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/lz4-1.10.0-itxj6zzegxeda6yubljodvd4hob6cdtm/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/lz4-1.10.0-itxj6zzegxeda6yubljodvd4hob6cdtm/.} +setenv LZ4_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/lz4-1.10.0-itxj6zzegxeda6yubljodvd4hob6cdtm} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/lz4/1.10.0-yd7ein4 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/lz4/1.10.0-yd7ein4 new file mode 100644 index 00000000..baba8bdc --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/lz4/1.10.0-yd7ein4 @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:46.460783 +## +## lz4@1.10.0%gcc@13.2.0+pic build_system=makefile libs=shared,static arch=linux-ubuntu22.04-x86_64_v3/yd7ein4 +## + + +module-whatis {LZ4 is lossless compression algorithm, providing compression speed at 400 MB/s per core, scalable with multi-cores CPU. It also features an extremely fast decoder, with speed in multiple GB/s per core, typically reaching RAM speed limits on multi-core systems.} + +proc ModulesHelp { } { + puts stderr {Name : lz4} + puts stderr {Version: 1.10.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {LZ4 is lossless compression algorithm, providing compression speed at} + puts stderr {400 MB/s per core, scalable with multi-cores CPU. It also features an} + puts stderr {extremely fast decoder, with speed in multiple GB/s per core, typically} + puts stderr {reaching RAM speed limits on multi-core systems.} +} + +conflict lz4 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/lz4-1.10.0-yd7ein45tkk6avf6gnq3lt3r6xjcjoaw/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/lz4-1.10.0-yd7ein45tkk6avf6gnq3lt3r6xjcjoaw/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/lz4-1.10.0-yd7ein45tkk6avf6gnq3lt3r6xjcjoaw/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/lz4-1.10.0-yd7ein45tkk6avf6gnq3lt3r6xjcjoaw/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/lz4-1.10.0-yd7ein45tkk6avf6gnq3lt3r6xjcjoaw/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/lz4-1.10.0-yd7ein45tkk6avf6gnq3lt3r6xjcjoaw/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/lz4-1.10.0-yd7ein45tkk6avf6gnq3lt3r6xjcjoaw/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/lz4-1.10.0-yd7ein45tkk6avf6gnq3lt3r6xjcjoaw/.} +setenv LZ4_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/lz4-1.10.0-yd7ein45tkk6avf6gnq3lt3r6xjcjoaw} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/lzma/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/lzma/.modulerc new file mode 100644 index 00000000..d4a48e22 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/lzma/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded lzma/4.32.7-6zzcwse diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/lzma/4.32.7-6zzcwse b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/lzma/4.32.7-6zzcwse new file mode 100644 index 00000000..ad1999f3 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/lzma/4.32.7-6zzcwse @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:46.485371 +## +## lzma@4.32.7%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/6zzcwse +## + + +module-whatis {LZMA Utils are legacy data compression software with high compression ratio. LZMA Utils are no longer developed, although critical bugs may be fixed as long as fixing them doesn't require huge changes to the code.} + +proc ModulesHelp { } { + puts stderr {Name : lzma} + puts stderr {Version: 4.32.7} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {LZMA Utils are legacy data compression software with high compression} + puts stderr {ratio. LZMA Utils are no longer developed, although critical bugs may be} + puts stderr {fixed as long as fixing them doesn't require huge changes to the code.} + puts stderr {Users of LZMA Utils should move to XZ Utils. XZ Utils support the legacy} + puts stderr {.lzma format used by LZMA Utils, and can also emulate the command line} + puts stderr {tools of LZMA Utils. This should make transition from LZMA Utils to XZ} + puts stderr {Utils relatively easy.} +} + +conflict lzma + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/lzma-4.32.7-6zzcwsexoklu4cwbwyxj2z76czfhs22r/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/lzma-4.32.7-6zzcwsexoklu4cwbwyxj2z76czfhs22r/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/lzma-4.32.7-6zzcwsexoklu4cwbwyxj2z76czfhs22r/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/lzma-4.32.7-6zzcwsexoklu4cwbwyxj2z76czfhs22r/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/lzma-4.32.7-6zzcwsexoklu4cwbwyxj2z76czfhs22r/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/lzma-4.32.7-6zzcwsexoklu4cwbwyxj2z76czfhs22r/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/lzma-4.32.7-6zzcwsexoklu4cwbwyxj2z76czfhs22r/.} +setenv LZMA_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/lzma-4.32.7-6zzcwsexoklu4cwbwyxj2z76czfhs22r} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/lzo/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/lzo/.modulerc new file mode 100644 index 00000000..d281a618 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/lzo/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded lzo/2.10-xhchxso diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/lzo/2.10-xhchxso b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/lzo/2.10-xhchxso new file mode 100644 index 00000000..393af7ac --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/lzo/2.10-xhchxso @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:46.493484 +## +## lzo@2.10%gcc@13.2.0 build_system=autotools libs=shared,static arch=linux-ubuntu22.04-x86_64_v3/xhchxso +## +## Configure options: --disable-dependency-tracking --enable-shared --enable-static +## + + +module-whatis {Real-time data compression library} + +proc ModulesHelp { } { + puts stderr {Name : lzo} + puts stderr {Version: 2.10} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Real-time data compression library} +} + +conflict lzo + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/lzo-2.10-xhchxsob2z3owhyj4p7ctkp5dlived7n/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/lzo-2.10-xhchxsob2z3owhyj4p7ctkp5dlived7n/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/lzo-2.10-xhchxsob2z3owhyj4p7ctkp5dlived7n/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/lzo-2.10-xhchxsob2z3owhyj4p7ctkp5dlived7n/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/lzo-2.10-xhchxsob2z3owhyj4p7ctkp5dlived7n/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/lzo-2.10-xhchxsob2z3owhyj4p7ctkp5dlived7n/.} +setenv LZO_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/lzo-2.10-xhchxsob2z3owhyj4p7ctkp5dlived7n} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/m4/1.4.19 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/m4/1.4.19 new file mode 100644 index 00000000..40ac7eec --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/m4/1.4.19 @@ -0,0 +1,67 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:46.501353 +## +## m4@1.4.19%gcc@13.2.0+sigsegv build_system=autotools patches=9dc5fbd,bfdffa7 arch=linux-ubuntu22.04-x86_64_v3/j2hgwh4 +## +## Configure options: --enable-c++ --with-libsigsegv-prefix=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libsigsegv-2.14-h5kxasm6ra2zsuyivutnb6zy46bc5vwa +## + + +module-whatis {GNU M4 is an implementation of the traditional Unix macro processor.} + +proc ModulesHelp { } { + puts stderr {Name : m4} + puts stderr {Version: 1.4.19} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {GNU M4 is an implementation of the traditional Unix macro processor.} +} + +conflict m4 + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/m4-1.4.19/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/m4-1.4.19/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/m4-1.4.19/.} +setenv M4 {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/m4-1.4.19/bin/m4} +setenv M4_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/m4-1.4.19-j2hgwh42ug43c2w3oul4mdmfam7oztfs} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/mafft/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/mafft/.modulerc new file mode 100644 index 00000000..7ee479f8 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/mafft/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded mafft/7.525-d3lothm diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/mafft/7.505 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/mafft/7.505 new file mode 100644 index 00000000..9e3a34c6 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/mafft/7.505 @@ -0,0 +1,67 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:46.511488 +## +## mafft@7.505%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/r4b6rgs +## + + +module-whatis {MAFFT is a multiple sequence alignment program for unix-like operating systems. It offers a range of multiple alignment methods, L-INS-i (accurate; for alignment of <~200 sequences), FFT-NS-2 (fast; for alignment of <~30,000 sequences), etc.} + +proc ModulesHelp { } { + puts stderr {Name : mafft} + puts stderr {Version: 7.505} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {MAFFT is a multiple sequence alignment program for unix-like operating} + puts stderr {systems. It offers a range of multiple alignment methods, L-INS-i} + puts stderr {(accurate; for alignment of <~200 sequences), FFT-NS-2 (fast; for} + puts stderr {alignment of <~30,000 sequences), etc.} +} + +conflict mafft + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/mafft-7.505/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/mafft-7.505/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/mafft-7.505/.} +setenv MAFFT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/mafft-7.505-r4b6rgs3kgl6oh6fqnnzlbtctq4swhkq} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/mafft/7.525-d3lothm b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/mafft/7.525-d3lothm new file mode 100644 index 00000000..97e7e684 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/mafft/7.525-d3lothm @@ -0,0 +1,67 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:46.533051 +## +## mafft@7.525%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/d3lothm +## + + +module-whatis {MAFFT is a multiple sequence alignment program for unix-like operating systems. It offers a range of multiple alignment methods, L-INS-i (accurate; for alignment of <~200 sequences), FFT-NS-2 (fast; for alignment of <~30,000 sequences), etc.} + +proc ModulesHelp { } { + puts stderr {Name : mafft} + puts stderr {Version: 7.525} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {MAFFT is a multiple sequence alignment program for unix-like operating} + puts stderr {systems. It offers a range of multiple alignment methods, L-INS-i} + puts stderr {(accurate; for alignment of <~200 sequences), FFT-NS-2 (fast; for} + puts stderr {alignment of <~30,000 sequences), etc.} +} + +conflict mafft + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/mafft-7.525-d3lothmlbu4bobiwjhbataj2ickmwren/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/mafft-7.525-d3lothmlbu4bobiwjhbataj2ickmwren/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/mafft-7.525-d3lothmlbu4bobiwjhbataj2ickmwren/.} +setenv MAFFT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/mafft-7.525-d3lothmlbu4bobiwjhbataj2ickmwren} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/maven/3.8.4 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/maven/3.8.4 new file mode 100644 index 00000000..7ae54619 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/maven/3.8.4 @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:46.554224 +## +## maven@3.8.4%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/kbd4w5r +## + + +module-whatis {Apache Maven is a software project management and comprehension tool.} + +proc ModulesHelp { } { + puts stderr {Name : maven} + puts stderr {Version: 3.8.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Apache Maven is a software project management and comprehension tool.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load openjdk/17.0.11_9 +} else { + depends-on openjdk/17.0.11_9 +} +conflict maven + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/maven-3.8.4/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/maven-3.8.4/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/maven-3.8.4/.} +setenv MAVEN_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/maven-3.8.4-kbd4w5rffuegs4s3dqnaxb24t2w4d4a7} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/mcl/14-137 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/mcl/14-137 new file mode 100644 index 00000000..59f5279e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/mcl/14-137 @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:46.577805 +## +## mcl@14-137%gcc@13.2.0~blast build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/grslhnu +## + + +module-whatis {The MCL algorithm is short for the Markov Cluster Algorithm, a fast and scalable unsupervised cluster algorithm for graphs (also known as networks) based on simulation of (stochastic) flow in graphs.} + +proc ModulesHelp { } { + puts stderr {Name : mcl} + puts stderr {Version: 14-137} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The MCL algorithm is short for the Markov Cluster Algorithm, a fast and} + puts stderr {scalable unsupervised cluster algorithm for graphs (also known as} + puts stderr {networks) based on simulation of (stochastic) flow in graphs.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict mcl + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/mcl-14-137/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/mcl-14-137/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/mcl-14-137/.} +setenv MCL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/mcl-14-137-grslhnur6wmxxmok25zrhm53tygfgtro} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/megahit/1.1.4 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/megahit/1.1.4 new file mode 100644 index 00000000..cafcba49 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/megahit/1.1.4 @@ -0,0 +1,63 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2024-12-19 13:36:46.169475 +## +## megahit@1.1.4%gcc@7.5.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/2sgegr6 +## + + +module-whatis {MEGAHIT: An ultra-fast single-node solution for large and complex metagenomics assembly via succinct de Bruijn graph} + +proc ModulesHelp { } { + puts stderr {Name : megahit} + puts stderr {Version: 1.1.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {MEGAHIT: An ultra-fast single-node solution for large and complex} + puts stderr {metagenomics assembly via succinct de Bruijn graph} +} + +conflict megahit + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/megahit-1.1.4/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/megahit-1.1.4/.} +setenv MEGAHIT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/megahit-1.1.4-2sgegr6jhrqmdyipw67awrwhajx3t2zw} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/megahit/1.2.9 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/megahit/1.2.9 new file mode 100644 index 00000000..b4f204c7 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/megahit/1.2.9 @@ -0,0 +1,65 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:46.609889 +## +## megahit@1.2.9%gcc@7.5.0~ipo build_system=cmake build_type=Release generator=make patches=54367ad arch=linux-ubuntu22.04-x86_64_v3/zqpnt6y +## +## Configure options: -DCMAKE_BUILD_TYPE=Release +## + + +module-whatis {MEGAHIT: An ultra-fast single-node solution for large and complex metagenomics assembly via succinct de Bruijn graph} + +proc ModulesHelp { } { + puts stderr {Name : megahit} + puts stderr {Version: 1.2.9} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {MEGAHIT: An ultra-fast single-node solution for large and complex} + puts stderr {metagenomics assembly via succinct de Bruijn graph} +} + +conflict megahit + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/megahit-1.2.9/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/megahit-1.2.9/.} +setenv MEGAHIT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/megahit-1.2.9-zqpnt6ymyl2osc526z2xzczamker6mal} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/mesa-glu/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/mesa-glu/.modulerc new file mode 100644 index 00000000..a069fa15 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/mesa-glu/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded mesa-glu/9.0.2-7qbvnqr diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/mesa-glu/9.0.2-7qbvnqr b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/mesa-glu/9.0.2-7qbvnqr new file mode 100644 index 00000000..d54e20e7 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/mesa-glu/9.0.2-7qbvnqr @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:46.772557 +## +## mesa-glu@9.0.2%gcc@13.2.0 build_system=autotools patches=3d03e55 arch=linux-ubuntu22.04-x86_64_v3/7qbvnqr +## +## Configure options: --disable-libglvnd --disable-osmesa +## + + +module-whatis {This package provides the Mesa OpenGL Utility library.} + +proc ModulesHelp { } { + puts stderr {Name : mesa-glu} + puts stderr {Version: 9.0.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {This package provides the Mesa OpenGL Utility library.} +} + +conflict mesa-glu + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/mesa-glu-9.0.2-7qbvnqr66sympz54vepw4raxvbff5x4c/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/mesa-glu-9.0.2-7qbvnqr66sympz54vepw4raxvbff5x4c/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/mesa-glu-9.0.2-7qbvnqr66sympz54vepw4raxvbff5x4c/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/mesa-glu-9.0.2-7qbvnqr66sympz54vepw4raxvbff5x4c/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/mesa-glu-9.0.2-7qbvnqr66sympz54vepw4raxvbff5x4c/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/mesa-glu-9.0.2-7qbvnqr66sympz54vepw4raxvbff5x4c/.} +setenv MESA_GLU_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/mesa-glu-9.0.2-7qbvnqr66sympz54vepw4raxvbff5x4c} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/mesa/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/mesa/.modulerc new file mode 100644 index 00000000..4865c8d0 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/mesa/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded mesa/23.3.6-lhtd7ly +module-hide --soft --hidden-loaded mesa/23.3.6-nodtbdb diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/mesa/23.3.6-lhtd7ly b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/mesa/23.3.6-lhtd7ly new file mode 100644 index 00000000..e7395933 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/mesa/23.3.6-lhtd7ly @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:46.736618 +## +## mesa@23.3.6%gcc@11.4.0+glx+llvm+opengl~opengles+osmesa~strip build_system=meson buildtype=release default_library=shared arch=linux-ubuntu22.04-x86_64_v3/lhtd7ly +## + + +module-whatis {Mesa is an open-source implementation of the OpenGL specification - a system for rendering interactive 3D graphics.} + +proc ModulesHelp { } { + puts stderr {Name : mesa} + puts stderr {Version: 23.3.6} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Mesa is an open-source implementation of the OpenGL specification - a} + puts stderr {system for rendering interactive 3D graphics.} +} + +conflict mesa + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mesa-23.3.6-lhtd7ly34amuc2dmgzfhlrr3fiuy2le3/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mesa-23.3.6-lhtd7ly34amuc2dmgzfhlrr3fiuy2le3/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mesa-23.3.6-lhtd7ly34amuc2dmgzfhlrr3fiuy2le3/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mesa-23.3.6-lhtd7ly34amuc2dmgzfhlrr3fiuy2le3/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mesa-23.3.6-lhtd7ly34amuc2dmgzfhlrr3fiuy2le3/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mesa-23.3.6-lhtd7ly34amuc2dmgzfhlrr3fiuy2le3/.} +prepend-path XLOCALEDIR {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libx11-1.8.10-unej5ji4ptyf5ujs2ovph2sfuxtdmdqc/share/X11/locale} +setenv MESA_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/mesa-23.3.6-lhtd7ly34amuc2dmgzfhlrr3fiuy2le3} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/mesa/23.3.6-nodtbdb b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/mesa/23.3.6-nodtbdb new file mode 100644 index 00000000..ace60aed --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/mesa/23.3.6-nodtbdb @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:46.753573 +## +## mesa@23.3.6%gcc@13.2.0+glx+llvm+opengl~opengles+osmesa~strip build_system=meson buildtype=release default_library=shared arch=linux-ubuntu22.04-x86_64_v3/nodtbdb +## + + +module-whatis {Mesa is an open-source implementation of the OpenGL specification - a system for rendering interactive 3D graphics.} + +proc ModulesHelp { } { + puts stderr {Name : mesa} + puts stderr {Version: 23.3.6} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Mesa is an open-source implementation of the OpenGL specification - a} + puts stderr {system for rendering interactive 3D graphics.} +} + +conflict mesa + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/mesa-23.3.6-nodtbdbm5fgw27bonv6krjxkgu6bsh6c/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/mesa-23.3.6-nodtbdbm5fgw27bonv6krjxkgu6bsh6c/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/mesa-23.3.6-nodtbdbm5fgw27bonv6krjxkgu6bsh6c/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/mesa-23.3.6-nodtbdbm5fgw27bonv6krjxkgu6bsh6c/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/mesa-23.3.6-nodtbdbm5fgw27bonv6krjxkgu6bsh6c/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/mesa-23.3.6-nodtbdbm5fgw27bonv6krjxkgu6bsh6c/.} +prepend-path XLOCALEDIR {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libx11-1.8.10-dufv2eokil27hgb3ao7tuotsswt65llr/share/X11/locale} +setenv MESA_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/mesa-23.3.6-nodtbdbm5fgw27bonv6krjxkgu6bsh6c} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/minced/0.4.2 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/minced/0.4.2 new file mode 100644 index 00000000..14566a50 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/minced/0.4.2 @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:46.790753 +## +## minced@0.4.2%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/telupda +## + + +module-whatis {MinCED is a program to find Clustered Regularly Interspaced Short Palindromic Repeats (CRISPRs) in full genomes or environmental datasets such as metagenomes, in which sequence size can be anywhere from 100 to 800 bp.} + +proc ModulesHelp { } { + puts stderr {Name : minced} + puts stderr {Version: 0.4.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {MinCED is a program to find Clustered Regularly Interspaced Short} + puts stderr {Palindromic Repeats (CRISPRs) in full genomes or environmental datasets} + puts stderr {such as metagenomes, in which sequence size can be anywhere from 100 to} + puts stderr {800 bp.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load openjdk/17.0.11_9 +} else { + depends-on openjdk/17.0.11_9 +} +conflict minced + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/minced-0.4.2/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/minced-0.4.2/.} +setenv MINCED_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/minced-0.4.2-telupdag2f7qcsibsez3a5c5si6eocsi} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/miniasm/2018-3-30 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/miniasm/2018-3-30 new file mode 100644 index 00000000..4c14802d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/miniasm/2018-3-30 @@ -0,0 +1,62 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:46.814085 +## +## miniasm@2018-3-30%gcc@13.2.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/le2fp7h +## + + +module-whatis {Miniasm is a very fast OLC-based de novo assembler for noisy long reads.} + +proc ModulesHelp { } { + puts stderr {Name : miniasm} + puts stderr {Version: 2018-3-30} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Miniasm is a very fast OLC-based de novo assembler for noisy long reads.} +} + +conflict miniasm + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/miniasm-2018-3-30/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/miniasm-2018-3-30/.} +setenv MINIASM_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/miniasm-2018-3-30-le2fp7h3sg56vk6lkojzz33aff4npxfr} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/minimap2/2.26 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/minimap2/2.26 new file mode 100644 index 00000000..6543a399 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/minimap2/2.26 @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:46.837984 +## +## minimap2@2.26%gcc@13.2.0~jstools build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/47n6jyv +## + + +module-whatis {Minimap2 is a versatile sequence alignment program that aligns DNA or mRNA sequences against a large reference database. Mappy provides a convenient interface to minimap2.} + +proc ModulesHelp { } { + puts stderr {Name : minimap2} + puts stderr {Version: 2.26} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Minimap2 is a versatile sequence alignment program that aligns DNA or} + puts stderr {mRNA sequences against a large reference database. Mappy provides a} + puts stderr {convenient interface to minimap2.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict minimap2 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/lib/python3.11/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/bin} +setenv MINIMAP2_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/minimap2-2.26-47n6jyvhmpujqr36dxw3lf7e6zgrhp6w} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/mirdeep2/0.0.8 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/mirdeep2/0.0.8 new file mode 100644 index 00000000..ed976b82 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/mirdeep2/0.0.8 @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:47.006360 +## +## mirdeep2@0.0.8%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/7icwadg +## + + +module-whatis {miRDeep2 is a completely overhauled tool which discovers microRNA genes by analyzing sequenced RNAs.} + +proc ModulesHelp { } { + puts stderr {Name : mirdeep2} + puts stderr {Version: 0.0.8} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {miRDeep2 is a completely overhauled tool which discovers microRNA genes} + puts stderr {by analyzing sequenced RNAs.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load perl-pdf-api2/2.044-gamli2d +} else { + depends-on perl/5.40.0-lzbctij + depends-on perl-pdf-api2/2.044-gamli2d +} +conflict mirdeep2 + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/mirdeep2-0.0.8/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/mirdeep2-0.0.8/.} +setenv MIRDEEP2_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/mirdeep2-0.0.8-7icwadgbuawudhy3sjn7vcwuft3xgchk} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/mlxup/4.30.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/mlxup/4.30.0 new file mode 100644 index 00000000..01590398 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/mlxup/4.30.0 @@ -0,0 +1,66 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:47.181832 +## +## mlxup@4.30.0%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/zchvtby +## + + +module-whatis {A firmware update and query utility. The utility enables scanning the server machine for available NVIDIA adapters and indicates whether firmware update is required for each adapter. To make it easier for our customers the mlxup can also automatically update the latest firmware either from the web, or use binaries provided locally.} + +proc ModulesHelp { } { + puts stderr {Name : mlxup} + puts stderr {Version: 4.30.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A firmware update and query utility. The utility enables scanning the} + puts stderr {server machine for available NVIDIA adapters and indicates whether} + puts stderr {firmware update is required for each adapter. To make it easier for our} + puts stderr {customers the mlxup can also automatically update the latest firmware} + puts stderr {either from the web, or use binaries provided locally.} +} + +conflict mlxup + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/mlxup-4.30.0/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/mlxup-4.30.0/.} +setenv MLXUP_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/mlxup-4.30.0-zchvtbyjeqhlti2zyj2wj7hbtguonlh7} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/mmseqs2/14-7e284 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/mmseqs2/14-7e284 new file mode 100644 index 00000000..97ce1526 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/mmseqs2/14-7e284 @@ -0,0 +1,65 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:47.204776 +## +## mmseqs2@14-7e284%gcc@13.2.0~ipo~mpi~openmp build_system=cmake build_type=Release generator=make patches=673737a arch=linux-ubuntu22.04-x86_64_v3/mqkzidr +## +## Configure options: -DVERSION_OVERRIDE=14-7e284 -DUSE_SYSTEM_ZSTD=1 -DREQUIRE_OPENMP=0 -DHAVE_MPI=0 +## + + +module-whatis {MMseqs2 (Many-against-Many sequence searching) is a software suite to search and cluster huge protein and nucleotide sequence sets} + +proc ModulesHelp { } { + puts stderr {Name : mmseqs2} + puts stderr {Version: 14-7e284} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {MMseqs2 (Many-against-Many sequence searching) is a software suite to} + puts stderr {search and cluster huge protein and nucleotide sequence sets} +} + +conflict mmseqs2 + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/mmseqs2-14-7e284/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/mmseqs2-14-7e284/.} +setenv MMSEQS2_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/mmseqs2-14-7e284-mqkzidrpydorqn7z6zgrykzi2day2jnm} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/mpfr/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/mpfr/.modulerc new file mode 100644 index 00000000..fe0c8656 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/mpfr/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded mpfr/4.2.1-rvgwtnq diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/mpfr/4.2.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/mpfr/4.2.0 new file mode 100644 index 00000000..7125ebf0 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/mpfr/4.2.0 @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:47.227509 +## +## mpfr@4.2.0%gcc@13.2.0 build_system=autotools libs=shared,static arch=linux-ubuntu22.04-x86_64_v3/qeuyryz +## +## Configure options: --with-gmp=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gmp-6.3.0-agkxpsht5r4tgfgemg5kdgajvdlvloyd --enable-shared --enable-static --with-pic +## + + +module-whatis {The MPFR library is a C library for multiple-precision floating-point computations with correct rounding.} + +proc ModulesHelp { } { + puts stderr {Name : mpfr} + puts stderr {Version: 4.2.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The MPFR library is a C library for multiple-precision floating-point} + puts stderr {computations with correct rounding.} +} + +conflict mpfr + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/mpfr-4.2.0/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/mpfr-4.2.0/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/mpfr-4.2.0/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/mpfr-4.2.0/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/mpfr-4.2.0/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/mpfr-4.2.0/.} +setenv MPFR_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/mpfr-4.2.0-qeuyryzbbjdoxycbs63xwitod5pluqty} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/mpfr/4.2.1-rvgwtnq b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/mpfr/4.2.1-rvgwtnq new file mode 100644 index 00000000..a9f5d42d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/mpfr/4.2.1-rvgwtnq @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:47.305305 +## +## mpfr@4.2.1%gcc@13.2.0 build_system=autotools libs=shared,static arch=linux-ubuntu22.04-x86_64_v3/rvgwtnq +## +## Configure options: --with-gmp=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gmp-6.3.0-agkxpsht5r4tgfgemg5kdgajvdlvloyd --enable-shared --enable-static --with-pic +## + + +module-whatis {The MPFR library is a C library for multiple-precision floating-point computations with correct rounding.} + +proc ModulesHelp { } { + puts stderr {Name : mpfr} + puts stderr {Version: 4.2.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The MPFR library is a C library for multiple-precision floating-point} + puts stderr {computations with correct rounding.} +} + +conflict mpfr + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/mpfr-4.2.1-rvgwtnqtombxu5gxfaso6wm5hf75ujnk/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/mpfr-4.2.1-rvgwtnqtombxu5gxfaso6wm5hf75ujnk/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/mpfr-4.2.1-rvgwtnqtombxu5gxfaso6wm5hf75ujnk/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/mpfr-4.2.1-rvgwtnqtombxu5gxfaso6wm5hf75ujnk/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/mpfr-4.2.1-rvgwtnqtombxu5gxfaso6wm5hf75ujnk/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/mpfr-4.2.1-rvgwtnqtombxu5gxfaso6wm5hf75ujnk/.} +setenv MPFR_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/mpfr-4.2.1-rvgwtnqtombxu5gxfaso6wm5hf75ujnk} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/mpich/4.2.1 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/mpich/4.2.1 new file mode 100644 index 00000000..dd486595 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/mpich/4.2.1 @@ -0,0 +1,76 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:47.357192 +## +## mpich@4.2.1%gcc@13.2.0~argobots+cuda+fortran~hcoll+hwloc+hydra+libxml2+pci~rocm+romio~slurm~vci~verbs+wrapperrpath~xpmem build_system=autotools cuda_arch=75,86 datatype-engine=auto device=ch4 netmod=ucx pmi=pmix arch=linux-ubuntu22.04-x86_64_v3/dx22asw +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {MPICH is a high performance and widely portable implementation of the Message Passing Interface (MPI) standard.} + +proc ModulesHelp { } { + puts stderr {Name : mpich} + puts stderr {Version: 4.2.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {MPICH is a high performance and widely portable implementation of the} + puts stderr {Message Passing Interface (MPI) standard.} +} + +conflict mpich + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/mpich-4.2.1/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/mpich-4.2.1/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/mpich-4.2.1/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/mpich-4.2.1/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/mpich-4.2.1/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/mpich-4.2.1/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/mpich-4.2.1/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/mpich-4.2.1/.} +setenv MPICC {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/mpich-4.2.1/bin/mpicc} +setenv MPICXX {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/mpich-4.2.1/bin/mpic++} +setenv MPIF77 {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/mpich-4.2.1/bin/mpif77} +setenv MPIF90 {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/mpich-4.2.1/bin/mpif90} +setenv MPICH_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/mpich-4.2.1} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/multiqc/1.23 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/multiqc/1.23 new file mode 100644 index 00000000..965649e5 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/multiqc/1.23 @@ -0,0 +1,116 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:29.591081 +## +## py-multiqc@1.23%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/eolumh7 +## + + +module-whatis {MultiQC is a tool to aggregate bioinformatics results across many samples into a single report. It is written in Python and contains modules for a large number of common bioinformatics tools.} + +proc ModulesHelp { } { + puts stderr {Name : py-multiqc} + puts stderr {Version: 1.23} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {MultiQC is a tool to aggregate bioinformatics results across many} + puts stderr {samples into a single report. It is written in Python and contains} + puts stderr {modules for a large number of common bioinformatics tools.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-click/8.1.7-kjrzl6j + module load py-coloredlogs/15.0.1-koguzbh + module load py-humanize/4.9.0-aaozfuc + module load py-importlib-metadata/7.0.1-zicbpxt + module load py-jinja2/3.1.4-4gsb36v + module load py-kaleido/0.2.1-riennrc + module load py-markdown/3.4.1-tcuvdv4 + module load py-natsort/8.4.0-6dhkqjr + module load py-numpy/1.26.4-pzeanm2 + module load py-packaging/24.1-a36mhum + module load py-pillow/11.0.0-ofhp5he + module load py-plotly/5.20.0-er524ij + module load py-pyaml-env/1.2.1-angiqop + module load py-pydantic/2.7.4-srj25r3 + module load py-pyyaml/6.0.2-xo53gxx + module load py-requests/2.32.3-2wr6uxx + module load py-rich/13.7.1-o74bxaf + module load py-rich-click/1.5.2-i46u4y4 + module load py-spectra/0.0.11-p3nmzwl + module load py-tqdm/4.66.3-mnhyrue + module load py-typeguard/3.0.2-2o5k3sy + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-click/8.1.7-kjrzl6j + depends-on py-coloredlogs/15.0.1-koguzbh + depends-on py-humanize/4.9.0-aaozfuc + depends-on py-importlib-metadata/7.0.1-zicbpxt + depends-on py-jinja2/3.1.4-4gsb36v + depends-on py-kaleido/0.2.1-riennrc + depends-on py-markdown/3.4.1-tcuvdv4 + depends-on py-natsort/8.4.0-6dhkqjr + depends-on py-numpy/1.26.4-pzeanm2 + depends-on py-packaging/24.1-a36mhum + depends-on py-pillow/11.0.0-ofhp5he + depends-on py-plotly/5.20.0-er524ij + depends-on py-pyaml-env/1.2.1-angiqop + depends-on py-pydantic/2.7.4-srj25r3 + depends-on py-pyyaml/6.0.2-xo53gxx + depends-on py-requests/2.32.3-2wr6uxx + depends-on py-rich/13.7.1-o74bxaf + depends-on py-rich-click/1.5.2-i46u4y4 + depends-on py-spectra/0.0.11-p3nmzwl + depends-on py-tqdm/4.66.3-mnhyrue + depends-on py-typeguard/3.0.2-2o5k3sy + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-multiqc + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/lib/python3.11/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/bin} +setenv PY_MULTIQC_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-multiqc-1.23-eolumh7kalyueoik6coe43wbe2w3gjmg} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/mummer/3.23 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/mummer/3.23 new file mode 100644 index 00000000..c3171f41 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/mummer/3.23 @@ -0,0 +1,67 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:47.414686 +## +## mummer@3.23%gcc@13.2.0 build_system=generic patches=05f53ea,c23ea85 arch=linux-ubuntu22.04-x86_64_v3/p3pl7ud +## + + +module-whatis {MUMmer is a system for rapidly aligning entire genomes.} + +proc ModulesHelp { } { + puts stderr {Name : mummer} + puts stderr {Version: 3.23} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {MUMmer is a system for rapidly aligning entire genomes.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict mummer + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/mummer-3.23/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/mummer-3.23/.} +setenv MUMMER_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/mummer-3.23-p3pl7udpvnr3xdke6y6v7z65ns7zvhut} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/muscle/3.8.1551 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/muscle/3.8.1551 new file mode 100644 index 00000000..f088e1e3 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/muscle/3.8.1551 @@ -0,0 +1,64 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:47.509162 +## +## muscle@3.8.1551%gcc@13.2.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/cexf6ge +## + + +module-whatis {MUSCLE is one of the best-performing multiple alignment programs according to published benchmark tests, with accuracy and speed that are consistently better than CLUSTALW.} + +proc ModulesHelp { } { + puts stderr {Name : muscle} + puts stderr {Version: 3.8.1551} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {MUSCLE is one of the best-performing multiple alignment programs} + puts stderr {according to published benchmark tests, with accuracy and speed that are} + puts stderr {consistently better than CLUSTALW.} +} + +conflict muscle + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/muscle-3.8.1551/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/muscle-3.8.1551/.} +setenv MUSCLE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/muscle-3.8.1551-cexf6gegioec3pqj7byndeeph4k425qa} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/muscle5/5.1.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/muscle5/5.1.0 new file mode 100644 index 00000000..92a42ccc --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/muscle5/5.1.0 @@ -0,0 +1,63 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:47.531421 +## +## muscle5@5.1.0%gcc@13.2.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/y42sn5s +## + + +module-whatis {MUSCLE is widely-used software for making multiple alignments of biological sequences. } + +proc ModulesHelp { } { + puts stderr {Name : muscle5} + puts stderr {Version: 5.1.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {MUSCLE is widely-used software for making multiple alignments of} + puts stderr {biological sequences.} +} + +conflict muscle5 + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/muscle5-5.1.0/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/muscle5-5.1.0/.} +setenv MUSCLE5_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/muscle5-5.1.0-y42sn5sitserh66bqgynw4xkeggxzu2y} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/nanoporetech-dorado/0.3.4 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/nanoporetech-dorado/0.3.4 new file mode 100644 index 00000000..2f245ff0 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/nanoporetech-dorado/0.3.4 @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:47.552694 +## +## nanoporetech-dorado@0.3.4%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/2kypoad +## + + +module-whatis {Dorado: local accelerated basecalling for Nanopore data} + +proc ModulesHelp { } { + puts stderr {Name : nanoporetech-dorado} + puts stderr {Version: 0.3.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Dorado: local accelerated basecalling for Nanopore data} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load cuda/12.6.2 +} else { + depends-on cuda/12.6.2 +} +conflict nanoporetech-dorado + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/nanoporetech-dorado-0.3.4/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/nanoporetech-dorado-0.3.4/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/nanoporetech-dorado-0.3.4/.} +setenv NANOPORETECH_DORADO_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/nanoporetech-dorado-0.3.4-2kypoaddqkh6kqw73kulkc2sspjrwcaj} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ncbi-rmblastn/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ncbi-rmblastn/.modulerc new file mode 100644 index 00000000..621ebcd8 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ncbi-rmblastn/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded ncbi-rmblastn/2.14.0-spm6vjl +module-hide --soft --hidden-loaded ncbi-rmblastn/2.14.0-mni752q diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ncbi-rmblastn/2.14.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ncbi-rmblastn/2.14.0 new file mode 100644 index 00000000..4def6bb7 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ncbi-rmblastn/2.14.0 @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:47.597783 +## +## ncbi-rmblastn@2.14.0%gcc@13.2.0 build_system=autotools patches=07c3ce4,cd083f2 arch=linux-ubuntu22.04-x86_64_v3/l3reyjd +## +## Configure options: --with-mt --without-debug --without-krb5 --without-openssl --without-libuv --with-projects=scripts/projects/rmblastn/project.lst +## + + +module-whatis {RMBlast search engine for NCBI} + +proc ModulesHelp { } { + puts stderr {Name : ncbi-rmblastn} + puts stderr {Version: 2.14.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {RMBlast search engine for NCBI} +} + +conflict ncbi-rmblastn + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/ncbi-rmblastn-2.14.0/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/ncbi-rmblastn-2.14.0/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/ncbi-rmblastn-2.14.0/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/ncbi-rmblastn-2.14.0/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/ncbi-rmblastn-2.14.0/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/ncbi-rmblastn-2.14.0/.} +setenv NCBI_RMBLASTN_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/ncbi-rmblastn-2.14.0-l3reyjdoi3l7dtmmkosjnhh4xgchuar5} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ncbi-rmblastn/2.14.0-mni752q b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ncbi-rmblastn/2.14.0-mni752q new file mode 100644 index 00000000..80acbe47 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ncbi-rmblastn/2.14.0-mni752q @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:47.611482 +## +## ncbi-rmblastn@2.14.0%gcc@13.2.0 build_system=autotools patches=07c3ce4,cd083f2 arch=linux-ubuntu22.04-x86_64_v3/mni752q +## +## Configure options: --with-mt --without-debug --without-krb5 --without-openssl --without-libuv --with-projects=scripts/projects/rmblastn/project.lst +## + + +module-whatis {RMBlast search engine for NCBI} + +proc ModulesHelp { } { + puts stderr {Name : ncbi-rmblastn} + puts stderr {Version: 2.14.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {RMBlast search engine for NCBI} +} + +conflict ncbi-rmblastn + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/ncbi-rmblastn-2.14.0-mni752q5lurvg547mkowwrkuu34ltnw7/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/ncbi-rmblastn-2.14.0-mni752q5lurvg547mkowwrkuu34ltnw7/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/ncbi-rmblastn-2.14.0-mni752q5lurvg547mkowwrkuu34ltnw7/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/ncbi-rmblastn-2.14.0-mni752q5lurvg547mkowwrkuu34ltnw7/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/ncbi-rmblastn-2.14.0-mni752q5lurvg547mkowwrkuu34ltnw7/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/ncbi-rmblastn-2.14.0-mni752q5lurvg547mkowwrkuu34ltnw7/.} +setenv NCBI_RMBLASTN_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/ncbi-rmblastn-2.14.0-mni752q5lurvg547mkowwrkuu34ltnw7} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ncbi-rmblastn/2.14.0-spm6vjl b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ncbi-rmblastn/2.14.0-spm6vjl new file mode 100644 index 00000000..8abce6b8 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ncbi-rmblastn/2.14.0-spm6vjl @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:47.575379 +## +## ncbi-rmblastn@2.14.0%gcc@13.2.0 build_system=autotools patches=07c3ce4,cd083f2 arch=linux-ubuntu22.04-x86_64_v3/spm6vjl +## +## Configure options: --with-mt --without-debug --without-krb5 --without-openssl --without-libuv --with-projects=scripts/projects/rmblastn/project.lst +## + + +module-whatis {RMBlast search engine for NCBI} + +proc ModulesHelp { } { + puts stderr {Name : ncbi-rmblastn} + puts stderr {Version: 2.14.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {RMBlast search engine for NCBI} +} + +conflict ncbi-rmblastn + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/ncbi-rmblastn-2.14.0-spm6vjlxwbsou54xrgovflrxtgvrh335/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/ncbi-rmblastn-2.14.0-spm6vjlxwbsou54xrgovflrxtgvrh335/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/ncbi-rmblastn-2.14.0-spm6vjlxwbsou54xrgovflrxtgvrh335/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/ncbi-rmblastn-2.14.0-spm6vjlxwbsou54xrgovflrxtgvrh335/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/ncbi-rmblastn-2.14.0-spm6vjlxwbsou54xrgovflrxtgvrh335/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/ncbi-rmblastn-2.14.0-spm6vjlxwbsou54xrgovflrxtgvrh335/.} +setenv NCBI_RMBLASTN_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/ncbi-rmblastn-2.14.0-spm6vjlxwbsou54xrgovflrxtgvrh335} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ncbi-vdb/3.0.2 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ncbi-vdb/3.0.2 new file mode 100644 index 00000000..18039bf1 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ncbi-vdb/3.0.2 @@ -0,0 +1,67 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:47.622757 +## +## ncbi-vdb@3.0.2%gcc@13.2.0~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/tstoqwc +## + + +module-whatis {The SRA Toolkit and SDK from NCBI is a collection of tools and libraries for using data in the INSDC Sequence Read Archives. This package contains the interface to the VDB.} + +proc ModulesHelp { } { + puts stderr {Name : ncbi-vdb} + puts stderr {Version: 3.0.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The SRA Toolkit and SDK from NCBI is a collection of tools and libraries} + puts stderr {for using data in the INSDC Sequence Read Archives. This package} + puts stderr {contains the interface to the VDB.} +} + +conflict ncbi-vdb + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/ncbi-vdb-3.0.2/lib64} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/ncbi-vdb-3.0.2/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/ncbi-vdb-3.0.2/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/ncbi-vdb-3.0.2/include} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/ncbi-vdb-3.0.2/.} +setenv NCBI_VDB_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/ncbi-vdb-3.0.2-tstoqwctgw4geykug4nhsc3vewye357h} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/nccl/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/nccl/.modulerc new file mode 100644 index 00000000..8bfe0e1c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/nccl/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded nccl/2.22.3-1-jvqgzob diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/nccl/2.22.3-1-jvqgzob b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/nccl/2.22.3-1-jvqgzob new file mode 100644 index 00000000..10bee367 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/nccl/2.22.3-1-jvqgzob @@ -0,0 +1,66 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:47.662290 +## +## nccl@2.22.3-1%gcc@13.2.0+cuda build_system=makefile cuda_arch=75 arch=linux-ubuntu22.04-x86_64_v3/jvqgzob +## + + +module-whatis {Optimized primitives for collective multi-GPU communication.} + +proc ModulesHelp { } { + puts stderr {Name : nccl} + puts stderr {Version: 2.22.3-1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Optimized primitives for collective multi-GPU communication.} +} + +conflict nccl + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/nccl-2.22.3-1-jvqgzobokjcmp3zvskt77ntecxo6lylh/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/nccl-2.22.3-1-jvqgzobokjcmp3zvskt77ntecxo6lylh/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/nccl-2.22.3-1-jvqgzobokjcmp3zvskt77ntecxo6lylh/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/nccl-2.22.3-1-jvqgzobokjcmp3zvskt77ntecxo6lylh/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/nccl-2.22.3-1-jvqgzobokjcmp3zvskt77ntecxo6lylh/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/nccl-2.22.3-1-jvqgzobokjcmp3zvskt77ntecxo6lylh/.} +setenv NCCL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/nccl-2.22.3-1-jvqgzobokjcmp3zvskt77ntecxo6lylh} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/nco/5.1.9 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/nco/5.1.9 new file mode 100644 index 00000000..874b8f3b --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/nco/5.1.9 @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:47.701968 +## +## nco@5.1.9%gcc@13.2.0~doc build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/huaidte +## +## Configure options: --disable-doc +## + + +module-whatis {The NCO toolkit manipulates and analyzes data stored in netCDF-accessible formats} + +proc ModulesHelp { } { + puts stderr {Name : nco} + puts stderr {Version: 5.1.9} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The NCO toolkit manipulates and analyzes data stored in netCDF-} + puts stderr {accessible formats} +} + +conflict nco + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/nco-5.1.9/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/nco-5.1.9/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/nco-5.1.9/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/nco-5.1.9/.} +setenv NCO_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/nco-5.1.9-huaidte4nkelcuz2ypowsafdhodpsorg} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ncurses/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ncurses/.modulerc new file mode 100644 index 00000000..5567806e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ncurses/.modulerc @@ -0,0 +1,5 @@ +#%Module4.7 +module-hide --soft --hidden-loaded ncurses/6.5-gk4xs2i +module-hide --soft --hidden-loaded ncurses/6.5-rvg7j6b +module-hide --soft --hidden-loaded ncurses/6.5-4bsaj3q +module-hide --soft --hidden-loaded ncurses/6.5-khahbv4 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ncurses/6.5-4bsaj3q b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ncurses/6.5-4bsaj3q new file mode 100644 index 00000000..2625e613 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ncurses/6.5-4bsaj3q @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:47.792692 +## +## ncurses@6.5%gcc@13.2.0~symlinks+termlib abi=none build_system=autotools patches=7a351bc arch=linux-ubuntu22.04-x86_64_v3/4bsaj3q +## + + +module-whatis {The ncurses (new curses) library is a free software emulation of curses in System V Release 4.0, and more. It uses terminfo format, supports pads and color and multiple highlights and forms characters and function-key mapping, and has all the other SYSV-curses enhancements over BSD curses.} + +proc ModulesHelp { } { + puts stderr {Name : ncurses} + puts stderr {Version: 6.5} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The ncurses (new curses) library is a free software emulation of curses} + puts stderr {in System V Release 4.0, and more. It uses terminfo format, supports} + puts stderr {pads and color and multiple highlights and forms characters and} + puts stderr {function-key mapping, and has all the other SYSV-curses enhancements} + puts stderr {over BSD curses.} +} + +conflict ncurses + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/ncurses-6.5-4bsaj3qsakrcn3dbkfanz4t4n2meljzs/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/ncurses-6.5-4bsaj3qsakrcn3dbkfanz4t4n2meljzs/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/ncurses-6.5-4bsaj3qsakrcn3dbkfanz4t4n2meljzs/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/ncurses-6.5-4bsaj3qsakrcn3dbkfanz4t4n2meljzs/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/ncurses-6.5-4bsaj3qsakrcn3dbkfanz4t4n2meljzs/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/ncurses-6.5-4bsaj3qsakrcn3dbkfanz4t4n2meljzs/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/ncurses-6.5-4bsaj3qsakrcn3dbkfanz4t4n2meljzs/.} +setenv NCURSES_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/ncurses-6.5-4bsaj3qsakrcn3dbkfanz4t4n2meljzs} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ncurses/6.5-gk4xs2i b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ncurses/6.5-gk4xs2i new file mode 100644 index 00000000..4d7f2bf3 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ncurses/6.5-gk4xs2i @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:47.765004 +## +## ncurses@6.5%gcc@11.4.0~symlinks+termlib abi=none build_system=autotools patches=7a351bc arch=linux-ubuntu22.04-x86_64_v3/gk4xs2i +## + + +module-whatis {The ncurses (new curses) library is a free software emulation of curses in System V Release 4.0, and more. It uses terminfo format, supports pads and color and multiple highlights and forms characters and function-key mapping, and has all the other SYSV-curses enhancements over BSD curses.} + +proc ModulesHelp { } { + puts stderr {Name : ncurses} + puts stderr {Version: 6.5} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The ncurses (new curses) library is a free software emulation of curses} + puts stderr {in System V Release 4.0, and more. It uses terminfo format, supports} + puts stderr {pads and color and multiple highlights and forms characters and} + puts stderr {function-key mapping, and has all the other SYSV-curses enhancements} + puts stderr {over BSD curses.} +} + +conflict ncurses + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ncurses-6.5-gk4xs2idegfiwoyaikamyhxkjrruxtxa/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ncurses-6.5-gk4xs2idegfiwoyaikamyhxkjrruxtxa/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ncurses-6.5-gk4xs2idegfiwoyaikamyhxkjrruxtxa/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ncurses-6.5-gk4xs2idegfiwoyaikamyhxkjrruxtxa/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ncurses-6.5-gk4xs2idegfiwoyaikamyhxkjrruxtxa/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ncurses-6.5-gk4xs2idegfiwoyaikamyhxkjrruxtxa/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ncurses-6.5-gk4xs2idegfiwoyaikamyhxkjrruxtxa/.} +setenv NCURSES_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ncurses-6.5-gk4xs2idegfiwoyaikamyhxkjrruxtxa} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ncurses/6.5-khahbv4 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ncurses/6.5-khahbv4 new file mode 100644 index 00000000..ea8eab41 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ncurses/6.5-khahbv4 @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:47.757940 +## +## ncurses@6.5%gcc@7.5.0~symlinks+termlib abi=none build_system=autotools patches=7a351bc arch=linux-ubuntu22.04-x86_64_v3/khahbv4 +## + + +module-whatis {The ncurses (new curses) library is a free software emulation of curses in System V Release 4.0, and more. It uses terminfo format, supports pads and color and multiple highlights and forms characters and function-key mapping, and has all the other SYSV-curses enhancements over BSD curses.} + +proc ModulesHelp { } { + puts stderr {Name : ncurses} + puts stderr {Version: 6.5} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The ncurses (new curses) library is a free software emulation of curses} + puts stderr {in System V Release 4.0, and more. It uses terminfo format, supports} + puts stderr {pads and color and multiple highlights and forms characters and} + puts stderr {function-key mapping, and has all the other SYSV-curses enhancements} + puts stderr {over BSD curses.} +} + +conflict ncurses + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/ncurses-6.5-khahbv4vwhtfrgl6cg2zodxgg6eggrbv/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/ncurses-6.5-khahbv4vwhtfrgl6cg2zodxgg6eggrbv/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/ncurses-6.5-khahbv4vwhtfrgl6cg2zodxgg6eggrbv/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/ncurses-6.5-khahbv4vwhtfrgl6cg2zodxgg6eggrbv/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/ncurses-6.5-khahbv4vwhtfrgl6cg2zodxgg6eggrbv/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/ncurses-6.5-khahbv4vwhtfrgl6cg2zodxgg6eggrbv/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/ncurses-6.5-khahbv4vwhtfrgl6cg2zodxgg6eggrbv/.} +setenv NCURSES_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/ncurses-6.5-khahbv4vwhtfrgl6cg2zodxgg6eggrbv} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ncurses/6.5-rvg7j6b b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ncurses/6.5-rvg7j6b new file mode 100644 index 00000000..b74c0a8d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ncurses/6.5-rvg7j6b @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:47.772286 +## +## ncurses@6.5%gcc@11.4.0~symlinks+termlib abi=none build_system=autotools patches=7a351bc arch=linux-ubuntu22.04-x86_64_v3/rvg7j6b +## + + +module-whatis {The ncurses (new curses) library is a free software emulation of curses in System V Release 4.0, and more. It uses terminfo format, supports pads and color and multiple highlights and forms characters and function-key mapping, and has all the other SYSV-curses enhancements over BSD curses.} + +proc ModulesHelp { } { + puts stderr {Name : ncurses} + puts stderr {Version: 6.5} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The ncurses (new curses) library is a free software emulation of curses} + puts stderr {in System V Release 4.0, and more. It uses terminfo format, supports} + puts stderr {pads and color and multiple highlights and forms characters and} + puts stderr {function-key mapping, and has all the other SYSV-curses enhancements} + puts stderr {over BSD curses.} +} + +conflict ncurses + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ncurses-6.5-rvg7j6bmergf3is4yoacm5sgsi7l4tvm/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ncurses-6.5-rvg7j6bmergf3is4yoacm5sgsi7l4tvm/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ncurses-6.5-rvg7j6bmergf3is4yoacm5sgsi7l4tvm/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ncurses-6.5-rvg7j6bmergf3is4yoacm5sgsi7l4tvm/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ncurses-6.5-rvg7j6bmergf3is4yoacm5sgsi7l4tvm/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ncurses-6.5-rvg7j6bmergf3is4yoacm5sgsi7l4tvm/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ncurses-6.5-rvg7j6bmergf3is4yoacm5sgsi7l4tvm/.} +setenv NCURSES_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/ncurses-6.5-rvg7j6bmergf3is4yoacm5sgsi7l4tvm} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/netcdf-c/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/netcdf-c/.modulerc new file mode 100644 index 00000000..2a69b4c1 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/netcdf-c/.modulerc @@ -0,0 +1,5 @@ +#%Module4.7 +module-hide --soft --hidden-loaded netcdf-c/4.9.2-4qahbie +module-hide --soft --hidden-loaded netcdf-c/4.9.2-zorfser +module-hide --soft --hidden-loaded netcdf-c/4.9.2-3ysnpt3 +module-hide --soft --hidden-loaded netcdf-c/4.9.2-wu3gqxz diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/netcdf-c/4.9.2 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/netcdf-c/4.9.2 new file mode 100644 index 00000000..3097bf64 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/netcdf-c/4.9.2 @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:47.910156 +## +## netcdf-c@4.9.2%gcc@13.2.0+blosc~byterange+dap+fsync~hdf4~jna~logging~mpi~nczarr_zip+optimize~parallel-netcdf+pic+shared+szip+zstd build_system=autotools patches=0161eb8 arch=linux-ubuntu22.04-x86_64_v3/dmsckrk +## + + +module-whatis {NetCDF (network Common Data Form) is a set of software libraries and machine-independent data formats that support the creation, access, and sharing of array-oriented scientific data. This is the C distribution.} + +proc ModulesHelp { } { + puts stderr {Name : netcdf-c} + puts stderr {Version: 4.9.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {NetCDF (network Common Data Form) is a set of software libraries and} + puts stderr {machine-independent data formats that support the creation, access, and} + puts stderr {sharing of array-oriented scientific data. This is the C distribution.} +} + +conflict netcdf-c + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/netcdf-c-4.9.2/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/netcdf-c-4.9.2/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/netcdf-c-4.9.2/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/netcdf-c-4.9.2/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/netcdf-c-4.9.2/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/netcdf-c-4.9.2/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/netcdf-c-4.9.2/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/netcdf-c-4.9.2/.} +append-path HDF5_PLUGIN_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/netcdf-c-4.9.2/plugins} +setenv NETCDF_C_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/netcdf-c-4.9.2-dmsckrkklftcvw5hdq5i64wbamyjuco7} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/netcdf-c/4.9.2-3ysnpt3 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/netcdf-c/4.9.2-3ysnpt3 new file mode 100644 index 00000000..b8f7846c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/netcdf-c/4.9.2-3ysnpt3 @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:47.851920 +## +## netcdf-c@4.9.2%gcc@13.2.0+blosc~byterange~dap~fsync~hdf4~jna~logging~mpi~nczarr_zip+optimize~parallel-netcdf+pic+shared+szip+zstd build_system=autotools patches=0161eb8 arch=linux-ubuntu22.04-x86_64_v3/3ysnpt3 +## + + +module-whatis {NetCDF (network Common Data Form) is a set of software libraries and machine-independent data formats that support the creation, access, and sharing of array-oriented scientific data. This is the C distribution.} + +proc ModulesHelp { } { + puts stderr {Name : netcdf-c} + puts stderr {Version: 4.9.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {NetCDF (network Common Data Form) is a set of software libraries and} + puts stderr {machine-independent data formats that support the creation, access, and} + puts stderr {sharing of array-oriented scientific data. This is the C distribution.} +} + +conflict netcdf-c + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/netcdf-c-4.9.2-3ysnpt3vuqs7wvcccqd5pfwbou3kpvhb/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/netcdf-c-4.9.2-3ysnpt3vuqs7wvcccqd5pfwbou3kpvhb/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/netcdf-c-4.9.2-3ysnpt3vuqs7wvcccqd5pfwbou3kpvhb/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/netcdf-c-4.9.2-3ysnpt3vuqs7wvcccqd5pfwbou3kpvhb/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/netcdf-c-4.9.2-3ysnpt3vuqs7wvcccqd5pfwbou3kpvhb/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/netcdf-c-4.9.2-3ysnpt3vuqs7wvcccqd5pfwbou3kpvhb/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/netcdf-c-4.9.2-3ysnpt3vuqs7wvcccqd5pfwbou3kpvhb/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/netcdf-c-4.9.2-3ysnpt3vuqs7wvcccqd5pfwbou3kpvhb/.} +append-path HDF5_PLUGIN_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/netcdf-c-4.9.2-3ysnpt3vuqs7wvcccqd5pfwbou3kpvhb/plugins} +setenv NETCDF_C_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/netcdf-c-4.9.2-3ysnpt3vuqs7wvcccqd5pfwbou3kpvhb} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/netcdf-c/4.9.2-4qahbie b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/netcdf-c/4.9.2-4qahbie new file mode 100644 index 00000000..26970c9a --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/netcdf-c/4.9.2-4qahbie @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:47.817078 +## +## netcdf-c@4.9.2%gcc@11.4.0+blosc~byterange~dap~fsync~hdf4~jna~logging~mpi~nczarr_zip+optimize~parallel-netcdf+pic+shared+szip+zstd build_system=autotools patches=0161eb8 arch=linux-ubuntu22.04-x86_64_v3/4qahbie +## + + +module-whatis {NetCDF (network Common Data Form) is a set of software libraries and machine-independent data formats that support the creation, access, and sharing of array-oriented scientific data. This is the C distribution.} + +proc ModulesHelp { } { + puts stderr {Name : netcdf-c} + puts stderr {Version: 4.9.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {NetCDF (network Common Data Form) is a set of software libraries and} + puts stderr {machine-independent data formats that support the creation, access, and} + puts stderr {sharing of array-oriented scientific data. This is the C distribution.} +} + +conflict netcdf-c + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/netcdf-c-4.9.2-4qahbieje4t2wsrvzgmqkkbdwqguwlqo/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/netcdf-c-4.9.2-4qahbieje4t2wsrvzgmqkkbdwqguwlqo/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/netcdf-c-4.9.2-4qahbieje4t2wsrvzgmqkkbdwqguwlqo/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/netcdf-c-4.9.2-4qahbieje4t2wsrvzgmqkkbdwqguwlqo/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/netcdf-c-4.9.2-4qahbieje4t2wsrvzgmqkkbdwqguwlqo/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/netcdf-c-4.9.2-4qahbieje4t2wsrvzgmqkkbdwqguwlqo/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/netcdf-c-4.9.2-4qahbieje4t2wsrvzgmqkkbdwqguwlqo/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/netcdf-c-4.9.2-4qahbieje4t2wsrvzgmqkkbdwqguwlqo/.} +append-path HDF5_PLUGIN_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/netcdf-c-4.9.2-4qahbieje4t2wsrvzgmqkkbdwqguwlqo/plugins} +setenv NETCDF_C_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/netcdf-c-4.9.2-4qahbieje4t2wsrvzgmqkkbdwqguwlqo} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/netcdf-c/4.9.2-wu3gqxz b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/netcdf-c/4.9.2-wu3gqxz new file mode 100644 index 00000000..ad04c75f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/netcdf-c/4.9.2-wu3gqxz @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:48.032679 +## +## netcdf-c@4.9.2%gcc@13.2.0+blosc~byterange~dap~fsync~hdf4~ipo~jna~logging~mpi~nczarr_zip+optimize~parallel-netcdf+pic+shared+szip+zstd build_system=cmake build_type=Release generator=make patches=0161eb8,3b09181 arch=linux-ubuntu22.04-x86_64_v3/wu3gqxz +## + + +module-whatis {NetCDF (network Common Data Form) is a set of software libraries and machine-independent data formats that support the creation, access, and sharing of array-oriented scientific data. This is the C distribution.} + +proc ModulesHelp { } { + puts stderr {Name : netcdf-c} + puts stderr {Version: 4.9.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {NetCDF (network Common Data Form) is a set of software libraries and} + puts stderr {machine-independent data formats that support the creation, access, and} + puts stderr {sharing of array-oriented scientific data. This is the C distribution.} +} + +conflict netcdf-c + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/netcdf-c-4.9.2-wu3gqxzbpjtxocuyx6p6d7n7iqk7r5sn/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/netcdf-c-4.9.2-wu3gqxzbpjtxocuyx6p6d7n7iqk7r5sn/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/netcdf-c-4.9.2-wu3gqxzbpjtxocuyx6p6d7n7iqk7r5sn/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/netcdf-c-4.9.2-wu3gqxzbpjtxocuyx6p6d7n7iqk7r5sn/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/netcdf-c-4.9.2-wu3gqxzbpjtxocuyx6p6d7n7iqk7r5sn/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/netcdf-c-4.9.2-wu3gqxzbpjtxocuyx6p6d7n7iqk7r5sn/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/netcdf-c-4.9.2-wu3gqxzbpjtxocuyx6p6d7n7iqk7r5sn/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/netcdf-c-4.9.2-wu3gqxzbpjtxocuyx6p6d7n7iqk7r5sn/.} +append-path HDF5_PLUGIN_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/netcdf-c-4.9.2-wu3gqxzbpjtxocuyx6p6d7n7iqk7r5sn/plugins} +setenv NETCDF_C_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/netcdf-c-4.9.2-wu3gqxzbpjtxocuyx6p6d7n7iqk7r5sn} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/netcdf-c/4.9.2-zorfser b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/netcdf-c/4.9.2-zorfser new file mode 100644 index 00000000..b0bcc57c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/netcdf-c/4.9.2-zorfser @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:47.840930 +## +## netcdf-c@4.9.2%gcc@13.2.0+blosc~byterange~dap~fsync~hdf4~jna~logging~mpi~nczarr_zip+optimize~parallel-netcdf+pic+shared+szip+zstd build_system=autotools patches=0161eb8 arch=linux-ubuntu22.04-x86_64_v3/zorfser +## + + +module-whatis {NetCDF (network Common Data Form) is a set of software libraries and machine-independent data formats that support the creation, access, and sharing of array-oriented scientific data. This is the C distribution.} + +proc ModulesHelp { } { + puts stderr {Name : netcdf-c} + puts stderr {Version: 4.9.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {NetCDF (network Common Data Form) is a set of software libraries and} + puts stderr {machine-independent data formats that support the creation, access, and} + puts stderr {sharing of array-oriented scientific data. This is the C distribution.} +} + +conflict netcdf-c + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/netcdf-c-4.9.2-zorfserbsooled7s5pyddn42wub35cjb/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/netcdf-c-4.9.2-zorfserbsooled7s5pyddn42wub35cjb/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/netcdf-c-4.9.2-zorfserbsooled7s5pyddn42wub35cjb/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/netcdf-c-4.9.2-zorfserbsooled7s5pyddn42wub35cjb/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/netcdf-c-4.9.2-zorfserbsooled7s5pyddn42wub35cjb/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/netcdf-c-4.9.2-zorfserbsooled7s5pyddn42wub35cjb/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/netcdf-c-4.9.2-zorfserbsooled7s5pyddn42wub35cjb/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/netcdf-c-4.9.2-zorfserbsooled7s5pyddn42wub35cjb/.} +append-path HDF5_PLUGIN_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/netcdf-c-4.9.2-zorfserbsooled7s5pyddn42wub35cjb/plugins} +setenv NETCDF_C_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/netcdf-c-4.9.2-zorfserbsooled7s5pyddn42wub35cjb} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/netcdf-cxx4/4.3.1 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/netcdf-cxx4/4.3.1 new file mode 100644 index 00000000..9e1f51c2 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/netcdf-cxx4/4.3.1 @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:48.106377 +## +## netcdf-cxx4@4.3.1%gcc@13.2.0~doc~ipo+pic+shared~tests build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/egtwjc3 +## +## Configure options: -DBUILD_SHARED_LIBS:BOOL=ON -DENABLE_DOXYGEN:BOOL=OFF -DNCXX_ENABLE_TESTS:BOOL=OFF +## + + +module-whatis {NetCDF (network Common Data Form) is a set of software libraries and machine-independent data formats that support the creation, access, and sharing of array-oriented scientific data. This is the C++ distribution.} + +proc ModulesHelp { } { + puts stderr {Name : netcdf-cxx4} + puts stderr {Version: 4.3.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {NetCDF (network Common Data Form) is a set of software libraries and} + puts stderr {machine-independent data formats that support the creation, access, and} + puts stderr {sharing of array-oriented scientific data. This is the C++ distribution.} +} + +conflict netcdf-cxx4 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/netcdf-cxx4-4.3.1/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/netcdf-cxx4-4.3.1/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/netcdf-cxx4-4.3.1/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/netcdf-cxx4-4.3.1/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/netcdf-cxx4-4.3.1/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/netcdf-cxx4-4.3.1/.} +setenv NETCDF_CXX4_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/netcdf-cxx4-4.3.1-egtwjc3wd3cusaxde2uja7jtty7qm46l} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/netcdf-fortran/4.6.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/netcdf-fortran/4.6.0 new file mode 100644 index 00000000..0c8ef0d7 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/netcdf-fortran/4.6.0 @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:48.221811 +## +## netcdf-fortran@4.6.0%gcc@13.2.0~doc+pic+shared build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/njms67c +## +## Configure options: --enable-static --enable-shared --disable-doxygen +## + + +module-whatis {NetCDF (network Common Data Form) is a set of software libraries and machine-independent data formats that support the creation, access, and sharing of array-oriented scientific data. This is the Fortran distribution.} + +proc ModulesHelp { } { + puts stderr {Name : netcdf-fortran} + puts stderr {Version: 4.6.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {NetCDF (network Common Data Form) is a set of software libraries and} + puts stderr {machine-independent data formats that support the creation, access, and} + puts stderr {sharing of array-oriented scientific data. This is the Fortran} + puts stderr {distribution.} +} + +conflict netcdf-fortran + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/netcdf-fortran-4.6.0/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/netcdf-fortran-4.6.0/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/netcdf-fortran-4.6.0/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/netcdf-fortran-4.6.0/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/netcdf-fortran-4.6.0/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/netcdf-fortran-4.6.0/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/netcdf-fortran-4.6.0/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/netcdf-fortran-4.6.0/.} +setenv NETCDF_FORTRAN_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/netcdf-fortran-4.6.0-njms67cyvr6wpb2v2ukmmnetxyjrqteo} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/netlib-lapack/3.11.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/netlib-lapack/3.11.0 new file mode 100644 index 00000000..e6178f2e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/netlib-lapack/3.11.0 @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:48.337951 +## +## netlib-lapack@3.11.0%gcc@13.2.0~external-blas~ipo+lapacke+pic+shared~xblas build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/f3n7j6t +## + + +module-whatis {LAPACK version 3.X is a comprehensive FORTRAN library that does linear algebra operations including matrix inversions, least squared solutions to linear sets of equations, eigenvector analysis, singular value decomposition, etc. It is a very comprehensive and reputable package that has found extensive use in the scientific community.} + +proc ModulesHelp { } { + puts stderr {Name : netlib-lapack} + puts stderr {Version: 3.11.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {LAPACK version 3.X is a comprehensive FORTRAN library that does linear} + puts stderr {algebra operations including matrix inversions, least squared solutions} + puts stderr {to linear sets of equations, eigenvector analysis, singular value} + puts stderr {decomposition, etc. It is a very comprehensive and reputable package} + puts stderr {that has found extensive use in the scientific community.} +} + +conflict netlib-lapack + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/netlib-lapack-3.11.0/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/netlib-lapack-3.11.0/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/netlib-lapack-3.11.0/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/netlib-lapack-3.11.0/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/netlib-lapack-3.11.0/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/netlib-lapack-3.11.0/.} +setenv NETLIB_LAPACK_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/netlib-lapack-3.11.0-f3n7j6t2dwbk2ttoknel2gv3mxig7txy} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/netlib-xblas/1.0.248 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/netlib-xblas/1.0.248 new file mode 100644 index 00000000..24e99d4b --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/netlib-xblas/1.0.248 @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:48.405141 +## +## netlib-xblas@1.0.248%gcc@13.2.0+fortran+plain_blas build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/4m73ano +## + + +module-whatis {XBLAS is a reference implementation for extra precision BLAS.} + +proc ModulesHelp { } { + puts stderr {Name : netlib-xblas} + puts stderr {Version: 1.0.248} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {XBLAS is a reference implementation for extra precision BLAS. XBLAS is a} + puts stderr {reference implementation for the dense and banded BLAS routines, along} + puts stderr {with extended and mixed precision version. Extended precision is only} + puts stderr {used internally; input and output arguments remain the same as in the} + puts stderr {existing BLAS. Extra precisions is implemented as double-double (i.e.,} + puts stderr {128-bit total, 106-bit significand). Mixed precision permits some} + puts stderr {input/output arguments of different types (mixing real and complex) or} + puts stderr {precisions (mixing single and double). This implementation is proof of} + puts stderr {concept, and no attempt was made to optimize performance; performance} + puts stderr {should be as good as straightforward but careful code written by hand.} +} + +conflict netlib-xblas + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/netlib-xblas-1.0.248/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/netlib-xblas-1.0.248/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/netlib-xblas-1.0.248/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/netlib-xblas-1.0.248/include} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/netlib-xblas-1.0.248/.} +setenv NETLIB_XBLAS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/netlib-xblas-1.0.248-4m73anook7beoymtgubvl354fs4aqew5} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/nettle/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/nettle/.modulerc new file mode 100644 index 00000000..bc8ef2ee --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/nettle/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded nettle/3.9.1-kr3dn6t diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/nettle/3.9.1-kr3dn6t b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/nettle/3.9.1-kr3dn6t new file mode 100644 index 00000000..4ab7cae3 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/nettle/3.9.1-kr3dn6t @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:48.471127 +## +## nettle@3.9.1%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/kr3dn6t +## +## Configure options: --disable-openssl +## + + +module-whatis {The Nettle package contains the low-level cryptographic library that is designed to fit easily in many contexts.} + +proc ModulesHelp { } { + puts stderr {Name : nettle} + puts stderr {Version: 3.9.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The Nettle package contains the low-level cryptographic library that is} + puts stderr {designed to fit easily in many contexts.} +} + +conflict nettle + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/nettle-3.9.1-kr3dn6tze7cpdflh6vkqmg35jrhpcqyo/lib64} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/nettle-3.9.1-kr3dn6tze7cpdflh6vkqmg35jrhpcqyo/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/nettle-3.9.1-kr3dn6tze7cpdflh6vkqmg35jrhpcqyo/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/nettle-3.9.1-kr3dn6tze7cpdflh6vkqmg35jrhpcqyo/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/nettle-3.9.1-kr3dn6tze7cpdflh6vkqmg35jrhpcqyo/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/nettle-3.9.1-kr3dn6tze7cpdflh6vkqmg35jrhpcqyo/lib64/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/nettle-3.9.1-kr3dn6tze7cpdflh6vkqmg35jrhpcqyo/.} +setenv NETTLE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/nettle-3.9.1-kr3dn6tze7cpdflh6vkqmg35jrhpcqyo} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/nextflow/23.10.1 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/nextflow/23.10.1 new file mode 100644 index 00000000..57ee1d15 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/nextflow/23.10.1 @@ -0,0 +1,67 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:48.480166 +## +## nextflow@23.10.1%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/fxg2ggc +## + + +module-whatis {Data-driven computational pipelines.} + +proc ModulesHelp { } { + puts stderr {Name : nextflow} + puts stderr {Version: 23.10.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Data-driven computational pipelines.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load openjdk/17.0.11_9 +} else { + depends-on openjdk/17.0.11_9 +} +conflict nextflow + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/nextflow-23.10.1/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/nextflow-23.10.1/.} +setenv NEXTFLOW_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/nextflow-23.10.1-fxg2ggcwvk6dx2reggrnci2lywrf4zux} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/nghttp2/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/nghttp2/.modulerc new file mode 100644 index 00000000..4470e6c9 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/nghttp2/.modulerc @@ -0,0 +1,4 @@ +#%Module4.7 +module-hide --soft --hidden-loaded nghttp2/1.63.0-t2qkug7 +module-hide --soft --hidden-loaded nghttp2/1.63.0-sprkcmc +module-hide --soft --hidden-loaded nghttp2/1.63.0-5kttvjh diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/nghttp2/1.63.0-5kttvjh b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/nghttp2/1.63.0-5kttvjh new file mode 100644 index 00000000..0e2473c3 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/nghttp2/1.63.0-5kttvjh @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:48.502856 +## +## nghttp2@1.63.0%gcc@7.5.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/5kttvjh +## +## Configure options: --enable-lib-only --with-libxml2=no --with-jansson=no --with-zlib=no --with-libevent-openssl=no --with-libcares=no --with-openssl=no --with-libev=no --with-cunit=no --with-jemalloc=no --with-systemd=no --with-mruby=no --with-neverbleed=no --with-boost=no --with-wolfssl=no +## + + +module-whatis {nghttp2 is an implementation of HTTP/2 and its header compression algorithm HPACK in C.} + +proc ModulesHelp { } { + puts stderr {Name : nghttp2} + puts stderr {Version: 1.63.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {nghttp2 is an implementation of HTTP/2 and its header compression} + puts stderr {algorithm HPACK in C.} +} + +conflict nghttp2 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/nghttp2-1.63.0-5kttvjhjsok7g46yjhywjpcl52tffbes/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/nghttp2-1.63.0-5kttvjhjsok7g46yjhywjpcl52tffbes/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/nghttp2-1.63.0-5kttvjhjsok7g46yjhywjpcl52tffbes/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/nghttp2-1.63.0-5kttvjhjsok7g46yjhywjpcl52tffbes/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/nghttp2-1.63.0-5kttvjhjsok7g46yjhywjpcl52tffbes/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/nghttp2-1.63.0-5kttvjhjsok7g46yjhywjpcl52tffbes/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/nghttp2-1.63.0-5kttvjhjsok7g46yjhywjpcl52tffbes/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/nghttp2-1.63.0-5kttvjhjsok7g46yjhywjpcl52tffbes/.} +setenv NGHTTP2_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/nghttp2-1.63.0-5kttvjhjsok7g46yjhywjpcl52tffbes} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/nghttp2/1.63.0-sprkcmc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/nghttp2/1.63.0-sprkcmc new file mode 100644 index 00000000..38708574 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/nghttp2/1.63.0-sprkcmc @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:48.516919 +## +## nghttp2@1.63.0%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/sprkcmc +## +## Configure options: --enable-lib-only --with-libxml2=no --with-jansson=no --with-zlib=no --with-libevent-openssl=no --with-libcares=no --with-openssl=no --with-libev=no --with-cunit=no --with-jemalloc=no --with-systemd=no --with-mruby=no --with-neverbleed=no --with-boost=no --with-wolfssl=no +## + + +module-whatis {nghttp2 is an implementation of HTTP/2 and its header compression algorithm HPACK in C.} + +proc ModulesHelp { } { + puts stderr {Name : nghttp2} + puts stderr {Version: 1.63.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {nghttp2 is an implementation of HTTP/2 and its header compression} + puts stderr {algorithm HPACK in C.} +} + +conflict nghttp2 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/nghttp2-1.63.0-sprkcmcabcymqldkax54wdof4vrczhrz/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/nghttp2-1.63.0-sprkcmcabcymqldkax54wdof4vrczhrz/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/nghttp2-1.63.0-sprkcmcabcymqldkax54wdof4vrczhrz/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/nghttp2-1.63.0-sprkcmcabcymqldkax54wdof4vrczhrz/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/nghttp2-1.63.0-sprkcmcabcymqldkax54wdof4vrczhrz/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/nghttp2-1.63.0-sprkcmcabcymqldkax54wdof4vrczhrz/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/nghttp2-1.63.0-sprkcmcabcymqldkax54wdof4vrczhrz/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/nghttp2-1.63.0-sprkcmcabcymqldkax54wdof4vrczhrz/.} +setenv NGHTTP2_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/nghttp2-1.63.0-sprkcmcabcymqldkax54wdof4vrczhrz} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/nghttp2/1.63.0-t2qkug7 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/nghttp2/1.63.0-t2qkug7 new file mode 100644 index 00000000..e47bb6bc --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/nghttp2/1.63.0-t2qkug7 @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:48.509779 +## +## nghttp2@1.63.0%gcc@11.4.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/t2qkug7 +## +## Configure options: --enable-lib-only --with-libxml2=no --with-jansson=no --with-zlib=no --with-libevent-openssl=no --with-libcares=no --with-openssl=no --with-libev=no --with-cunit=no --with-jemalloc=no --with-systemd=no --with-mruby=no --with-neverbleed=no --with-boost=no --with-wolfssl=no +## + + +module-whatis {nghttp2 is an implementation of HTTP/2 and its header compression algorithm HPACK in C.} + +proc ModulesHelp { } { + puts stderr {Name : nghttp2} + puts stderr {Version: 1.63.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {nghttp2 is an implementation of HTTP/2 and its header compression} + puts stderr {algorithm HPACK in C.} +} + +conflict nghttp2 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/nghttp2-1.63.0-t2qkug7u7irxunnirgisvdu4mdoerrxt/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/nghttp2-1.63.0-t2qkug7u7irxunnirgisvdu4mdoerrxt/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/nghttp2-1.63.0-t2qkug7u7irxunnirgisvdu4mdoerrxt/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/nghttp2-1.63.0-t2qkug7u7irxunnirgisvdu4mdoerrxt/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/nghttp2-1.63.0-t2qkug7u7irxunnirgisvdu4mdoerrxt/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/nghttp2-1.63.0-t2qkug7u7irxunnirgisvdu4mdoerrxt/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/nghttp2-1.63.0-t2qkug7u7irxunnirgisvdu4mdoerrxt/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/nghttp2-1.63.0-t2qkug7u7irxunnirgisvdu4mdoerrxt/.} +setenv NGHTTP2_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/nghttp2-1.63.0-t2qkug7u7irxunnirgisvdu4mdoerrxt} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ngsadmix/2018-03-19 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ngsadmix/2018-03-19 new file mode 100644 index 00000000..23f6082d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ngsadmix/2018-03-19 @@ -0,0 +1,62 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:48.541023 +## +## ngsadmix@2018-03-19%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/qntvvg4 +## + + +module-whatis {Inferring admixture proportions from NGS data.} + +proc ModulesHelp { } { + puts stderr {Name : ngsadmix} + puts stderr {Version: 2018-03-19} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Inferring admixture proportions from NGS data.} +} + +conflict ngsadmix + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/ngsadmix-2018-03-19/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/ngsadmix-2018-03-19/.} +setenv NGSADMIX_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/ngsadmix-2018-03-19-qntvvg4ulc2qo5lmwj2fay3shuj3ed55} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ngsrelate/2.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ngsrelate/2.0 new file mode 100644 index 00000000..51f64218 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ngsrelate/2.0 @@ -0,0 +1,65 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:48.563894 +## +## ngsrelate@2.0%gcc@13.2.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/api7vws +## + + +module-whatis {NgsRelate, which can be used to infer relatedness, inbreeding coefficients and many other summary statistics for pairs of individuals from low coverage Next Generation Sequencing (NGS) data by using genotype likelihoods instead of called genotypes.} + +proc ModulesHelp { } { + puts stderr {Name : ngsrelate} + puts stderr {Version: 2.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {NgsRelate, which can be used to infer relatedness, inbreeding} + puts stderr {coefficients and many other summary statistics for pairs of individuals} + puts stderr {from low coverage Next Generation Sequencing (NGS) data by using} + puts stderr {genotype likelihoods instead of called genotypes.} +} + +conflict ngsrelate + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/ngsrelate-2.0/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/ngsrelate-2.0/.} +setenv NGSRELATE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/ngsrelate-2.0-api7vwsepddix2hgsmimnfsxntqivrqd} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ninja-phylogeny/0.98 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ninja-phylogeny/0.98 new file mode 100644 index 00000000..f4dcf6f3 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ninja-phylogeny/0.98 @@ -0,0 +1,63 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:48.598024 +## +## ninja-phylogeny@0.98%gcc@13.2.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/eukhcvi +## + + +module-whatis {NINJA is software for inferring large-scale neighbor-joining phylogenies.} + +proc ModulesHelp { } { + puts stderr {Name : ninja-phylogeny} + puts stderr {Version: 0.98} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {NINJA is software for inferring large-scale neighbor-joining} + puts stderr {phylogenies.} +} + +conflict ninja-phylogeny + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/ninja-phylogeny-0.98/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/ninja-phylogeny-0.98/.} +setenv NINJA_PHYLOGENY_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/ninja-phylogeny-0.98-eukhcvi573zyn3q3xhacsb7tasy6rrjm} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/nlohmann-json/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/nlohmann-json/.modulerc new file mode 100644 index 00000000..7b913893 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/nlohmann-json/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded nlohmann-json/3.11.3-ryhwqam diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/nlohmann-json/3.11.2 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/nlohmann-json/3.11.2 new file mode 100644 index 00000000..769caefc --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/nlohmann-json/3.11.2 @@ -0,0 +1,67 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:48.621353 +## +## nlohmann-json@3.11.2%gcc@13.2.0~ipo+multiple_headers build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/oyxl6kg +## +## Configure options: -DJSON_MultipleHeaders:BOOL=ON -DJSON_BuildTests:BOOL=OFF +## + + +module-whatis {JSON for Modern C++} + +proc ModulesHelp { } { + puts stderr {Name : nlohmann-json} + puts stderr {Version: 3.11.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {JSON for Modern C++} +} + +conflict nlohmann-json + +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/nlohmann-json-3.11.2/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/nlohmann-json-3.11.2/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/nlohmann-json-3.11.2/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/nlohmann-json-3.11.2/share/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/nlohmann-json-3.11.2/.} +setenv NLOHMANN_JSON_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/nlohmann-json-3.11.2-oyxl6kgeqqfh2o2hju3mw7cpx67gph7c} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/nlohmann-json/3.11.3-ryhwqam b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/nlohmann-json/3.11.3-ryhwqam new file mode 100644 index 00000000..834e83be --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/nlohmann-json/3.11.3-ryhwqam @@ -0,0 +1,67 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:48.687527 +## +## nlohmann-json@3.11.3%gcc@11.4.0~ipo+multiple_headers build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/ryhwqam +## +## Configure options: -DJSON_MultipleHeaders:BOOL=ON -DJSON_BuildTests:BOOL=OFF +## + + +module-whatis {JSON for Modern C++} + +proc ModulesHelp { } { + puts stderr {Name : nlohmann-json} + puts stderr {Version: 3.11.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {JSON for Modern C++} +} + +conflict nlohmann-json + +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/nlohmann-json-3.11.3-ryhwqamfzxsruu7atb3a4k6c266rc2wx/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/nlohmann-json-3.11.3-ryhwqamfzxsruu7atb3a4k6c266rc2wx/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/nlohmann-json-3.11.3-ryhwqamfzxsruu7atb3a4k6c266rc2wx/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/nlohmann-json-3.11.3-ryhwqamfzxsruu7atb3a4k6c266rc2wx/share/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/nlohmann-json-3.11.3-ryhwqamfzxsruu7atb3a4k6c266rc2wx/.} +setenv NLOHMANN_JSON_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/nlohmann-json-3.11.3-ryhwqamfzxsruu7atb3a4k6c266rc2wx} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/nlopt/2.7.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/nlopt/2.7.0 new file mode 100644 index 00000000..ff29b4ea --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/nlopt/2.7.0 @@ -0,0 +1,83 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:48.710084 +## +## nlopt@2.7.0%gcc@13.2.0~cxx~guile~ipo~matlab~octave+python+shared build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/3ejoiue +## +## Configure options: -DNLOPT_OCTAVE:Bool=OFF +## + + +module-whatis {NLopt is a free/open-source library for nonlinear optimization, providing a common interface for a number of different free optimization routines available online as well as original implementations of various other algorithms.} + +proc ModulesHelp { } { + puts stderr {Name : nlopt} + puts stderr {Version: 2.7.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {NLopt is a free/open-source library for nonlinear optimization,} + puts stderr {providing a common interface for a number of different free optimization} + puts stderr {routines available online as well as original implementations of various} + puts stderr {other algorithms.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-numpy/2.1.2-rif434b + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-numpy/2.1.2-rif434b + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict nlopt + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/lib/python3.11/site-packages} +setenv NLOPT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/nlopt-2.7.0-3ejoiuehyk4665o4lfka32svt2nzzjoi} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/node-js/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/node-js/.modulerc new file mode 100644 index 00000000..29adc412 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/node-js/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded node-js/20.15.1-scagana diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/node-js/20.15.1-scagana b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/node-js/20.15.1-scagana new file mode 100644 index 00000000..52ab24f5 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/node-js/20.15.1-scagana @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:50.174382 +## +## node-js@20.15.1%gcc@13.2.0~debug~doc~icu4c+openssl+zlib build_system=generic arch=linux-ubuntu22.04-x86_64_v3/scagana +## +## Configure options: --prefix=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/node-js-20.15.1-scaganaxchzkbivbpcvf5qhputhqfni5 --without-npm --shared-openssl --shared-openssl-includes=/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.4.0/include --shared-openssl-libpath=/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.4.0/lib --shared-zlib --shared-zlib-includes=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zlib-ng-2.2.1-ci2x2tjfpbdihazwtuwsat2anrc47e6u/include --shared-zlib-libpath=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zlib-ng-2.2.1-ci2x2tjfpbdihazwtuwsat2anrc47e6u/lib +## + + +module-whatis {Node.js is an open-source, cross-platform JavaScript runtime environment.} + +proc ModulesHelp { } { + puts stderr {Name : node-js} + puts stderr {Version: 20.15.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Node.js is an open-source, cross-platform JavaScript runtime} + puts stderr {environment.} +} + +conflict node-js + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/node-js-20.15.1-scaganaxchzkbivbpcvf5qhputhqfni5/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/node-js-20.15.1-scaganaxchzkbivbpcvf5qhputhqfni5/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/node-js-20.15.1-scaganaxchzkbivbpcvf5qhputhqfni5/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/node-js-20.15.1-scaganaxchzkbivbpcvf5qhputhqfni5/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/node-js-20.15.1-scaganaxchzkbivbpcvf5qhputhqfni5/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/node-js-20.15.1-scaganaxchzkbivbpcvf5qhputhqfni5/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/node-js-20.15.1-scaganaxchzkbivbpcvf5qhputhqfni5/.} +setenv NODE_JS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/node-js-20.15.1-scaganaxchzkbivbpcvf5qhputhqfni5} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/npm/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/npm/.modulerc new file mode 100644 index 00000000..1ee1ae8e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/npm/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded npm/10.9.0-4tdev2b diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/npm/10.9.0-4tdev2b b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/npm/10.9.0-4tdev2b new file mode 100644 index 00000000..05bf5170 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/npm/10.9.0-4tdev2b @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:50.198913 +## +## npm@10.9.0%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/4tdev2b +## + + +module-whatis {npm: A package manager for javascript.} + +proc ModulesHelp { } { + puts stderr {Name : npm} + puts stderr {Version: 10.9.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {npm: A package manager for javascript.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load node-js/20.15.1-scagana +} else { + depends-on node-js/20.15.1-scagana +} +conflict npm + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/npm-10.9.0-4tdev2bbfdbo5avsy36h7bgw57xslbdz/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/npm-10.9.0-4tdev2bbfdbo5avsy36h7bgw57xslbdz/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/npm-10.9.0-4tdev2bbfdbo5avsy36h7bgw57xslbdz/.} +setenv NPM_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/npm-10.9.0-4tdev2bbfdbo5avsy36h7bgw57xslbdz} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/nseg/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/nseg/.modulerc new file mode 100644 index 00000000..20a952ba --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/nseg/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded nseg/1.0-z7wuqx5 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/nseg/1.0-z7wuqx5 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/nseg/1.0-z7wuqx5 new file mode 100644 index 00000000..7a9a6014 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/nseg/1.0-z7wuqx5 @@ -0,0 +1,62 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:50.222769 +## +## nseg@1.0%gcc@13.2.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/z7wuqx5 +## + + +module-whatis {NSEG - Low complexity sequence identification} + +proc ModulesHelp { } { + puts stderr {Name : nseg} + puts stderr {Version: 1.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {NSEG - Low complexity sequence identification} +} + +conflict nseg + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/nseg-1.0-z7wuqx5ogt3ia6brq53axqbstlwkej25/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/nseg-1.0-z7wuqx5ogt3ia6brq53axqbstlwkej25/.} +setenv NSEG_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/nseg-1.0-z7wuqx5ogt3ia6brq53axqbstlwkej25} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ntirpc/3.2 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ntirpc/3.2 new file mode 100644 index 00000000..14f832d7 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ntirpc/3.2 @@ -0,0 +1,66 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:50.244187 +## +## ntirpc@3.2%gcc@13.2.0~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/j5bgybr +## + + +module-whatis {New development on tirpc} + +proc ModulesHelp { } { + puts stderr {Name : ntirpc} + puts stderr {Version: 3.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {New development on tirpc} +} + +conflict ntirpc + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/ntirpc-3.2/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/ntirpc-3.2/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/ntirpc-3.2/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/ntirpc-3.2/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/ntirpc-3.2/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/ntirpc-3.2/.} +setenv NTIRPC_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/ntirpc-3.2-j5bgybru3y4fbbapglratasvnnojztvy} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/numactl/2.0.14 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/numactl/2.0.14 new file mode 100644 index 00000000..ab5ed784 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/numactl/2.0.14 @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:50.434277 +## +## numactl@2.0.14%gcc@13.2.0 build_system=autotools patches=4e1d78c,62fc8a8,ff37630 arch=linux-ubuntu22.04-x86_64_v3/eknpypt +## + + +module-whatis {NUMA support for Linux} + +proc ModulesHelp { } { + puts stderr {Name : numactl} + puts stderr {Version: 2.0.14} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {NUMA support for Linux} +} + +conflict numactl + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/numactl-2.0.14/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/numactl-2.0.14/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/numactl-2.0.14/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/numactl-2.0.14/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/numactl-2.0.14/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/numactl-2.0.14/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/numactl-2.0.14/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/numactl-2.0.14/.} +setenv NUMACTL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/numactl-2.0.14-eknpyptt3pqpz7gyh5gisgzuaba66pj6} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/nvhpc/22.9 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/nvhpc/22.9 new file mode 100644 index 00000000..84e1b124 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/nvhpc/22.9 @@ -0,0 +1,83 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:50.459720 +## +## nvhpc@22.9%gcc@11.4.0+blas+lapack+mpi build_system=generic default_cuda=default install_type=single arch=linux-ubuntu22.04-x86_64_v3/gxytx5q +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {The NVIDIA HPC SDK is a comprehensive suite of compilers, libraries and tools essential to maximizing developer productivity and the performance and portability of HPC applications. The NVIDIA HPC SDK C, C++, and Fortran compilers support GPU acceleration of HPC modeling and simulation applications with standard C++ and Fortran, OpenACC directives, and CUDA. GPU-accelerated math libraries maximize performance on common HPC algorithms, and optimized communications libraries enable standards-based multi-GPU and scalable systems programming. Performance profiling and debugging tools simplify porting and optimization of HPC applications.} + +proc ModulesHelp { } { + puts stderr {Name : nvhpc} + puts stderr {Version: 22.9} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The NVIDIA HPC SDK is a comprehensive suite of compilers, libraries and} + puts stderr {tools essential to maximizing developer productivity and the performance} + puts stderr {and portability of HPC applications. The NVIDIA HPC SDK C, C++, and} + puts stderr {Fortran compilers support GPU acceleration of HPC modeling and} + puts stderr {simulation applications with standard C++ and Fortran, OpenACC} + puts stderr {directives, and CUDA. GPU-accelerated math libraries maximize} + puts stderr {performance on common HPC algorithms, and optimized communications} + puts stderr {libraries enable standards-based multi-GPU and scalable systems} + puts stderr {programming. Performance profiling and debugging tools simplify porting} + puts stderr {and optimization of HPC applications.} +} + +conflict nvhpc + +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/nvhpc-22.9/.} +setenv CC {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/nvhpc-22.9/Linux_x86_64/22.9/compilers/bin/nvc} +setenv CXX {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/nvhpc-22.9/Linux_x86_64/22.9/compilers/bin/nvc++} +setenv F77 {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/nvhpc-22.9/Linux_x86_64/22.9/compilers/bin/nvfortran} +setenv FC {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/nvhpc-22.9/Linux_x86_64/22.9/compilers/bin/nvfortran} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/nvhpc-22.9/Linux_x86_64/22.9/compilers/bin} +prepend-path LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/nvhpc-22.9/Linux_x86_64/22.9/compilers/lib} +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/nvhpc-22.9/Linux_x86_64/22.9/compilers/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/nvhpc-22.9/Linux_x86_64/22.9/compilers/man} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/nvhpc-22.9/Linux_x86_64/22.9/comm_libs/mpi/bin} +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/nvhpc-22.9/Linux_x86_64/22.9/comm_libs/mpi/lib} +setenv NVHPC_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/nvhpc-22.9} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/nvhpc/24.1 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/nvhpc/24.1 new file mode 100644 index 00000000..4b03aa1c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/nvhpc/24.1 @@ -0,0 +1,83 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:50.478803 +## +## nvhpc@24.1%gcc@11.4.0+blas+lapack+mpi build_system=generic default_cuda=default install_type=single arch=linux-ubuntu22.04-x86_64_v3/pw7qrne +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {The NVIDIA HPC SDK is a comprehensive suite of compilers, libraries and tools essential to maximizing developer productivity and the performance and portability of HPC applications. The NVIDIA HPC SDK C, C++, and Fortran compilers support GPU acceleration of HPC modeling and simulation applications with standard C++ and Fortran, OpenACC directives, and CUDA. GPU-accelerated math libraries maximize performance on common HPC algorithms, and optimized communications libraries enable standards-based multi-GPU and scalable systems programming. Performance profiling and debugging tools simplify porting and optimization of HPC applications.} + +proc ModulesHelp { } { + puts stderr {Name : nvhpc} + puts stderr {Version: 24.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The NVIDIA HPC SDK is a comprehensive suite of compilers, libraries and} + puts stderr {tools essential to maximizing developer productivity and the performance} + puts stderr {and portability of HPC applications. The NVIDIA HPC SDK C, C++, and} + puts stderr {Fortran compilers support GPU acceleration of HPC modeling and} + puts stderr {simulation applications with standard C++ and Fortran, OpenACC} + puts stderr {directives, and CUDA. GPU-accelerated math libraries maximize} + puts stderr {performance on common HPC algorithms, and optimized communications} + puts stderr {libraries enable standards-based multi-GPU and scalable systems} + puts stderr {programming. Performance profiling and debugging tools simplify porting} + puts stderr {and optimization of HPC applications.} +} + +conflict nvhpc + +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/nvhpc-24.1/.} +setenv CC {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/nvhpc-24.1/Linux_x86_64/24.1/compilers/bin/nvc} +setenv CXX {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/nvhpc-24.1/Linux_x86_64/24.1/compilers/bin/nvc++} +setenv F77 {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/nvhpc-24.1/Linux_x86_64/24.1/compilers/bin/nvfortran} +setenv FC {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/nvhpc-24.1/Linux_x86_64/24.1/compilers/bin/nvfortran} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/nvhpc-24.1/Linux_x86_64/24.1/compilers/bin} +prepend-path LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/nvhpc-24.1/Linux_x86_64/24.1/compilers/lib} +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/nvhpc-24.1/Linux_x86_64/24.1/compilers/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/nvhpc-24.1/Linux_x86_64/24.1/compilers/man} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/nvhpc-24.1/Linux_x86_64/24.1/comm_libs/mpi/bin} +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/nvhpc-24.1/Linux_x86_64/24.1/comm_libs/mpi/lib} +setenv NVHPC_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/nvhpc-24.1} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/octave/8.2.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/octave/8.2.0 new file mode 100644 index 00000000..093adce1 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/octave/8.2.0 @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:50.504535 +## +## octave@8.2.0%gcc@13.2.0~arpack+bz2~curl+fftw~fltk~fontconfig~freetype~gl2ps~glpk~gnuplot~hdf5~jdk~llvm~magick~opengl+pcre2~qhull~qrupdate~qscintilla~qt+readline~suitesparse~zlib build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/e7rwqnr +## +## Configure options: --with-blas=-L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openblas-0.3.25-5gaqx4urjzvpfazafmwrjlvpvwuvfrgi/lib -lopenblas --with-lapack=-L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openblas-0.3.25-5gaqx4urjzvpfazafmwrjlvpvwuvfrgi/lib -lopenblas --enable-readline --with-bz2-includedir=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/bzip2-1.0.8-qknztbakgnayrsc4iql53yss5tv4yslr/include --with-bz2-libdir=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/bzip2-1.0.8-qknztbakgnayrsc4iql53yss5tv4yslr/lib --without-arpack --without-curl --with-fftw3-includedir=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fftw-3.3.10-um7lbgonpwmxbqag2odwrkldnbcazpmt/include --with-fftw3-libdir=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fftw-3.3.10-um7lbgonpwmxbqag2odwrkldnbcazpmt/lib --with-fftw3f-includedir=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fftw-3.3.10-um7lbgonpwmxbqag2odwrkldnbcazpmt/include --with-fftw3f-libdir=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fftw-3.3.10-um7lbgonpwmxbqag2odwrkldnbcazpmt/lib --without-fltk --without-glpk --without-magick --without-hdf5 --disable-java --without-opengl --without-framework-opengl --without-qhull --without-qrupdate --without-qscintilla --without-z --enable-fortran-calling-convention=gfortran ac_cv_prog_ac_ct_QTCHOOSER= +## + + +module-whatis {GNU Octave is a high-level language, primarily intended for numerical computations.} + +proc ModulesHelp { } { + puts stderr {Name : octave} + puts stderr {Version: 8.2.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {GNU Octave is a high-level language, primarily intended for numerical} + puts stderr {computations. It provides a convenient command line interface for} + puts stderr {solving linear and nonlinear problems numerically, and for performing} + puts stderr {other numerical experiments using a language that is mostly compatible} + puts stderr {with Matlab. It may also be used as a batch-oriented language.} +} + +conflict octave + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/octave-8.2.0/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/octave-8.2.0/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/octave-8.2.0/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/octave-8.2.0/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/octave-8.2.0/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/octave-8.2.0/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/octave-8.2.0/.} +setenv OCTAVE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/octave-8.2.0-e7rwqnrrya6ragmmfnvc5nq6qnlyb22u} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/octopus/7.3 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/octopus/7.3 new file mode 100644 index 00000000..1b8a3a5d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/octopus/7.3 @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:50.557598 +## +## octopus@7.3%gcc@13.2.0~arpack~berkeleygw~cgal+cuda~debug~elpa~etsf-io+libvdwxc~libyaml~likwid~metis~mpi~netcdf~nfft~nlopt~python~sparskit build_system=autotools cuda_arch=75 arch=linux-ubuntu22.04-x86_64_v3/qds5dna +## +## Configure options: --prefix=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/octopus-7.3-qds5dnaq2hrsskygk5lqet73gwee5zww --with-blas=-L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openblas-0.3.28-ap4k5dzekmdokd4sqkhp6vrac2bypni3/lib -lopenblas --with-lapack=-L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openblas-0.3.28-ap4k5dzekmdokd4sqkhp6vrac2bypni3/lib -lopenblas --with-gsl-prefix=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gsl-2.8-qyxdwjziabe7axozjyqbzt2suagdwhps --with-libxc-prefix=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxc-3.0.0-3lvpmdgxgxpktqd3sjbbuzuztx4kyuf6 --enable-openmp CC=/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-13.2.0/bin/gcc FC=/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-13.2.0/bin/gfortran --with-fftw-prefix=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/fftw-3.3.10-7thbsooeztaafunsgeylz6yyik7jlxmo --with-libvdwxc-prefix=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libvdwxc-0.4.0-vnemmfubtf5xk74i45byhaucpmpuyvjv --enable-cuda FCFLAGS=-O2 -ffree-line-length-none -fallow-argument-mismatch -fallow-invalid-boz CXXFLAGS=-O2 -fallow-argument-mismatch -fallow-invalid-boz CFLAGS=-O2 -fallow-argument-mismatch -fallow-invalid-boz --disable-gdlib +## + + +module-whatis {A real-space finite-difference (time-dependent) density-functional theory code.} + +proc ModulesHelp { } { + puts stderr {Name : octopus} + puts stderr {Version: 7.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A real-space finite-difference (time-dependent) density-functional} + puts stderr {theory code.} +} + +conflict octopus + +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/octopus-7.3/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/octopus-7.3/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/octopus-7.3/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/octopus-7.3/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/octopus-7.3/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/octopus-7.3/.} +setenv OCTOPUS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/octopus-7.3-qds5dnaq2hrsskygk5lqet73gwee5zww} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/oneapi/2023.2.1 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/oneapi/2023.2.1 new file mode 100644 index 00000000..868a011f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/oneapi/2023.2.1 @@ -0,0 +1,89 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:40.162522 +## +## intel-oneapi-compilers@2023.2.1%gcc@11.4.0~amd+envmods~nvidia build_system=generic arch=linux-ubuntu22.04-x86_64_v3/xrx4bd7 +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {Intel oneAPI Compilers. Includes: icx, icpx, ifx, and ifort. Releases before 2024.0 include icc/icpc LICENSE INFORMATION: By downloading and using this software, you agree to the terms and conditions of the software license agreements at https://intel.ly/393CijO.} + +proc ModulesHelp { } { + puts stderr {Name : intel-oneapi-compilers} + puts stderr {Version: 2023.2.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Intel oneAPI Compilers. Includes: icx, icpx, ifx, and ifort. Releases} + puts stderr {before 2024.0 include icc/icpc LICENSE INFORMATION: By downloading and} + puts stderr {using this software, you agree to the terms and conditions of the} + puts stderr {software license agreements at https://intel.ly/393CijO.} +} + +conflict intel-oneapi-compilers + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/intel-oneapi-compilers-2023.2.1/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/intel-oneapi-compilers-2023.2.1/.} +prepend-path ACL_BOARD_VENDOR_PATH {/opt/Intel/OpenCLFPGA/oneAPI/Boards} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/spack-ucdavis/environments/hpccf/software.hpc/core/._view/ajutvzaaepyxloxjo6aeam56czsnvfn2/compilers/intel-oneapi-compilers-2023.2.1/compiler/2023.2.1/linux/IntelDPCPP} +setenv CMPLR_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/spack-ucdavis/environments/hpccf/software.hpc/core/._view/ajutvzaaepyxloxjo6aeam56czsnvfn2/compilers/intel-oneapi-compilers-2023.2.1/compiler/2023.2.1} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/spack-ucdavis/environments/hpccf/software.hpc/core/._view/ajutvzaaepyxloxjo6aeam56czsnvfn2/compilers/intel-oneapi-compilers-2023.2.1/compiler/2023.2.1/linux/lib/oclfpga/include} +prepend-path DIAGUTIL_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/spack-ucdavis/environments/hpccf/software.hpc/core/._view/ajutvzaaepyxloxjo6aeam56czsnvfn2/compilers/intel-oneapi-compilers-2023.2.1/compiler/2023.2.1/sys_check/sys_check.sh} +setenv FPGA_VARS_ARGS {} +setenv FPGA_VARS_DIR {/cvmfs/hpc.ucdavis.edu/sw/spack/spack-ucdavis/environments/hpccf/software.hpc/core/._view/ajutvzaaepyxloxjo6aeam56czsnvfn2/compilers/intel-oneapi-compilers-2023.2.1/compiler/2023.2.1/linux/lib/oclfpga} +setenv INTELFPGAOCLSDKROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/spack-ucdavis/environments/hpccf/software.hpc/core/._view/ajutvzaaepyxloxjo6aeam56czsnvfn2/compilers/intel-oneapi-compilers-2023.2.1/compiler/2023.2.1/linux/lib/oclfpga} +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/spack-ucdavis/environments/hpccf/software.hpc/core/._view/ajutvzaaepyxloxjo6aeam56czsnvfn2/compilers/intel-oneapi-compilers-2023.2.1/compiler/2023.2.1/linux/lib:/cvmfs/hpc.ucdavis.edu/sw/spack/spack-ucdavis/environments/hpccf/software.hpc/core/._view/ajutvzaaepyxloxjo6aeam56czsnvfn2/compilers/intel-oneapi-compilers-2023.2.1/compiler/2023.2.1/linux/lib/x64:/cvmfs/hpc.ucdavis.edu/sw/spack/spack-ucdavis/environments/hpccf/software.hpc/core/._view/ajutvzaaepyxloxjo6aeam56czsnvfn2/compilers/intel-oneapi-compilers-2023.2.1/compiler/2023.2.1/linux/lib/oclfpga/host/linux64/lib:/cvmfs/hpc.ucdavis.edu/sw/spack/spack-ucdavis/environments/hpccf/software.hpc/core/._view/ajutvzaaepyxloxjo6aeam56czsnvfn2/compilers/intel-oneapi-compilers-2023.2.1/compiler/2023.2.1/linux/compiler/lib/intel64_lin} +prepend-path LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/spack-ucdavis/environments/hpccf/software.hpc/core/._view/ajutvzaaepyxloxjo6aeam56czsnvfn2/compilers/intel-oneapi-compilers-2023.2.1/compiler/2023.2.1/linux/compiler/lib/intel64_lin:/cvmfs/hpc.ucdavis.edu/sw/spack/spack-ucdavis/environments/hpccf/software.hpc/core/._view/ajutvzaaepyxloxjo6aeam56czsnvfn2/compilers/intel-oneapi-compilers-2023.2.1/compiler/2023.2.1/linux/lib} +prepend-path NLSPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/spack-ucdavis/environments/hpccf/software.hpc/core/._view/ajutvzaaepyxloxjo6aeam56czsnvfn2/compilers/intel-oneapi-compilers-2023.2.1/compiler/2023.2.1/linux/compiler/lib/intel64_lin/locale/%l_%t/%N} +prepend-path OCL_ICD_FILENAMES {libintelocl_emu.so:libalteracl.so:/cvmfs/hpc.ucdavis.edu/sw/spack/spack-ucdavis/environments/hpccf/software.hpc/core/._view/ajutvzaaepyxloxjo6aeam56czsnvfn2/compilers/intel-oneapi-compilers-2023.2.1/compiler/2023.2.1/linux/lib/x64/libintelocl.so} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/spack-ucdavis/environments/hpccf/software.hpc/core/._view/ajutvzaaepyxloxjo6aeam56czsnvfn2/compilers/intel-oneapi-compilers-2023.2.1/compiler/2023.2.1/lib/pkgconfig} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/spack-ucdavis/environments/hpccf/software.hpc/core/._view/ajutvzaaepyxloxjo6aeam56czsnvfn2/compilers/intel-oneapi-compilers-2023.2.1/compiler/2023.2.1/documentation/en/man/common:/home/software-user/.nvm/versions/node/v16.18.0/share/man::/opt/puppetlabs/puppet/share/man::/home/software-user/.fzf/man} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/spack-ucdavis/environments/hpccf/software.hpc/core/._view/ajutvzaaepyxloxjo6aeam56czsnvfn2/compilers/intel-oneapi-compilers-2023.2.1/compiler/2023.2.1/linux/bin} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/spack-ucdavis/environments/hpccf/software.hpc/core/._view/ajutvzaaepyxloxjo6aeam56czsnvfn2/compilers/intel-oneapi-compilers-2023.2.1/compiler/2023.2.1/linux/bin/intel64} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/spack-ucdavis/environments/hpccf/software.hpc/core/._view/ajutvzaaepyxloxjo6aeam56czsnvfn2/compilers/intel-oneapi-compilers-2023.2.1/compiler/2023.2.1/linux/lib/oclfpga/bin} +setenv CC {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/intel-oneapi-compilers-2023.2.1/compiler/2023.2.1/linux/bin/icx} +setenv CXX {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/intel-oneapi-compilers-2023.2.1/compiler/2023.2.1/linux/bin/icpx} +setenv F77 {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/intel-oneapi-compilers-2023.2.1/compiler/2023.2.1/linux/bin/ifx} +setenv FC {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/intel-oneapi-compilers-2023.2.1/compiler/2023.2.1/linux/bin/ifx} +setenv INTEL_ONEAPI_COMPILERS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/intel-oneapi-compilers-2023.2.1} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/oneapi/2024.0.2 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/oneapi/2024.0.2 new file mode 100644 index 00000000..ba0f6af5 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/oneapi/2024.0.2 @@ -0,0 +1,87 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:40.318273 +## +## intel-oneapi-compilers@2024.0.2%gcc@11.4.0~amd+envmods~nvidia build_system=generic arch=linux-ubuntu22.04-x86_64_v3/5t3k3cg +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {Intel oneAPI Compilers. Includes: icx, icpx, ifx, and ifort. Releases before 2024.0 include icc/icpc LICENSE INFORMATION: By downloading and using this software, you agree to the terms and conditions of the software license agreements at https://intel.ly/393CijO.} + +proc ModulesHelp { } { + puts stderr {Name : intel-oneapi-compilers} + puts stderr {Version: 2024.0.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Intel oneAPI Compilers. Includes: icx, icpx, ifx, and ifort. Releases} + puts stderr {before 2024.0 include icc/icpc LICENSE INFORMATION: By downloading and} + puts stderr {using this software, you agree to the terms and conditions of the} + puts stderr {software license agreements at https://intel.ly/393CijO.} +} + +conflict intel-oneapi-compilers + +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/intel-oneapi-compilers-2024.0.2/.} +prepend-path ACL_BOARD_VENDOR_PATH {/opt/Intel/OpenCLFPGA/oneAPI/Boards} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/spack-ucdavis/environments/hpccf/software.hpc/core/._view/ajutvzaaepyxloxjo6aeam56czsnvfn2/compilers/intel-oneapi-compilers-2024.0.2/compiler/2024.0} +setenv CMPLR_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/spack-ucdavis/environments/hpccf/software.hpc/core/._view/ajutvzaaepyxloxjo6aeam56czsnvfn2/compilers/intel-oneapi-compilers-2024.0.2/compiler/2024.0} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/spack-ucdavis/environments/hpccf/software.hpc/core/._view/ajutvzaaepyxloxjo6aeam56czsnvfn2/compilers/intel-oneapi-compilers-2024.0.2/compiler/2024.0/opt/oclfpga/include} +prepend-path DIAGUTIL_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/spack-ucdavis/environments/hpccf/software.hpc/core/._view/ajutvzaaepyxloxjo6aeam56czsnvfn2/compilers/intel-oneapi-compilers-2024.0.2/compiler/2024.0/etc/compiler/sys_check/sys_check.sh} +setenv FPGA_VARS_ARGS {} +setenv FPGA_VARS_DIR {/cvmfs/hpc.ucdavis.edu/sw/spack/spack-ucdavis/environments/hpccf/software.hpc/core/._view/ajutvzaaepyxloxjo6aeam56czsnvfn2/compilers/intel-oneapi-compilers-2024.0.2/compiler/2024.0/opt/oclfpga} +setenv INTELFPGAOCLSDKROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/spack-ucdavis/environments/hpccf/software.hpc/core/._view/ajutvzaaepyxloxjo6aeam56czsnvfn2/compilers/intel-oneapi-compilers-2024.0.2/compiler/2024.0/opt/oclfpga} +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/spack-ucdavis/environments/hpccf/software.hpc/core/._view/ajutvzaaepyxloxjo6aeam56czsnvfn2/compilers/intel-oneapi-compilers-2024.0.2/compiler/2024.0/opt/oclfpga/host/linux64/lib:/cvmfs/hpc.ucdavis.edu/sw/spack/spack-ucdavis/environments/hpccf/software.hpc/core/._view/ajutvzaaepyxloxjo6aeam56czsnvfn2/compilers/intel-oneapi-compilers-2024.0.2/compiler/2024.0/opt/compiler/lib:/cvmfs/hpc.ucdavis.edu/sw/spack/spack-ucdavis/environments/hpccf/software.hpc/core/._view/ajutvzaaepyxloxjo6aeam56czsnvfn2/compilers/intel-oneapi-compilers-2024.0.2/compiler/2024.0/lib} +prepend-path LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/spack-ucdavis/environments/hpccf/software.hpc/core/._view/ajutvzaaepyxloxjo6aeam56czsnvfn2/compilers/intel-oneapi-compilers-2024.0.2/compiler/2024.0/lib} +prepend-path NLSPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/spack-ucdavis/environments/hpccf/software.hpc/core/._view/ajutvzaaepyxloxjo6aeam56czsnvfn2/compilers/intel-oneapi-compilers-2024.0.2/compiler/2024.0/lib/locale/%l_%t/%N} +prepend-path OCL_ICD_FILENAMES {libintelocl_emu.so:libalteracl.so:/cvmfs/hpc.ucdavis.edu/sw/spack/spack-ucdavis/environments/hpccf/software.hpc/core/._view/ajutvzaaepyxloxjo6aeam56czsnvfn2/compilers/intel-oneapi-compilers-2024.0.2/compiler/2024.0/lib/libintelocl.so} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/spack-ucdavis/environments/hpccf/software.hpc/core/._view/ajutvzaaepyxloxjo6aeam56czsnvfn2/compilers/intel-oneapi-compilers-2024.0.2/compiler/2024.0/lib/pkgconfig} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/spack-ucdavis/environments/hpccf/software.hpc/core/._view/ajutvzaaepyxloxjo6aeam56czsnvfn2/compilers/intel-oneapi-compilers-2024.0.2/compiler/2024.0/documentation/en/man/common:/home/software-user/.nvm/versions/node/v16.18.0/share/man::/opt/puppetlabs/puppet/share/man::/home/software-user/.fzf/man} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/spack-ucdavis/environments/hpccf/software.hpc/core/._view/ajutvzaaepyxloxjo6aeam56czsnvfn2/compilers/intel-oneapi-compilers-2024.0.2/compiler/2024.0/bin} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/spack-ucdavis/environments/hpccf/software.hpc/core/._view/ajutvzaaepyxloxjo6aeam56czsnvfn2/compilers/intel-oneapi-compilers-2024.0.2/compiler/2024.0/opt/oclfpga/bin} +setenv CC {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/intel-oneapi-compilers-2024.0.2/compiler/2024.0/bin/icx} +setenv CXX {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/intel-oneapi-compilers-2024.0.2/compiler/2024.0/bin/icpx} +setenv F77 {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/intel-oneapi-compilers-2024.0.2/compiler/2024.0/bin/ifx} +setenv FC {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/intel-oneapi-compilers-2024.0.2/compiler/2024.0/bin/ifx} +setenv INTEL_ONEAPI_COMPILERS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/intel-oneapi-compilers-2024.0.2} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ont-guppy/6.1.7 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ont-guppy/6.1.7 new file mode 100644 index 00000000..bd458830 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ont-guppy/6.1.7 @@ -0,0 +1,63 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:50.588975 +## +## ont-guppy@6.1.7%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/gx7hi42 +## + + +module-whatis {Guppy: local accelerated basecalling for Nanopore data} + +proc ModulesHelp { } { + puts stderr {Name : ont-guppy} + puts stderr {Version: 6.1.7} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Guppy: local accelerated basecalling for Nanopore data} +} + +conflict ont-guppy + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/ont-guppy-6.1.7/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/ont-guppy-6.1.7/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/ont-guppy-6.1.7/.} +setenv ONT_GUPPY_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/ont-guppy-6.1.7-gx7hi42qteax7aggwfzie2iy5nqpmtul} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openblas/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openblas/.modulerc new file mode 100644 index 00000000..e88465b7 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openblas/.modulerc @@ -0,0 +1,4 @@ +#%Module4.7 +module-hide --soft --hidden-loaded openblas/0.3.25-5gaqx4u +module-hide --soft --hidden-loaded openblas/0.3.28-ap4k5dz +module-hide --soft --hidden-loaded openblas/0.3.28-wshce2q diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openblas/0.3.23 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openblas/0.3.23 new file mode 100644 index 00000000..6a0ae269 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openblas/0.3.23 @@ -0,0 +1,67 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:50.610368 +## +## openblas@0.3.23%gcc@13.2.0~bignuma~consistent_fpcsr+dynamic_dispatch+fortran~ilp64+locking+pic+shared build_system=makefile symbol_suffix=none threads=none arch=linux-ubuntu22.04-x86_64_v3/imkuwtc +## + + +module-whatis {OpenBLAS: An optimized BLAS library} + +proc ModulesHelp { } { + puts stderr {Name : openblas} + puts stderr {Version: 0.3.23} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {OpenBLAS: An optimized BLAS library} +} + +conflict openblas + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/openblas-0.3.23/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/openblas-0.3.23/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/openblas-0.3.23/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/openblas-0.3.23/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/openblas-0.3.23/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/openblas-0.3.23/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/openblas-0.3.23/.} +setenv OPENBLAS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openblas-0.3.23-imkuwtcn3kf6p2si3efw54m2gjnxy4nu} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openblas/0.3.25-5gaqx4u b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openblas/0.3.25-5gaqx4u new file mode 100644 index 00000000..89800fd7 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openblas/0.3.25-5gaqx4u @@ -0,0 +1,67 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:50.675941 +## +## openblas@0.3.25%gcc@13.2.0~bignuma~consistent_fpcsr+dynamic_dispatch+fortran~ilp64+locking+pic+shared build_system=makefile symbol_suffix=none threads=none arch=linux-ubuntu22.04-x86_64_v3/5gaqx4u +## + + +module-whatis {OpenBLAS: An optimized BLAS library} + +proc ModulesHelp { } { + puts stderr {Name : openblas} + puts stderr {Version: 0.3.25} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {OpenBLAS: An optimized BLAS library} +} + +conflict openblas + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openblas-0.3.25-5gaqx4urjzvpfazafmwrjlvpvwuvfrgi/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openblas-0.3.25-5gaqx4urjzvpfazafmwrjlvpvwuvfrgi/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openblas-0.3.25-5gaqx4urjzvpfazafmwrjlvpvwuvfrgi/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openblas-0.3.25-5gaqx4urjzvpfazafmwrjlvpvwuvfrgi/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openblas-0.3.25-5gaqx4urjzvpfazafmwrjlvpvwuvfrgi/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openblas-0.3.25-5gaqx4urjzvpfazafmwrjlvpvwuvfrgi/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openblas-0.3.25-5gaqx4urjzvpfazafmwrjlvpvwuvfrgi/.} +setenv OPENBLAS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openblas-0.3.25-5gaqx4urjzvpfazafmwrjlvpvwuvfrgi} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openblas/0.3.28-ap4k5dz b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openblas/0.3.28-ap4k5dz new file mode 100644 index 00000000..2d62ee19 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openblas/0.3.28-ap4k5dz @@ -0,0 +1,67 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:50.684089 +## +## openblas@0.3.28%gcc@13.2.0~bignuma~consistent_fpcsr+dynamic_dispatch+fortran~ilp64+locking+pic+shared build_system=makefile patches=d0b9276 symbol_suffix=none threads=none arch=linux-ubuntu22.04-x86_64_v3/ap4k5dz +## + + +module-whatis {OpenBLAS: An optimized BLAS library} + +proc ModulesHelp { } { + puts stderr {Name : openblas} + puts stderr {Version: 0.3.28} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {OpenBLAS: An optimized BLAS library} +} + +conflict openblas + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openblas-0.3.28-ap4k5dzekmdokd4sqkhp6vrac2bypni3/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openblas-0.3.28-ap4k5dzekmdokd4sqkhp6vrac2bypni3/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openblas-0.3.28-ap4k5dzekmdokd4sqkhp6vrac2bypni3/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openblas-0.3.28-ap4k5dzekmdokd4sqkhp6vrac2bypni3/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openblas-0.3.28-ap4k5dzekmdokd4sqkhp6vrac2bypni3/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openblas-0.3.28-ap4k5dzekmdokd4sqkhp6vrac2bypni3/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openblas-0.3.28-ap4k5dzekmdokd4sqkhp6vrac2bypni3/.} +setenv OPENBLAS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openblas-0.3.28-ap4k5dzekmdokd4sqkhp6vrac2bypni3} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openblas/0.3.28-wshce2q b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openblas/0.3.28-wshce2q new file mode 100644 index 00000000..b147753e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openblas/0.3.28-wshce2q @@ -0,0 +1,67 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:50.708986 +## +## openblas@0.3.28%gcc@13.2.0~bignuma~consistent_fpcsr+dynamic_dispatch+fortran~ilp64+locking+pic+shared build_system=makefile patches=d0b9276 symbol_suffix=none threads=openmp arch=linux-ubuntu22.04-x86_64_v3/wshce2q +## + + +module-whatis {OpenBLAS: An optimized BLAS library} + +proc ModulesHelp { } { + puts stderr {Name : openblas} + puts stderr {Version: 0.3.28} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {OpenBLAS: An optimized BLAS library} +} + +conflict openblas + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openblas-0.3.28-wshce2q3enoa24vha4bas74hwxiszalc/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openblas-0.3.28-wshce2q3enoa24vha4bas74hwxiszalc/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openblas-0.3.28-wshce2q3enoa24vha4bas74hwxiszalc/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openblas-0.3.28-wshce2q3enoa24vha4bas74hwxiszalc/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openblas-0.3.28-wshce2q3enoa24vha4bas74hwxiszalc/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openblas-0.3.28-wshce2q3enoa24vha4bas74hwxiszalc/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openblas-0.3.28-wshce2q3enoa24vha4bas74hwxiszalc/.} +setenv OPENBLAS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openblas-0.3.28-wshce2q3enoa24vha4bas74hwxiszalc} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openjdk/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openjdk/.modulerc new file mode 100644 index 00000000..75edc824 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openjdk/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded openjdk/11.0.23_9-zqqiejw diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openjdk/11.0.17_8 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openjdk/11.0.17_8 new file mode 100644 index 00000000..79e3bd28 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openjdk/11.0.17_8 @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:50.716998 +## +## openjdk@11.0.17_8%gcc@13.2.0 build_system=generic certs=none arch=linux-ubuntu22.04-x86_64_v3/wswsa43 +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {The free and opensource java implementation} + +proc ModulesHelp { } { + puts stderr {Name : openjdk} + puts stderr {Version: 11.0.17_8} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The free and opensource java implementation} +} + +conflict openjdk + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openjdk-11.0.17_8/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openjdk-11.0.17_8/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openjdk-11.0.17_8/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openjdk-11.0.17_8/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openjdk-11.0.17_8/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openjdk-11.0.17_8/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openjdk-11.0.17_8/.} +setenv JAVA_HOME {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openjdk-11.0.17_8} +setenv OPENJDK_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openjdk-11.0.17_8} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openjdk/11.0.23_9-zqqiejw b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openjdk/11.0.23_9-zqqiejw new file mode 100644 index 00000000..ee32c3b8 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openjdk/11.0.23_9-zqqiejw @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:50.722967 +## +## openjdk@11.0.23_9%gcc@11.4.0 build_system=generic certs=none arch=linux-ubuntu22.04-x86_64_v3/zqqiejw +## + + +module-whatis {The free and opensource java implementation} + +proc ModulesHelp { } { + puts stderr {Name : openjdk} + puts stderr {Version: 11.0.23_9} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The free and opensource java implementation} +} + +conflict openjdk + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/openjdk-11.0.23_9-zqqiejwsx4adltt4zbzzxko4pai5sdnx/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/openjdk-11.0.23_9-zqqiejwsx4adltt4zbzzxko4pai5sdnx/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/openjdk-11.0.23_9-zqqiejwsx4adltt4zbzzxko4pai5sdnx/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/openjdk-11.0.23_9-zqqiejwsx4adltt4zbzzxko4pai5sdnx/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/openjdk-11.0.23_9-zqqiejwsx4adltt4zbzzxko4pai5sdnx/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/openjdk-11.0.23_9-zqqiejwsx4adltt4zbzzxko4pai5sdnx/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/openjdk-11.0.23_9-zqqiejwsx4adltt4zbzzxko4pai5sdnx/.} +setenv JAVA_HOME {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/openjdk-11.0.23_9-zqqiejwsx4adltt4zbzzxko4pai5sdnx} +setenv OPENJDK_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/openjdk-11.0.23_9-zqqiejwsx4adltt4zbzzxko4pai5sdnx} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openjdk/16.0.2 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openjdk/16.0.2 new file mode 100644 index 00000000..42c774a8 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openjdk/16.0.2 @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:50.730128 +## +## openjdk@16.0.2%gcc@13.2.0 build_system=generic certs=none arch=linux-ubuntu22.04-x86_64_v3/3hmazxz +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {The free and opensource java implementation} + +proc ModulesHelp { } { + puts stderr {Name : openjdk} + puts stderr {Version: 16.0.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The free and opensource java implementation} +} + +conflict openjdk + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openjdk-16.0.2/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openjdk-16.0.2/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openjdk-16.0.2/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openjdk-16.0.2/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openjdk-16.0.2/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openjdk-16.0.2/.} +setenv JAVA_HOME {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openjdk-16.0.2} +setenv OPENJDK_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openjdk-16.0.2} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openjdk/17.0.11_9 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openjdk/17.0.11_9 new file mode 100644 index 00000000..739a3ad8 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openjdk/17.0.11_9 @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:50.749099 +## +## openjdk@17.0.11_9%gcc@13.2.0 build_system=generic certs=none arch=linux-ubuntu22.04-x86_64_v3/y7yncak +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {The free and opensource java implementation} + +proc ModulesHelp { } { + puts stderr {Name : openjdk} + puts stderr {Version: 17.0.11_9} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The free and opensource java implementation} +} + +conflict openjdk + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openjdk-17.0.11_9/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openjdk-17.0.11_9/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openjdk-17.0.11_9/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openjdk-17.0.11_9/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openjdk-17.0.11_9/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openjdk-17.0.11_9/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openjdk-17.0.11_9/.} +setenv JAVA_HOME {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openjdk-17.0.11_9} +setenv OPENJDK_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openjdk-17.0.11_9} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openjpeg/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openjpeg/.modulerc new file mode 100644 index 00000000..91cab31d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openjpeg/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded openjpeg/2.3.1-52jyfaj diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openjpeg/2.3.1-52jyfaj b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openjpeg/2.3.1-52jyfaj new file mode 100644 index 00000000..bbdf1d1e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openjpeg/2.3.1-52jyfaj @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:50.755136 +## +## openjpeg@2.3.1%gcc@13.2.0~codec~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/52jyfaj +## +## Configure options: -DBUILD_CODEC:BOOL=OFF -DBUILD_MJ2:BOOL=OFF -DBUILD_THIRDPARTY:BOOL=OFF +## + + +module-whatis {OpenJPEG is an open-source JPEG 2000 codec written in C language.} + +proc ModulesHelp { } { + puts stderr {Name : openjpeg} + puts stderr {Version: 2.3.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {OpenJPEG is an open-source JPEG 2000 codec written in C language. It has} + puts stderr {been developed in order to promote the use of JPEG 2000, a still-image} + puts stderr {compression standard from the Joint Photographic Experts Group (JPEG).} + puts stderr {Since April 2015, it is officially recognized by ISO/IEC and ITU-T as a} + puts stderr {JPEG 2000 Reference Software.} +} + +conflict openjpeg + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openjpeg-2.3.1-52jyfajo22zk7xi34arfnaichcpm3y7t/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openjpeg-2.3.1-52jyfajo22zk7xi34arfnaichcpm3y7t/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openjpeg-2.3.1-52jyfajo22zk7xi34arfnaichcpm3y7t/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openjpeg-2.3.1-52jyfajo22zk7xi34arfnaichcpm3y7t/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openjpeg-2.3.1-52jyfajo22zk7xi34arfnaichcpm3y7t/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openjpeg-2.3.1-52jyfajo22zk7xi34arfnaichcpm3y7t/.} +setenv OPENJPEG_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openjpeg-2.3.1-52jyfajo22zk7xi34arfnaichcpm3y7t} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openldap/2.4.49 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openldap/2.4.49 new file mode 100644 index 00000000..5881558c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openldap/2.4.49 @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:50.766719 +## +## openldap@2.4.49%gcc@13.2.0+client_only+dynamic~icu~perl+sasl+shared~static build_system=autotools tls=gnutls arch=linux-ubuntu22.04-x86_64_v3/c6tpo7m +## +## Configure options: CPPFLAGS=-D_GNU_SOURCE --disable-debug --disable-slapd --with-cyrus-sasl --disable-static --enable-shared --enable-dynamic +## + + +module-whatis { OpenLDAP Software is an open source implementation of the Lightweight Directory Access Protocol. The suite includes:} + +proc ModulesHelp { } { + puts stderr {Name : openldap} + puts stderr {Version: 2.4.49} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr { OpenLDAP Software is an open source implementation of the Lightweight} + puts stderr {Directory Access Protocol. The suite includes: slapd - stand-alone LDAP} + puts stderr {daemon (server) libraries implementing the LDAP protocol, and utilities,} + puts stderr {tools, and sample clients.} +} + +conflict openldap + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/openldap-2.4.49/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/openldap-2.4.49/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/openldap-2.4.49/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/openldap-2.4.49/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/openldap-2.4.49/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/openldap-2.4.49/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/openldap-2.4.49/.} +setenv OPENLDAP_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openldap-2.4.49-c6tpo7mpnnzlehcnopdpm45eoamrfzv3} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openmm/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openmm/.modulerc new file mode 100644 index 00000000..c11cbc87 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openmm/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded openmm/7.5.1-33qcxte diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openmm/7.5.1-33qcxte b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openmm/7.5.1-33qcxte new file mode 100644 index 00000000..808dd7c6 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openmm/7.5.1-33qcxte @@ -0,0 +1,84 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:50.807833 +## +## openmm@7.5.1%gcc@13.2.0+cuda~ipo build_system=cmake build_type=Release cuda_arch=75 generator=make patches=90bc01b,a5a0ced arch=linux-ubuntu22.04-x86_64_v3/33qcxte +## + + +module-whatis {A high performance toolkit for molecular simulation. Use it as a library, or as an application. We include extensive language bindings for Python, C, C++, and even Fortran. The code is open source and actively maintained on Github, licensed under MIT and LGPL. Part of the Omnia suite of tools for predictive biomolecular simulation.} + +proc ModulesHelp { } { + puts stderr {Name : openmm} + puts stderr {Version: 7.5.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A high performance toolkit for molecular simulation. Use it as a} + puts stderr {library, or as an application. We include extensive language bindings} + puts stderr {for Python, C, C++, and even Fortran. The code is open source and} + puts stderr {actively maintained on Github, licensed under MIT and LGPL. Part of the} + puts stderr {Omnia suite of tools for predictive biomolecular simulation.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load cuda/12.6.2 + module load py-numpy/1.25.2-2wshlgs + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on cuda/12.6.2 + depends-on py-numpy/1.25.2-2wshlgs + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict openmm + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openmm-7.5.1-33qcxtewtnahx5mhuflixmz5onoouapv/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openmm-7.5.1-33qcxtewtnahx5mhuflixmz5onoouapv/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openmm-7.5.1-33qcxtewtnahx5mhuflixmz5onoouapv/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openmm-7.5.1-33qcxtewtnahx5mhuflixmz5onoouapv/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openmm-7.5.1-33qcxtewtnahx5mhuflixmz5onoouapv/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openmm-7.5.1-33qcxtewtnahx5mhuflixmz5onoouapv/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openmm-7.5.1-33qcxtewtnahx5mhuflixmz5onoouapv/lib/python3.11/site-packages} +setenv OPENMM_CUDA_COMPILER {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-12.6.2/bin/nvcc} +setenv CUDA_HOST_COMPILER {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-13.2.0/bin/g++} +setenv OPENMM_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openmm-7.5.1-33qcxtewtnahx5mhuflixmz5onoouapv} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openmpi/4.1.5 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openmpi/4.1.5 new file mode 100644 index 00000000..0c421c84 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openmpi/4.1.5 @@ -0,0 +1,83 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 16:00:08.650022 +## +## openmpi@4.1.5%gcc@13.2.0+atomics+cuda~cxx~cxx_exceptions~debug~gpfs~internal-hwloc~internal-libevent~internal-pmix~java+legacylaunchers~lustre~memchecker~openshmem~orterunprefix~pmi+romio+rsh~singularity~static~two_level_namespace+vt+wrapper-rpath build_system=autotools cuda_arch=75,86 fabrics=ucx romio-filesystem=none schedulers=slurm arch=linux-ubuntu22.04-x86_64_v3/6636tuv +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {An open source Message Passing Interface implementation.} + +proc ModulesHelp { } { + puts stderr {Name : openmpi} + puts stderr {Version: 4.1.5} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {An open source Message Passing Interface implementation. The Open MPI} + puts stderr {Project is an open source Message Passing Interface implementation that} + puts stderr {is developed and maintained by a consortium of academic, research, and} + puts stderr {industry partners. Open MPI is therefore able to combine the expertise,} + puts stderr {technologies, and resources from all across the High Performance} + puts stderr {Computing community in order to build the best MPI library available.} + puts stderr {Open MPI offers advantages for system and software vendors, application} + puts stderr {developers and computer science researchers.} +} + +conflict openmpi + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openmpi-4.1.5/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openmpi-4.1.5/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openmpi-4.1.5/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openmpi-4.1.5/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openmpi-4.1.5/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openmpi-4.1.5/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openmpi-4.1.5/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openmpi-4.1.5/.} +setenv MPICC {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openmpi-4.1.5/bin/mpicc} +setenv MPICXX {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openmpi-4.1.5/bin/mpic++} +setenv MPIF77 {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openmpi-4.1.5/bin/mpif77} +setenv MPIF90 {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openmpi-4.1.5/bin/mpif90} +setenv MPIFC {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openmpi-4.1.5/bin/mpifort} +setenv OPENMPI_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openmpi-4.1.5} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openmpi/4.1.7 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openmpi/4.1.7 new file mode 100644 index 00000000..5a86f6df --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openmpi/4.1.7 @@ -0,0 +1,83 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:51.109803 +## +## openmpi@4.1.7%gcc@13.2.0+atomics+cuda~cxx~cxx_exceptions~debug~gpfs~internal-hwloc~internal-libevent~internal-pmix~java+legacylaunchers~lustre~memchecker~openshmem~orterunprefix~pmi+romio+rsh~singularity~static~two_level_namespace+vt+wrapper-rpath build_system=autotools cuda_arch=75,86 fabrics=ucx romio-filesystem=none schedulers=slurm arch=linux-ubuntu22.04-x86_64_v3/skjbzyf +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {An open source Message Passing Interface implementation.} + +proc ModulesHelp { } { + puts stderr {Name : openmpi} + puts stderr {Version: 4.1.7} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {An open source Message Passing Interface implementation. The Open MPI} + puts stderr {Project is an open source Message Passing Interface implementation that} + puts stderr {is developed and maintained by a consortium of academic, research, and} + puts stderr {industry partners. Open MPI is therefore able to combine the expertise,} + puts stderr {technologies, and resources from all across the High Performance} + puts stderr {Computing community in order to build the best MPI library available.} + puts stderr {Open MPI offers advantages for system and software vendors, application} + puts stderr {developers and computer science researchers.} +} + +conflict openmpi + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openmpi-4.1.7/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openmpi-4.1.7/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openmpi-4.1.7/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openmpi-4.1.7/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openmpi-4.1.7/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openmpi-4.1.7/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openmpi-4.1.7/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openmpi-4.1.7/.} +setenv MPICC {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openmpi-4.1.7/bin/mpicc} +setenv MPICXX {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openmpi-4.1.7/bin/mpic++} +setenv MPIF77 {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openmpi-4.1.7/bin/mpif77} +setenv MPIF90 {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openmpi-4.1.7/bin/mpif90} +setenv MPIFC {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openmpi-4.1.7/bin/mpifort} +setenv OPENMPI_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openmpi-4.1.7} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openmpi/5.0.5 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openmpi/5.0.5 new file mode 100644 index 00000000..b13b32f2 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openmpi/5.0.5 @@ -0,0 +1,83 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:51.172957 +## +## openmpi@5.0.5%gcc@13.2.0+atomics+cuda~debug~gpfs~internal-hwloc~internal-libevent~internal-pmix~java~lustre~memchecker~openshmem~romio+rsh~static~two_level_namespace+vt+wrapper-rpath build_system=autotools cuda_arch=75,86 fabrics=ucx romio-filesystem=nfs,quobytefs schedulers=slurm arch=linux-ubuntu22.04-x86_64_v3/a7323st +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {An open source Message Passing Interface implementation.} + +proc ModulesHelp { } { + puts stderr {Name : openmpi} + puts stderr {Version: 5.0.5} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {An open source Message Passing Interface implementation. The Open MPI} + puts stderr {Project is an open source Message Passing Interface implementation that} + puts stderr {is developed and maintained by a consortium of academic, research, and} + puts stderr {industry partners. Open MPI is therefore able to combine the expertise,} + puts stderr {technologies, and resources from all across the High Performance} + puts stderr {Computing community in order to build the best MPI library available.} + puts stderr {Open MPI offers advantages for system and software vendors, application} + puts stderr {developers and computer science researchers.} +} + +conflict openmpi + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openmpi-5.0.5/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openmpi-5.0.5/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openmpi-5.0.5/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openmpi-5.0.5/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openmpi-5.0.5/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openmpi-5.0.5/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openmpi-5.0.5/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openmpi-5.0.5/.} +setenv MPICC {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openmpi-5.0.5/bin/mpicc} +setenv MPICXX {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openmpi-5.0.5/bin/mpic++} +setenv MPIF77 {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openmpi-5.0.5/bin/mpif77} +setenv MPIF90 {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openmpi-5.0.5/bin/mpif90} +setenv MPIFC {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openmpi-5.0.5/bin/mpifort} +setenv OPENMPI_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openmpi-5.0.5} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openssh/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openssh/.modulerc new file mode 100644 index 00000000..c4dc2c1d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openssh/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded openssh/9.9p1-nz2r5xo diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openssh/9.9p1-nz2r5xo b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openssh/9.9p1-nz2r5xo new file mode 100644 index 00000000..6f862c02 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openssh/9.9p1-nz2r5xo @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:51.230560 +## +## openssh@9.9p1%gcc@13.2.0+gssapi build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/nz2r5xo +## +## Configure options: --with-privsep-path=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openssh-9.9p1-nz2r5xof7ot5hgmfcoe7qgdbmnpd3n26/var/empty --with-kerberos5=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/krb5-1.21.3-rpbi5dhsh2kwpdxlxyhvrrmo7itrwfkm +## + + +module-whatis {OpenSSH is the premier connectivity tool for remote login with the SSH protocol. It encrypts all traffic to eliminate eavesdropping, connection hijacking, and other attacks. In addition, OpenSSH provides a large suite of secure tunneling capabilities, several authentication methods, and sophisticated configuration options. } + +proc ModulesHelp { } { + puts stderr {Name : openssh} + puts stderr {Version: 9.9p1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {OpenSSH is the premier connectivity tool for remote login with the SSH} + puts stderr {protocol. It encrypts all traffic to eliminate eavesdropping, connection} + puts stderr {hijacking, and other attacks. In addition, OpenSSH provides a large} + puts stderr {suite of secure tunneling capabilities, several authentication methods,} + puts stderr {and sophisticated configuration options.} +} + +conflict openssh + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openssh-9.9p1-nz2r5xof7ot5hgmfcoe7qgdbmnpd3n26/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openssh-9.9p1-nz2r5xof7ot5hgmfcoe7qgdbmnpd3n26/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openssh-9.9p1-nz2r5xof7ot5hgmfcoe7qgdbmnpd3n26/.} +setenv OPENSSH_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openssh-9.9p1-nz2r5xof7ot5hgmfcoe7qgdbmnpd3n26} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openssl/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openssl/.modulerc new file mode 100644 index 00000000..2a6cd367 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openssl/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded openssl/3.4.0-uhzk6tu +module-hide --soft --hidden-loaded openssl/3.4.0-tgwni2l diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openssl/1.0.2u b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openssl/1.0.2u new file mode 100644 index 00000000..418adaa5 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openssl/1.0.2u @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:51.244501 +## +## openssl@1.0.2u%gcc@13.2.0~docs+shared build_system=generic certs=mozilla arch=linux-ubuntu22.04-x86_64_v3/fsekfux +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {OpenSSL is an open source project that provides a robust, commercial-grade, and full-featured toolkit for the Transport Layer Security (TLS) and Secure Sockets Layer (SSL) protocols. It is also a general-purpose cryptography library.} + +proc ModulesHelp { } { + puts stderr {Name : openssl} + puts stderr {Version: 1.0.2u} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {OpenSSL is an open source project that provides a robust, commercial-} + puts stderr {grade, and full-featured toolkit for the Transport Layer Security (TLS)} + puts stderr {and Secure Sockets Layer (SSL) protocols. It is also a general-purpose} + puts stderr {cryptography library.} +} + +conflict openssl + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-1.0.2u/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-1.0.2u/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-1.0.2u/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-1.0.2u/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-1.0.2u/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-1.0.2u/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-1.0.2u/.} +setenv OPENSSL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-1.0.2u} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openssl/1.1.1w b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openssl/1.1.1w new file mode 100644 index 00000000..abf3d761 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openssl/1.1.1w @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:51.300568 +## +## openssl@1.1.1w%gcc@13.2.0~docs+shared build_system=generic certs=mozilla arch=linux-ubuntu22.04-x86_64_v3/5eowh63 +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {OpenSSL is an open source project that provides a robust, commercial-grade, and full-featured toolkit for the Transport Layer Security (TLS) and Secure Sockets Layer (SSL) protocols. It is also a general-purpose cryptography library.} + +proc ModulesHelp { } { + puts stderr {Name : openssl} + puts stderr {Version: 1.1.1w} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {OpenSSL is an open source project that provides a robust, commercial-} + puts stderr {grade, and full-featured toolkit for the Transport Layer Security (TLS)} + puts stderr {and Secure Sockets Layer (SSL) protocols. It is also a general-purpose} + puts stderr {cryptography library.} +} + +conflict openssl + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-1.1.1w/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-1.1.1w/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-1.1.1w/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-1.1.1w/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-1.1.1w/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-1.1.1w/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-1.1.1w/.} +setenv OPENSSL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-1.1.1w} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openssl/3.0.15 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openssl/3.0.15 new file mode 100644 index 00000000..ee4685d4 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openssl/3.0.15 @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:51.344066 +## +## openssl@3.0.15%gcc@13.2.0~docs+shared build_system=generic certs=mozilla arch=linux-ubuntu22.04-x86_64_v3/owkom6p +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {OpenSSL is an open source project that provides a robust, commercial-grade, and full-featured toolkit for the Transport Layer Security (TLS) and Secure Sockets Layer (SSL) protocols. It is also a general-purpose cryptography library.} + +proc ModulesHelp { } { + puts stderr {Name : openssl} + puts stderr {Version: 3.0.15} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {OpenSSL is an open source project that provides a robust, commercial-} + puts stderr {grade, and full-featured toolkit for the Transport Layer Security (TLS)} + puts stderr {and Secure Sockets Layer (SSL) protocols. It is also a general-purpose} + puts stderr {cryptography library.} +} + +conflict openssl + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.0.15/lib64} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.0.15/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.0.15/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.0.15/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.0.15/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.0.15/lib64/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.0.15/.} +setenv OPENSSL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.0.15} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openssl/3.1.7 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openssl/3.1.7 new file mode 100644 index 00000000..11ca93e2 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openssl/3.1.7 @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:51.400752 +## +## openssl@3.1.7%gcc@13.2.0~docs+shared build_system=generic certs=mozilla arch=linux-ubuntu22.04-x86_64_v3/rt6rutx +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {OpenSSL is an open source project that provides a robust, commercial-grade, and full-featured toolkit for the Transport Layer Security (TLS) and Secure Sockets Layer (SSL) protocols. It is also a general-purpose cryptography library.} + +proc ModulesHelp { } { + puts stderr {Name : openssl} + puts stderr {Version: 3.1.7} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {OpenSSL is an open source project that provides a robust, commercial-} + puts stderr {grade, and full-featured toolkit for the Transport Layer Security (TLS)} + puts stderr {and Secure Sockets Layer (SSL) protocols. It is also a general-purpose} + puts stderr {cryptography library.} +} + +conflict openssl + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.1.7/lib64} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.1.7/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.1.7/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.1.7/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.1.7/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.1.7/lib64/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.1.7/.} +setenv OPENSSL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.1.7} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openssl/3.2.3 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openssl/3.2.3 new file mode 100644 index 00000000..399e3eb9 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openssl/3.2.3 @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:51.457740 +## +## openssl@3.2.3%gcc@13.2.0~docs+shared build_system=generic certs=mozilla arch=linux-ubuntu22.04-x86_64_v3/a4c4yjw +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {OpenSSL is an open source project that provides a robust, commercial-grade, and full-featured toolkit for the Transport Layer Security (TLS) and Secure Sockets Layer (SSL) protocols. It is also a general-purpose cryptography library.} + +proc ModulesHelp { } { + puts stderr {Name : openssl} + puts stderr {Version: 3.2.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {OpenSSL is an open source project that provides a robust, commercial-} + puts stderr {grade, and full-featured toolkit for the Transport Layer Security (TLS)} + puts stderr {and Secure Sockets Layer (SSL) protocols. It is also a general-purpose} + puts stderr {cryptography library.} +} + +conflict openssl + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.2.3/lib64} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.2.3/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.2.3/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.2.3/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.2.3/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.2.3/lib64/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.2.3/.} +setenv OPENSSL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.2.3} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openssl/3.4.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openssl/3.4.0 new file mode 100644 index 00000000..1399ae7f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openssl/3.4.0 @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:51.515033 +## +## openssl@3.4.0%gcc@13.2.0~docs+shared build_system=generic certs=mozilla arch=linux-ubuntu22.04-x86_64_v3/wgeyriy +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {OpenSSL is an open source project that provides a robust, commercial-grade, and full-featured toolkit for the Transport Layer Security (TLS) and Secure Sockets Layer (SSL) protocols. It is also a general-purpose cryptography library.} + +proc ModulesHelp { } { + puts stderr {Name : openssl} + puts stderr {Version: 3.4.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {OpenSSL is an open source project that provides a robust, commercial-} + puts stderr {grade, and full-featured toolkit for the Transport Layer Security (TLS)} + puts stderr {and Secure Sockets Layer (SSL) protocols. It is also a general-purpose} + puts stderr {cryptography library.} +} + +conflict openssl + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.4.0/lib64} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.4.0/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.4.0/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.4.0/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.4.0/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.4.0/lib64/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.4.0/.} +setenv OPENSSL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.4.0} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openssl/3.4.0-tgwni2l b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openssl/3.4.0-tgwni2l new file mode 100644 index 00000000..98f46789 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openssl/3.4.0-tgwni2l @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:51.501877 +## +## openssl@3.4.0%gcc@7.5.0~docs+shared build_system=generic certs=mozilla arch=linux-ubuntu22.04-x86_64_v3/tgwni2l +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {OpenSSL is an open source project that provides a robust, commercial-grade, and full-featured toolkit for the Transport Layer Security (TLS) and Secure Sockets Layer (SSL) protocols. It is also a general-purpose cryptography library.} + +proc ModulesHelp { } { + puts stderr {Name : openssl} + puts stderr {Version: 3.4.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {OpenSSL is an open source project that provides a robust, commercial-} + puts stderr {grade, and full-featured toolkit for the Transport Layer Security (TLS)} + puts stderr {and Secure Sockets Layer (SSL) protocols. It is also a general-purpose} + puts stderr {cryptography library.} +} + +conflict openssl + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.4.0/lib64} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.4.0/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.4.0/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.4.0/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.4.0/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.4.0/lib64/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.4.0/.} +setenv OPENSSL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.4.0} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openssl/3.4.0-uhzk6tu b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openssl/3.4.0-uhzk6tu new file mode 100644 index 00000000..38020fc6 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/openssl/3.4.0-uhzk6tu @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:51.508526 +## +## openssl@3.4.0%gcc@11.4.0~docs+shared build_system=generic certs=mozilla arch=linux-ubuntu22.04-x86_64_v3/uhzk6tu +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {OpenSSL is an open source project that provides a robust, commercial-grade, and full-featured toolkit for the Transport Layer Security (TLS) and Secure Sockets Layer (SSL) protocols. It is also a general-purpose cryptography library.} + +proc ModulesHelp { } { + puts stderr {Name : openssl} + puts stderr {Version: 3.4.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {OpenSSL is an open source project that provides a robust, commercial-} + puts stderr {grade, and full-featured toolkit for the Transport Layer Security (TLS)} + puts stderr {and Secure Sockets Layer (SSL) protocols. It is also a general-purpose} + puts stderr {cryptography library.} +} + +conflict openssl + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.4.0/lib64} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.4.0/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.4.0/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.4.0/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.4.0/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.4.0/lib64/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.4.0/.} +setenv OPENSSL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.4.0} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/orthofinder/2.5.5 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/orthofinder/2.5.5 new file mode 100644 index 00000000..3e44cc5b --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/orthofinder/2.5.5 @@ -0,0 +1,87 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:51.534990 +## +## orthofinder@2.5.5%gcc@13.2.0~blast~iqtree~mmseqs2~muscle~raxml~raxml-ng build_system=generic arch=linux-ubuntu22.04-x86_64_v3/f4vhpzt +## + + +module-whatis {OrthoFinder is a fast, accurate and comprehensive analysis tool for comparative genomics.} + +proc ModulesHelp { } { + puts stderr {Name : orthofinder} + puts stderr {Version: 2.5.5} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {OrthoFinder is a fast, accurate and comprehensive analysis tool for} + puts stderr {comparative genomics. It finds orthologues and orthogroups infers rooted} + puts stderr {gene trees for all orthogroups and infers a rooted species tree for the} + puts stderr {species being analysed. OrthoFinder also provides comprehensive} + puts stderr {statistics for comparative genomic analyses. OrthoFinder is simple to} + puts stderr {use and all you need to run it is a set of protein sequence files (one} + puts stderr {per species) in FASTA format.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load diamond/2.1.10-v5sv7w3 + module load fastme/2.1.5.1 + module load fasttree/2.1.11 + module load mafft/7.525-d3lothm + module load mcl/14-137 + module load py-numpy/2.1.2-rif434b + module load py-scipy/1.14.1-u5pel67 +} else { + depends-on diamond/2.1.10-v5sv7w3 + depends-on fastme/2.1.5.1 + depends-on fasttree/2.1.11 + depends-on mafft/7.525-d3lothm + depends-on mcl/14-137 + depends-on py-numpy/2.1.2-rif434b + depends-on py-scipy/1.14.1-u5pel67 +} +conflict orthofinder + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/orthofinder-2.5.5/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/orthofinder-2.5.5/.} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/orthofinder-2.5.5/bin} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/orthofinder-2.5.5/bin/tools} +setenv ORTHOFINDER_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/orthofinder-2.5.5-f4vhpztznweqpfcifiipnmlk44bgtpy5} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/orthomcl/2.0.9 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/orthomcl/2.0.9 new file mode 100644 index 00000000..a7bd91a2 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/orthomcl/2.0.9 @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:51.842758 +## +## orthomcl@2.0.9%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/s6o5umh +## + + +module-whatis {OrthoMCL is a genome-scale algorithm for grouping orthologous protein sequences.} + +proc ModulesHelp { } { + puts stderr {Name : orthomcl} + puts stderr {Version: 2.0.9} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {OrthoMCL is a genome-scale algorithm for grouping orthologous protein} + puts stderr {sequences.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict orthomcl + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/orthomcl-2.0.9/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/orthomcl-2.0.9/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/orthomcl-2.0.9/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/orthomcl-2.0.9/lib} +setenv ORTHOMCL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/orthomcl-2.0.9-s6o5umh34gmlsgkjsiqoelve2e46vpdw} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/osi/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/osi/.modulerc new file mode 100644 index 00000000..2a458440 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/osi/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded osi/0.108.8-w33pvyl diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/osi/0.108.8-w33pvyl b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/osi/0.108.8-w33pvyl new file mode 100644 index 00000000..ef19f314 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/osi/0.108.8-w33pvyl @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:51.924576 +## +## osi@0.108.8%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/w33pvyl +## + + +module-whatis {Osi (Open Solver Interface) provides an abstract base class to a generic linear programming (LP) solver, along with derived classes for specific solvers. Many applications may be able to use the Osi to insulate themselves from a specific LP solver. That is, programs written to the OSI standard may be linked to any solver with an OSI interface and should produce correct results. The OSI has been significantly extended compared to its first incarnation. Currently, the OSI supports linear programming solvers and has rudimentary support for integer programming.} + +proc ModulesHelp { } { + puts stderr {Name : osi} + puts stderr {Version: 0.108.8} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Osi (Open Solver Interface) provides an abstract base class to a generic} + puts stderr {linear programming (LP) solver, along with derived classes for specific} + puts stderr {solvers. Many applications may be able to use the Osi to insulate} + puts stderr {themselves from a specific LP solver. That is, programs written to the} + puts stderr {OSI standard may be linked to any solver with an OSI interface and} + puts stderr {should produce correct results. The OSI has been significantly extended} + puts stderr {compared to its first incarnation. Currently, the OSI supports linear} + puts stderr {programming solvers and has rudimentary support for integer programming.} +} + +conflict osi + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/osi-0.108.8-w33pvylzzhx24wgtjnpfbkzgbgws3s6l/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/osi-0.108.8-w33pvylzzhx24wgtjnpfbkzgbgws3s6l/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/osi-0.108.8-w33pvylzzhx24wgtjnpfbkzgbgws3s6l/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/osi-0.108.8-w33pvylzzhx24wgtjnpfbkzgbgws3s6l/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/osi-0.108.8-w33pvylzzhx24wgtjnpfbkzgbgws3s6l/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/osi-0.108.8-w33pvylzzhx24wgtjnpfbkzgbgws3s6l/.} +setenv OSI_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/osi-0.108.8-w33pvylzzhx24wgtjnpfbkzgbgws3s6l} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/paml/4.10.7 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/paml/4.10.7 new file mode 100644 index 00000000..e13b852a --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/paml/4.10.7 @@ -0,0 +1,63 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:51.933563 +## +## paml@4.10.7%gcc@13.2.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/xxc2fup +## + + +module-whatis {PAML is a package of programs for phylogenetic analyses of DNA or protein sewuences using maximum likelihood.} + +proc ModulesHelp { } { + puts stderr {Name : paml} + puts stderr {Version: 4.10.7} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {PAML is a package of programs for phylogenetic analyses of DNA or} + puts stderr {protein sewuences using maximum likelihood.} +} + +conflict paml + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/paml-4.10.7/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/paml-4.10.7/.} +setenv PAML_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/paml-4.10.7-xxc2fuphfntfhqixdb42jr7mfiufmcig} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pandoc/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pandoc/.modulerc new file mode 100644 index 00000000..7e16f6a0 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pandoc/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded pandoc/2.19.2-rsukpqk diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pandoc/2.19.2-rsukpqk b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pandoc/2.19.2-rsukpqk new file mode 100644 index 00000000..3ab8185b --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pandoc/2.19.2-rsukpqk @@ -0,0 +1,65 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:51.955316 +## +## pandoc@2.19.2%gcc@13.2.0~texlive build_system=generic arch=linux-ubuntu22.04-x86_64_v3/rsukpqk +## + + +module-whatis {If you need to convert files from one markup format into another, pandoc is your swiss-army knife.} + +proc ModulesHelp { } { + puts stderr {Name : pandoc} + puts stderr {Version: 2.19.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {If you need to convert files from one markup format into another, pandoc} + puts stderr {is your swiss-army knife.} +} + +conflict pandoc + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pandoc-2.19.2-rsukpqkgk6c5quoehdjy74lo5kgtdf4t/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pandoc-2.19.2-rsukpqkgk6c5quoehdjy74lo5kgtdf4t/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pandoc-2.19.2-rsukpqkgk6c5quoehdjy74lo5kgtdf4t/.} +setenv PANDOC_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pandoc-2.19.2-rsukpqkgk6c5quoehdjy74lo5kgtdf4t} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pango/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pango/.modulerc new file mode 100644 index 00000000..7aec8460 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pango/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded pango/1.54.0-3od4ltw +module-hide --soft --hidden-loaded pango/1.54.0-7ltsrrz diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pango/1.54.0-3od4ltw b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pango/1.54.0-3od4ltw new file mode 100644 index 00000000..6037c492 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pango/1.54.0-3od4ltw @@ -0,0 +1,75 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:51.976173 +## +## pango@1.54.0%gcc@13.2.0+X~strip build_system=meson buildtype=release default_library=shared arch=linux-ubuntu22.04-x86_64_v3/3od4ltw +## + + +module-whatis {Pango is a library for laying out and rendering of text, with an emphasis on internationalization. It can be used anywhere that text layout is needed, though most of the work on Pango so far has been done in the context of the GTK+ widget toolkit.} + +proc ModulesHelp { } { + puts stderr {Name : pango} + puts stderr {Version: 1.54.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Pango is a library for laying out and rendering of text, with an} + puts stderr {emphasis on internationalization. It can be used anywhere that text} + puts stderr {layout is needed, though most of the work on Pango so far has been done} + puts stderr {in the context of the GTK+ widget toolkit.} +} + +conflict pango + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pango-1.54.0-3od4ltwlvuylpgys4pvwnb432yecxuq6/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pango-1.54.0-3od4ltwlvuylpgys4pvwnb432yecxuq6/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pango-1.54.0-3od4ltwlvuylpgys4pvwnb432yecxuq6/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pango-1.54.0-3od4ltwlvuylpgys4pvwnb432yecxuq6/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pango-1.54.0-3od4ltwlvuylpgys4pvwnb432yecxuq6/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pango-1.54.0-3od4ltwlvuylpgys4pvwnb432yecxuq6/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pango-1.54.0-3od4ltwlvuylpgys4pvwnb432yecxuq6/.} +prepend-path XDG_DATA_DIRS {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gobject-introspection-1.78.1-gfqdnam4nzv5wsswjaibdwpawk46k5nz/share} +prepend-path GI_TYPELIB_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gobject-introspection-1.78.1-gfqdnam4nzv5wsswjaibdwpawk46k5nz/lib/girepository-1.0} +prepend-path XDG_DATA_DIRS {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/harfbuzz-10.0.1-5sj2fzreeel252gclfme5h3oe2jwpwed/share} +prepend-path GI_TYPELIB_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/harfbuzz-10.0.1-5sj2fzreeel252gclfme5h3oe2jwpwed/lib/girepository-1.0} +prepend-path GI_TYPELIB_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pango-1.54.0-3od4ltwlvuylpgys4pvwnb432yecxuq6/lib/girepository-1.0} +setenv PANGO_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pango-1.54.0-3od4ltwlvuylpgys4pvwnb432yecxuq6} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pango/1.54.0-7ltsrrz b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pango/1.54.0-7ltsrrz new file mode 100644 index 00000000..810ad94c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pango/1.54.0-7ltsrrz @@ -0,0 +1,75 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:52.003807 +## +## pango@1.54.0%gcc@13.2.0+X~strip build_system=meson buildtype=release default_library=shared arch=linux-ubuntu22.04-x86_64_v3/7ltsrrz +## + + +module-whatis {Pango is a library for laying out and rendering of text, with an emphasis on internationalization. It can be used anywhere that text layout is needed, though most of the work on Pango so far has been done in the context of the GTK+ widget toolkit.} + +proc ModulesHelp { } { + puts stderr {Name : pango} + puts stderr {Version: 1.54.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Pango is a library for laying out and rendering of text, with an} + puts stderr {emphasis on internationalization. It can be used anywhere that text} + puts stderr {layout is needed, though most of the work on Pango so far has been done} + puts stderr {in the context of the GTK+ widget toolkit.} +} + +conflict pango + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pango-1.54.0-7ltsrrzyqqyyobpx7vvg3e72rjqu3iad/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pango-1.54.0-7ltsrrzyqqyyobpx7vvg3e72rjqu3iad/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pango-1.54.0-7ltsrrzyqqyyobpx7vvg3e72rjqu3iad/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pango-1.54.0-7ltsrrzyqqyyobpx7vvg3e72rjqu3iad/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pango-1.54.0-7ltsrrzyqqyyobpx7vvg3e72rjqu3iad/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pango-1.54.0-7ltsrrzyqqyyobpx7vvg3e72rjqu3iad/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pango-1.54.0-7ltsrrzyqqyyobpx7vvg3e72rjqu3iad/.} +prepend-path XDG_DATA_DIRS {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gobject-introspection-1.78.1-lbxjktlxxkuloykmvnpnzarwuzjft3ez/share} +prepend-path GI_TYPELIB_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gobject-introspection-1.78.1-lbxjktlxxkuloykmvnpnzarwuzjft3ez/lib/girepository-1.0} +prepend-path XDG_DATA_DIRS {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/harfbuzz-10.0.1-mw3t2yjersa5j5ylqrqqhnbypdddmh5k/share} +prepend-path GI_TYPELIB_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/harfbuzz-10.0.1-mw3t2yjersa5j5ylqrqqhnbypdddmh5k/lib/girepository-1.0} +prepend-path GI_TYPELIB_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pango-1.54.0-7ltsrrzyqqyyobpx7vvg3e72rjqu3iad/lib/girepository-1.0} +setenv PANGO_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pango-1.54.0-7ltsrrzyqqyyobpx7vvg3e72rjqu3iad} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/parallel/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/parallel/.modulerc new file mode 100644 index 00000000..eda37e3f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/parallel/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded parallel/20240822-eloxime diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/parallel/20220522 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/parallel/20220522 new file mode 100644 index 00000000..b6e31054 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/parallel/20220522 @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:52.031493 +## +## parallel@20220522%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/mtvhv24 +## + + +module-whatis {GNU parallel is a shell tool for executing jobs in parallel using one or more computers. A job can be a single command or a small script that has to be run for each of the lines in the input. } + +proc ModulesHelp { } { + puts stderr {Name : parallel} + puts stderr {Version: 20220522} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {GNU parallel is a shell tool for executing jobs in parallel using one or} + puts stderr {more computers. A job can be a single command or a small script that has} + puts stderr {to be run for each of the lines in the input.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict parallel + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/parallel-20220522/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/parallel-20220522/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/parallel-20220522/.} +setenv PARALLEL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/parallel-20220522-mtvhv24rsbjgj3zjwue7ikn3wgb27h3e} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/parallel/20240822-eloxime b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/parallel/20240822-eloxime new file mode 100644 index 00000000..3543725e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/parallel/20240822-eloxime @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:52.061973 +## +## parallel@20240822%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/eloxime +## + + +module-whatis {GNU parallel is a shell tool for executing jobs in parallel using one or more computers. A job can be a single command or a small script that has to be run for each of the lines in the input. } + +proc ModulesHelp { } { + puts stderr {Name : parallel} + puts stderr {Version: 20240822} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {GNU parallel is a shell tool for executing jobs in parallel using one or} + puts stderr {more computers. A job can be a single command or a small script that has} + puts stderr {to be run for each of the lines in the input.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict parallel + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/parallel-20240822-eloximeaca24oftusupy47cxt2lnbio7/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/parallel-20240822-eloximeaca24oftusupy47cxt2lnbio7/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/parallel-20240822-eloximeaca24oftusupy47cxt2lnbio7/.} +setenv PARALLEL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/parallel-20240822-eloximeaca24oftusupy47cxt2lnbio7} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/paraview/5.11.2 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/paraview/5.11.2 new file mode 100644 index 00000000..b749ef2f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/paraview/5.11.2 @@ -0,0 +1,75 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:52.196642 +## +## paraview@5.11.2%gcc@11.4.0~adios2~advanced_debug~catalyst~cdi+cuda+development_files~examples~eyedomelighting~fides~fortran+hdf5~ipo+kits~libcatalyst~mpi~nvindex+opengl2~pagosa~python~qt~raytracing~rocm+shared+tbb~visitbridge build_edition=canonical build_system=cmake build_type=Release cuda_arch=75 generator=ninja patches=02253c7,acb3805 use_vtkm=default arch=linux-ubuntu22.04-x86_64_v3/2zgohft +## +## Configure options: -DVTK_OPENGL_HAS_OSMESA:BOOL=OFF -DVTK_USE_X:BOOL=ON -DPARAVIEW_INSTALL_DEVELOPMENT_FILES:BOOL=ON -DBUILD_TESTING:BOOL=OFF -DOpenGL_GL_PREFERENCE:STRING=LEGACY -DPARAVIEW_ENABLE_VISITBRIDGE:BOOL=OFF -DVISIT_BUILD_READER_Silo:BOOL=OFF -DVTK_MODULE_USE_EXTERNAL_VTK_verdict:BOOL=OFF -DVTK_MODULE_USE_EXTERNAL_ParaView_vtkcatalyst:BOOL=OFF -DVTK_MODULE_USE_EXTERNAL_VTK_ioss:BOOL=OFF -DVTK_MODULE_USE_EXTERNAL_VTK_exprtk:BOOL=OFF -DVTK_MODULE_USE_EXTERNAL_VTK_fmt:BOOL=OFF -DPARAVIEW_BUILD_EDITION:STRING=CANONICAL -DPARAVIEW_USE_QT:BOOL=OFF -DPARAVIEW_BUILD_WITH_EXTERNAL=ON -DPARAVIEW_ENABLE_EXAMPLES:BOOL=OFF -DVTK_MODULE_USE_EXTERNAL_ParaView_cgns=OFF -DVTK_MODULE_USE_EXTERNAL_VTK_gl2ps=OFF -DVTK_MODULE_USE_EXTERNAL_VTK_libharu=OFF -DVTK_MODULE_USE_EXTERNAL_VTK_utf8=OFF -DPARAVIEW_ENABLE_PYTHON:BOOL=OFF -DPARAVIEW_USE_MPI:BOOL=OFF -DPARAVIEW_BUILD_SHARED_LIBS:BOOL=ON -DPARAVIEW_USE_CUDA:BOOL=ON -DCMAKE_CUDA_ARCHITECTURES:STRING=75 -DPARAVIEW_BUILD_WITH_KITS:BOOL=ON -DVTK_SMP_IMPLEMENTATION_TYPE=TBB -DPARAVIEW_USE_HIP:BOOL=OFF -DPARAVIEW_ENABLE_RAYTRACING:BOOL=OFF -DVTK_ENABLE_OSPRAY:BOOL=OFF -DVTKOSPRAY_ENABLE_DENOISER:BOOL=OFF -DPARAVIEW_PLUGIN_ENABLE_CDIReader:BOOL=OFF -DPARAVIEW_PLUGIN_AUTOLOAD_CDIReader:BOOL=OFF +## + + +module-whatis {ParaView is an open-source, multi-platform data analysis and visualization application. This package includes the Catalyst in-situ library for versions 5.7 and greater, otherwise use the catalyst package.} + +proc ModulesHelp { } { + puts stderr {Name : paraview} + puts stderr {Version: 5.11.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {ParaView is an open-source, multi-platform data analysis and} + puts stderr {visualization application. This package includes the Catalyst in-situ} + puts stderr {library for versions 5.7 and greater, otherwise use the catalyst} + puts stderr {package.} +} + +conflict paraview + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/paraview-5.11.2/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/paraview-5.11.2/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/paraview-5.11.2/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/paraview-5.11.2/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/paraview-5.11.2/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/paraview-5.11.2/.} +setenv ParaView_DIR {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/paraview-5.11.2} +setenv PARAVIEW_VTK_DIR {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/paraview-5.11.2/lib/cmake/paraview-5.11/vtk} +prepend-path LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/paraview-5.11.2/lib} +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/paraview-5.11.2/lib} +setenv PARAVIEW_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/paraview-5.11.2-2zgohftnkzjjlcuc735yyjjzotfgsbek} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/patchelf/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/patchelf/.modulerc new file mode 100644 index 00000000..9212ecb5 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/patchelf/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded patchelf/0.17.2-bcqzd4b diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/patchelf/0.17.2-bcqzd4b b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/patchelf/0.17.2-bcqzd4b new file mode 100644 index 00000000..c9cd3af3 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/patchelf/0.17.2-bcqzd4b @@ -0,0 +1,65 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:52.434944 +## +## patchelf@0.17.2%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/bcqzd4b +## + + +module-whatis {PatchELF is a small utility to modify the dynamic linker and RPATH of ELF executables.} + +proc ModulesHelp { } { + puts stderr {Name : patchelf} + puts stderr {Version: 0.17.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {PatchELF is a small utility to modify the dynamic linker and RPATH of} + puts stderr {ELF executables.} +} + +conflict patchelf + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/patchelf-0.17.2-bcqzd4bta5buacblsyu3gs3ekjx3od6t/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/patchelf-0.17.2-bcqzd4bta5buacblsyu3gs3ekjx3od6t/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/patchelf-0.17.2-bcqzd4bta5buacblsyu3gs3ekjx3od6t/.} +setenv PATCHELF_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/patchelf-0.17.2-bcqzd4bta5buacblsyu3gs3ekjx3od6t} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pcre/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pcre/.modulerc new file mode 100644 index 00000000..57ac7627 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pcre/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded pcre/8.45-rjj57dv diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pcre/8.45-rjj57dv b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pcre/8.45-rjj57dv new file mode 100644 index 00000000..8e71167b --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pcre/8.45-rjj57dv @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:52.456777 +## +## pcre@8.45%gcc@13.2.0~jit+multibyte+pic+shared+static+utf build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/rjj57dv +## + + +module-whatis {The PCRE package contains Perl Compatible Regular Expression libraries. These are useful for implementing regular expression pattern matching using the same syntax and semantics as Perl 5.} + +proc ModulesHelp { } { + puts stderr {Name : pcre} + puts stderr {Version: 8.45} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The PCRE package contains Perl Compatible Regular Expression libraries.} + puts stderr {These are useful for implementing regular expression pattern matching} + puts stderr {using the same syntax and semantics as Perl 5.} +} + +conflict pcre + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pcre-8.45-rjj57dvowwsj4rkj7p6dmcht4vsmne4b/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pcre-8.45-rjj57dvowwsj4rkj7p6dmcht4vsmne4b/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pcre-8.45-rjj57dvowwsj4rkj7p6dmcht4vsmne4b/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pcre-8.45-rjj57dvowwsj4rkj7p6dmcht4vsmne4b/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pcre-8.45-rjj57dvowwsj4rkj7p6dmcht4vsmne4b/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pcre-8.45-rjj57dvowwsj4rkj7p6dmcht4vsmne4b/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pcre-8.45-rjj57dvowwsj4rkj7p6dmcht4vsmne4b/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pcre-8.45-rjj57dvowwsj4rkj7p6dmcht4vsmne4b/.} +setenv PCRE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pcre-8.45-rjj57dvowwsj4rkj7p6dmcht4vsmne4b} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pcre2/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pcre2/.modulerc new file mode 100644 index 00000000..b87b9b62 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pcre2/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded pcre2/10.44-6qftryb diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pcre2/10.44-6qftryb b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pcre2/10.44-6qftryb new file mode 100644 index 00000000..50fa5d32 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pcre2/10.44-6qftryb @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:52.464807 +## +## pcre2@10.44%gcc@13.2.0~jit+multibyte build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/6qftryb +## + + +module-whatis {The PCRE2 package contains Perl Compatible Regular Expression libraries. These are useful for implementing regular expression pattern matching using the same syntax and semantics as Perl 5.} + +proc ModulesHelp { } { + puts stderr {Name : pcre2} + puts stderr {Version: 10.44} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The PCRE2 package contains Perl Compatible Regular Expression libraries.} + puts stderr {These are useful for implementing regular expression pattern matching} + puts stderr {using the same syntax and semantics as Perl 5.} +} + +conflict pcre2 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pcre2-10.44-6qftrybgrnz7r7ssobkleqaq463dpgtg/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pcre2-10.44-6qftrybgrnz7r7ssobkleqaq463dpgtg/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pcre2-10.44-6qftrybgrnz7r7ssobkleqaq463dpgtg/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pcre2-10.44-6qftrybgrnz7r7ssobkleqaq463dpgtg/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pcre2-10.44-6qftrybgrnz7r7ssobkleqaq463dpgtg/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pcre2-10.44-6qftrybgrnz7r7ssobkleqaq463dpgtg/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pcre2-10.44-6qftrybgrnz7r7ssobkleqaq463dpgtg/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pcre2-10.44-6qftrybgrnz7r7ssobkleqaq463dpgtg/.} +setenv PCRE2_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pcre2-10.44-6qftrybgrnz7r7ssobkleqaq463dpgtg} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pegtl/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pegtl/.modulerc new file mode 100644 index 00000000..c813dc47 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pegtl/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded pegtl/2.8.3-p47xbqk diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pegtl/2.8.3-p47xbqk b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pegtl/2.8.3-p47xbqk new file mode 100644 index 00000000..e1f7083a --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pegtl/2.8.3-p47xbqk @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:52.488793 +## +## pegtl@2.8.3%gcc@11.4.0~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/p47xbqk +## +## Configure options: -DPEGTL_BUILD_EXAMPLES=OFF -DPEGTL_BUILD_TESTS=OFF +## + + +module-whatis {The Parsing Expression Grammar Template Library (PEGTL) is a zero-dependency C++11 header-only library for creating parsers according to a Parsing Expression Grammar (PEG). } + +proc ModulesHelp { } { + puts stderr {Name : pegtl} + puts stderr {Version: 2.8.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The Parsing Expression Grammar Template Library (PEGTL) is a zero-} + puts stderr {dependency C++11 header-only library for creating parsers according to a} + puts stderr {Parsing Expression Grammar (PEG).} +} + +conflict pegtl + +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/pegtl-2.8.3-p47xbqkntjms5cej6k2txvgquhhhidjm/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/pegtl-2.8.3-p47xbqkntjms5cej6k2txvgquhhhidjm/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/pegtl-2.8.3-p47xbqkntjms5cej6k2txvgquhhhidjm/include} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/pegtl-2.8.3-p47xbqkntjms5cej6k2txvgquhhhidjm/.} +setenv PEGTL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/pegtl-2.8.3-p47xbqkntjms5cej6k2txvgquhhhidjm} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-algorithm-diff/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-algorithm-diff/.modulerc new file mode 100644 index 00000000..96bd0047 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-algorithm-diff/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-algorithm-diff/1.1903-gqe7mah diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-algorithm-diff/1.1903-gqe7mah b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-algorithm-diff/1.1903-gqe7mah new file mode 100644 index 00000000..8a4bfe71 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-algorithm-diff/1.1903-gqe7mah @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:52.544666 +## +## perl-algorithm-diff@1.1903%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/gqe7mah +## + + +module-whatis {Compute 'intelligent' differences between two files / lists} + +proc ModulesHelp { } { + puts stderr {Name : perl-algorithm-diff} + puts stderr {Version: 1.1903} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Compute 'intelligent' differences between two files / lists} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-algorithm-diff + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-algorithm-diff-1.1903-gqe7mahhwwg45qu22t7ku6tmxn4irlfv/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-algorithm-diff-1.1903-gqe7mahhwwg45qu22t7ku6tmxn4irlfv/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-algorithm-diff-1.1903-gqe7mahhwwg45qu22t7ku6tmxn4irlfv/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-algorithm-diff-1.1903-gqe7mahhwwg45qu22t7ku6tmxn4irlfv/lib/perl5} +setenv PERL_ALGORITHM_DIFF_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-algorithm-diff-1.1903-gqe7mahhwwg45qu22t7ku6tmxn4irlfv} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-b-hooks-endofscope/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-b-hooks-endofscope/.modulerc new file mode 100644 index 00000000..c6f05644 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-b-hooks-endofscope/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-b-hooks-endofscope/0.26-of4f42j diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-b-hooks-endofscope/0.26-of4f42j b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-b-hooks-endofscope/0.26-of4f42j new file mode 100644 index 00000000..b06a9626 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-b-hooks-endofscope/0.26-of4f42j @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:52.555940 +## +## perl-b-hooks-endofscope@0.26%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/of4f42j +## + + +module-whatis {Execute code after a scope finished compilation.} + +proc ModulesHelp { } { + puts stderr {Name : perl-b-hooks-endofscope} + puts stderr {Version: 0.26} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Execute code after a scope finished compilation.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load perl-module-implementation/0.09-llwz36d + module load perl-sub-exporter-progressive/0.001013-efnpjii +} else { + depends-on perl/5.40.0-lzbctij + depends-on perl-module-implementation/0.09-llwz36d + depends-on perl-sub-exporter-progressive/0.001013-efnpjii +} +conflict perl-b-hooks-endofscope + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-b-hooks-endofscope-0.26-of4f42j7kscrvnym6pmwzkbveft3g6cq/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-b-hooks-endofscope-0.26-of4f42j7kscrvnym6pmwzkbveft3g6cq/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-b-hooks-endofscope-0.26-of4f42j7kscrvnym6pmwzkbveft3g6cq/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-b-hooks-endofscope-0.26-of4f42j7kscrvnym6pmwzkbveft3g6cq/lib/perl5} +setenv PERL_B_HOOKS_ENDOFSCOPE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-b-hooks-endofscope-0.26-of4f42j7kscrvnym6pmwzkbveft3g6cq} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-bio-searchio-hmmer/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-bio-searchio-hmmer/.modulerc new file mode 100644 index 00000000..e8060032 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-bio-searchio-hmmer/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-bio-searchio-hmmer/1.7.3-h63mwqk diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-bio-searchio-hmmer/1.7.3-h63mwqk b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-bio-searchio-hmmer/1.7.3-h63mwqk new file mode 100644 index 00000000..579747bf --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-bio-searchio-hmmer/1.7.3-h63mwqk @@ -0,0 +1,75 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:52.572928 +## +## perl-bio-searchio-hmmer@1.7.3%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/h63mwqk +## + + +module-whatis {BioPerl parser to HMMER output.} + +proc ModulesHelp { } { + puts stderr {Name : perl-bio-searchio-hmmer} + puts stderr {Version: 1.7.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {BioPerl parser to HMMER output.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load perl-bioperl/1.7.8-t2wyx73 + module load perl-io-string/1.08-uc43fnq +} else { + depends-on perl/5.40.0-lzbctij + depends-on perl-bioperl/1.7.8-t2wyx73 + depends-on perl-io-string/1.08-uc43fnq +} +conflict perl-bio-searchio-hmmer + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-bio-searchio-hmmer-1.7.3-h63mwqkjwn2ce5zvrh53qbc2ijadiyjo/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-bio-searchio-hmmer-1.7.3-h63mwqkjwn2ce5zvrh53qbc2ijadiyjo/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-bio-searchio-hmmer-1.7.3-h63mwqkjwn2ce5zvrh53qbc2ijadiyjo/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-bio-searchio-hmmer-1.7.3-h63mwqkjwn2ce5zvrh53qbc2ijadiyjo/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-bio-searchio-hmmer-1.7.3-h63mwqkjwn2ce5zvrh53qbc2ijadiyjo/lib/perl5} +setenv PERL_BIO_SEARCHIO_HMMER_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-bio-searchio-hmmer-1.7.3-h63mwqkjwn2ce5zvrh53qbc2ijadiyjo} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-bioperl/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-bioperl/.modulerc new file mode 100644 index 00000000..f8de6554 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-bioperl/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-bioperl/1.7.8-t2wyx73 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-bioperl/1.7.8-t2wyx73 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-bioperl/1.7.8-t2wyx73 new file mode 100644 index 00000000..05c0272d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-bioperl/1.7.8-t2wyx73 @@ -0,0 +1,142 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:52.626902 +## +## perl-bioperl@1.7.8%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/t2wyx73 +## +## Configure options: --accept=1 +## + + +module-whatis {BioPerl is the product of a community effort to produce Perl code which is useful in biology. Examples include Sequence objects, Alignment objects and database searching objects. These objects not only do what they are advertised to do in the documentation, but they also interact - Alignment objects are made from the Sequence objects, Sequence objects have access to Annotation and SeqFeature objects and databases, Blast objects can be converted to Alignment objects, and so on. This means that the objects provide a coordinated and extensible framework to do computational biology.} + +proc ModulesHelp { } { + puts stderr {Name : perl-bioperl} + puts stderr {Version: 1.7.8} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {BioPerl is the product of a community effort to produce Perl code which} + puts stderr {is useful in biology. Examples include Sequence objects, Alignment} + puts stderr {objects and database searching objects. These objects not only do what} + puts stderr {they are advertised to do in the documentation, but they also interact -} + puts stderr {Alignment objects are made from the Sequence objects, Sequence objects} + puts stderr {have access to Annotation and SeqFeature objects and databases, Blast} + puts stderr {objects can be converted to Alignment objects, and so on. This means} + puts stderr {that the objects provide a coordinated and extensible framework to do} + puts stderr {computational biology. BioPerl development focuses on Perl classes, or} + puts stderr {code that is used to create objects representing biological entities.} + puts stderr {There are scripts provided in the scripts/ and examples/ directories but} + puts stderr {scripts are not the main focus of the BioPerl developers. Of course, as} + puts stderr {the objects do most of the hard work for you, all you have to do is} + puts stderr {combine a number of objects together sensibly to make useful scripts.} + puts stderr {The intent of the BioPerl development effort is to make reusable tools} + puts stderr {that aid people in creating their own sites or job-specific} + puts stderr {applications. The BioPerl website at https://bioperl.org/ also attempts} + puts stderr {to maintain links and archives of standalone bio-related Perl tools that} + puts stderr {are not affiliated or related to the core BioPerl effort. Check the site} + puts stderr {for useful code ideas and contribute your own if possible.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load perl-data-stag/0.14-hccnvay + module load perl-error/0.17029-7yzrldw + module load perl-graph/0.9704-s2vz6de + module load perl-http-message/6.45-2jh2jmd + module load perl-io-string/1.08-uc43fnq + module load perl-io-stringy/2.113-w3alcwn + module load perl-ipc-run/20231003.0-wk5tppj + module load perl-libwww-perl/6.68-hsaecxw + module load perl-libxml-perl/0.08-vurv5vo + module load perl-list-moreutils/0.430-gt3gh55 + module load perl-module-build/0.4234-xals7ew + module load perl-set-scalar/1.29-ykddwby + module load perl-test-most/0.38-4pll5wx + module load perl-test-requiresinternet/0.05-ot5zt4s + module load perl-uri/5.08-d7o47om + module load perl-xml-dom/1.46-zcsjlow + module load perl-xml-dom-xpath/0.14-nko5nhw + module load perl-xml-libxml/2.0210-rqqhzqw + module load perl-xml-parser/2.47-uotde6y + module load perl-xml-sax/1.02-ner6hhv + module load perl-xml-sax-base/1.09-ulcgtlz + module load perl-xml-sax-writer/0.57-wmr56we + module load perl-xml-simple/2.25-bcuc24x + module load perl-xml-twig/3.52-34zuat4 + module load perl-yaml/1.30-nhnvo3a +} else { + depends-on perl/5.40.0-lzbctij + depends-on perl-data-stag/0.14-hccnvay + depends-on perl-error/0.17029-7yzrldw + depends-on perl-graph/0.9704-s2vz6de + depends-on perl-http-message/6.45-2jh2jmd + depends-on perl-io-string/1.08-uc43fnq + depends-on perl-io-stringy/2.113-w3alcwn + depends-on perl-ipc-run/20231003.0-wk5tppj + depends-on perl-libwww-perl/6.68-hsaecxw + depends-on perl-libxml-perl/0.08-vurv5vo + depends-on perl-list-moreutils/0.430-gt3gh55 + depends-on perl-module-build/0.4234-xals7ew + depends-on perl-set-scalar/1.29-ykddwby + depends-on perl-test-most/0.38-4pll5wx + depends-on perl-test-requiresinternet/0.05-ot5zt4s + depends-on perl-uri/5.08-d7o47om + depends-on perl-xml-dom/1.46-zcsjlow + depends-on perl-xml-dom-xpath/0.14-nko5nhw + depends-on perl-xml-libxml/2.0210-rqqhzqw + depends-on perl-xml-parser/2.47-uotde6y + depends-on perl-xml-sax/1.02-ner6hhv + depends-on perl-xml-sax-base/1.09-ulcgtlz + depends-on perl-xml-sax-writer/0.57-wmr56we + depends-on perl-xml-simple/2.25-bcuc24x + depends-on perl-xml-twig/3.52-34zuat4 + depends-on perl-yaml/1.30-nhnvo3a +} +conflict perl-bioperl + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-bioperl-1.7.8-t2wyx73d7xhhfmc7y2k574kvqgkykkih/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-bioperl-1.7.8-t2wyx73d7xhhfmc7y2k574kvqgkykkih/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-bioperl-1.7.8-t2wyx73d7xhhfmc7y2k574kvqgkykkih/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-bioperl-1.7.8-t2wyx73d7xhhfmc7y2k574kvqgkykkih/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-bioperl-1.7.8-t2wyx73d7xhhfmc7y2k574kvqgkykkih/lib/perl5} +setenv PERL_BIOPERL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-bioperl-1.7.8-t2wyx73d7xhhfmc7y2k574kvqgkykkih} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-capture-tiny/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-capture-tiny/.modulerc new file mode 100644 index 00000000..fed6a244 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-capture-tiny/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-capture-tiny/0.48-avgxeiw diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-capture-tiny/0.48-avgxeiw b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-capture-tiny/0.48-avgxeiw new file mode 100644 index 00000000..14b3108a --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-capture-tiny/0.48-avgxeiw @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:52.693472 +## +## perl-capture-tiny@0.48%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/avgxeiw +## + + +module-whatis {Capture STDOUT and STDERR from Perl, XS or external programs} + +proc ModulesHelp { } { + puts stderr {Name : perl-capture-tiny} + puts stderr {Version: 0.48} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Capture STDOUT and STDERR from Perl, XS or external programs} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-capture-tiny + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-capture-tiny-0.48-avgxeiwh6xdliywhrlojfla6xk3c6cj2/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-capture-tiny-0.48-avgxeiwh6xdliywhrlojfla6xk3c6cj2/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-capture-tiny-0.48-avgxeiwh6xdliywhrlojfla6xk3c6cj2/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-capture-tiny-0.48-avgxeiwh6xdliywhrlojfla6xk3c6cj2/lib/perl5} +setenv PERL_CAPTURE_TINY_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-capture-tiny-0.48-avgxeiwh6xdliywhrlojfla6xk3c6cj2} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-class-data-inheritable/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-class-data-inheritable/.modulerc new file mode 100644 index 00000000..ecc1dba6 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-class-data-inheritable/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-class-data-inheritable/0.09-xwupgwa diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-class-data-inheritable/0.09-xwupgwa b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-class-data-inheritable/0.09-xwupgwa new file mode 100644 index 00000000..ab9a245a --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-class-data-inheritable/0.09-xwupgwa @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:52.704830 +## +## perl-class-data-inheritable@0.09%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/xwupgwa +## + + +module-whatis {For creating accessor/mutators to class data.} + +proc ModulesHelp { } { + puts stderr {Name : perl-class-data-inheritable} + puts stderr {Version: 0.09} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {For creating accessor/mutators to class data.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-class-data-inheritable + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-class-data-inheritable-0.09-xwupgwalimxluumweaftaajmuyo235dp/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-class-data-inheritable-0.09-xwupgwalimxluumweaftaajmuyo235dp/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-class-data-inheritable-0.09-xwupgwalimxluumweaftaajmuyo235dp/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-class-data-inheritable-0.09-xwupgwalimxluumweaftaajmuyo235dp/lib/perl5} +setenv PERL_CLASS_DATA_INHERITABLE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-class-data-inheritable-0.09-xwupgwalimxluumweaftaajmuyo235dp} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-class-inspector/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-class-inspector/.modulerc new file mode 100644 index 00000000..0d4236bf --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-class-inspector/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-class-inspector/1.36-odg2nxk diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-class-inspector/1.36-odg2nxk b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-class-inspector/1.36-odg2nxk new file mode 100644 index 00000000..41163f74 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-class-inspector/1.36-odg2nxk @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:52.716214 +## +## perl-class-inspector@1.36%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/odg2nxk +## + + +module-whatis {Get information about a class and its structure} + +proc ModulesHelp { } { + puts stderr {Name : perl-class-inspector} + puts stderr {Version: 1.36} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Get information about a class and its structure} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-class-inspector + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-class-inspector-1.36-odg2nxkmjoilpi7zpcdaorfv7gldcf6z/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-class-inspector-1.36-odg2nxkmjoilpi7zpcdaorfv7gldcf6z/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-class-inspector-1.36-odg2nxkmjoilpi7zpcdaorfv7gldcf6z/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-class-inspector-1.36-odg2nxkmjoilpi7zpcdaorfv7gldcf6z/lib/perl5} +setenv PERL_CLASS_INSPECTOR_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-class-inspector-1.36-odg2nxkmjoilpi7zpcdaorfv7gldcf6z} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-class-singleton/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-class-singleton/.modulerc new file mode 100644 index 00000000..acf3e507 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-class-singleton/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-class-singleton/1.6-iim55dr diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-class-singleton/1.6-iim55dr b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-class-singleton/1.6-iim55dr new file mode 100644 index 00000000..42cb58b7 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-class-singleton/1.6-iim55dr @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:52.727601 +## +## perl-class-singleton@1.6%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/iim55dr +## + + +module-whatis {Class::Singleton - Implementation of a 'Singleton' class} + +proc ModulesHelp { } { + puts stderr {Name : perl-class-singleton} + puts stderr {Version: 1.6} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Class::Singleton - Implementation of a "Singleton" class} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-class-singleton + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-class-singleton-1.6-iim55drdg7ezuyigpjeuev6leclp3fzx/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-class-singleton-1.6-iim55drdg7ezuyigpjeuev6leclp3fzx/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-class-singleton-1.6-iim55drdg7ezuyigpjeuev6leclp3fzx/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-class-singleton-1.6-iim55drdg7ezuyigpjeuev6leclp3fzx/lib/perl5} +setenv PERL_CLASS_SINGLETON_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-class-singleton-1.6-iim55drdg7ezuyigpjeuev6leclp3fzx} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-clone-choose/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-clone-choose/.modulerc new file mode 100644 index 00000000..639046b9 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-clone-choose/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-clone-choose/0.010-ystd2v7 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-clone-choose/0.010-ystd2v7 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-clone-choose/0.010-ystd2v7 new file mode 100644 index 00000000..bd173501 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-clone-choose/0.010-ystd2v7 @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:52.750123 +## +## perl-clone-choose@0.010%gcc@11.4.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/ystd2v7 +## + + +module-whatis {Checks several different modules which provides a clone() function and selects an appropriate one.} + +proc ModulesHelp { } { + puts stderr {Name : perl-clone-choose} + puts stderr {Version: 0.010} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Checks several different modules which provides a clone() function and} + puts stderr {selects an appropriate one.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.38.0-okr2qfj +} else { + depends-on perl/5.38.0-okr2qfj +} +conflict perl-clone-choose + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-clone-choose-0.010-ystd2v7zyte4k5cp4m3vmidwchbim7r3/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-clone-choose-0.010-ystd2v7zyte4k5cp4m3vmidwchbim7r3/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-clone-choose-0.010-ystd2v7zyte4k5cp4m3vmidwchbim7r3/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-clone-choose-0.010-ystd2v7zyte4k5cp4m3vmidwchbim7r3/lib/perl5} +setenv PERL_CLONE_CHOOSE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-clone-choose-0.010-ystd2v7zyte4k5cp4m3vmidwchbim7r3} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-clone/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-clone/.modulerc new file mode 100644 index 00000000..0983f3f5 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-clone/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-clone/0.46-3guhici diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-clone/0.46-3guhici b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-clone/0.46-3guhici new file mode 100644 index 00000000..6b472d23 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-clone/0.46-3guhici @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:52.738841 +## +## perl-clone@0.46%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/3guhici +## + + +module-whatis {Clone - recursively copy Perl datatypes} + +proc ModulesHelp { } { + puts stderr {Name : perl-clone} + puts stderr {Version: 0.46} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Clone - recursively copy Perl datatypes} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-clone + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-clone-0.46-3guhiciowaw622mwgyhirujzyzy3cjsy/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-clone-0.46-3guhiciowaw622mwgyhirujzyzy3cjsy/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-clone-0.46-3guhiciowaw622mwgyhirujzyzy3cjsy/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-clone-0.46-3guhiciowaw622mwgyhirujzyzy3cjsy/lib/perl5} +setenv PERL_CLONE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-clone-0.46-3guhiciowaw622mwgyhirujzyzy3cjsy} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-common-sense/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-common-sense/.modulerc new file mode 100644 index 00000000..99d84beb --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-common-sense/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-common-sense/3.75-cj4o65i diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-common-sense/3.75-cj4o65i b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-common-sense/3.75-cj4o65i new file mode 100644 index 00000000..89d50681 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-common-sense/3.75-cj4o65i @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:52.760276 +## +## perl-common-sense@3.75%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/cj4o65i +## + + +module-whatis {Save a tree AND a kitten, use common::sense!} + +proc ModulesHelp { } { + puts stderr {Name : perl-common-sense} + puts stderr {Version: 3.75} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Save a tree AND a kitten, use common::sense!} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-common-sense + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-common-sense-3.75-cj4o65isw4al3rmdxrcsyhhfbcdkfs52/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-common-sense-3.75-cj4o65isw4al3rmdxrcsyhhfbcdkfs52/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-common-sense-3.75-cj4o65isw4al3rmdxrcsyhhfbcdkfs52/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-common-sense-3.75-cj4o65isw4al3rmdxrcsyhhfbcdkfs52/lib/perl5} +setenv PERL_COMMON_SENSE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-common-sense-3.75-cj4o65isw4al3rmdxrcsyhhfbcdkfs52} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-config-general/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-config-general/.modulerc new file mode 100644 index 00000000..b112ca42 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-config-general/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-config-general/2.65-zdwg3mj diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-config-general/2.65-zdwg3mj b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-config-general/2.65-zdwg3mj new file mode 100644 index 00000000..c7530060 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-config-general/2.65-zdwg3mj @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:52.771518 +## +## perl-config-general@2.65%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/zdwg3mj +## + + +module-whatis {Config::General - Generic Config Module} + +proc ModulesHelp { } { + puts stderr {Name : perl-config-general} + puts stderr {Version: 2.65} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Config::General - Generic Config Module} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-config-general + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-config-general-2.65-zdwg3mjj44dxr6f2yuk6zqaffhoi66ij/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-config-general-2.65-zdwg3mjj44dxr6f2yuk6zqaffhoi66ij/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-config-general-2.65-zdwg3mjj44dxr6f2yuk6zqaffhoi66ij/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-config-general-2.65-zdwg3mjj44dxr6f2yuk6zqaffhoi66ij/lib/perl5} +setenv PERL_CONFIG_GENERAL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-config-general-2.65-zdwg3mjj44dxr6f2yuk6zqaffhoi66ij} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-data-stag/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-data-stag/.modulerc new file mode 100644 index 00000000..fcf23b25 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-data-stag/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-data-stag/0.14-hccnvay diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-data-stag/0.14-hccnvay b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-data-stag/0.14-hccnvay new file mode 100644 index 00000000..3db5e9e2 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-data-stag/0.14-hccnvay @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:52.782778 +## +## perl-data-stag@0.14%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/hccnvay +## + + +module-whatis {Structured Tags datastructures} + +proc ModulesHelp { } { + puts stderr {Name : perl-data-stag} + puts stderr {Version: 0.14} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Structured Tags datastructures} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load perl-io-string/1.08-uc43fnq +} else { + depends-on perl/5.40.0-lzbctij + depends-on perl-io-string/1.08-uc43fnq +} +conflict perl-data-stag + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-data-stag-0.14-hccnvayj6zofvimkr4ubsbyomrziuko3/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-data-stag-0.14-hccnvayj6zofvimkr4ubsbyomrziuko3/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-data-stag-0.14-hccnvayj6zofvimkr4ubsbyomrziuko3/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-data-stag-0.14-hccnvayj6zofvimkr4ubsbyomrziuko3/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-data-stag-0.14-hccnvayj6zofvimkr4ubsbyomrziuko3/lib/perl5} +setenv PERL_DATA_STAG_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-data-stag-0.14-hccnvayj6zofvimkr4ubsbyomrziuko3} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-datetime-locale/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-datetime-locale/.modulerc new file mode 100644 index 00000000..e5eafaf7 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-datetime-locale/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-datetime-locale/1.40-ckk7n3n diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-datetime-locale/1.40-ckk7n3n b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-datetime-locale/1.40-ckk7n3n new file mode 100644 index 00000000..d7e15788 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-datetime-locale/1.40-ckk7n3n @@ -0,0 +1,80 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:52.827889 +## +## perl-datetime-locale@1.40%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/ckk7n3n +## + + +module-whatis {DateTime::Locale - Localization support for DateTime.pm} + +proc ModulesHelp { } { + puts stderr {Name : perl-datetime-locale} + puts stderr {Version: 1.40} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {DateTime::Locale - Localization support for DateTime.pm} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load perl-dist-checkconflicts/0.11-zrvz2zx + module load perl-file-sharedir/1.118-byamuhe + module load perl-namespace-autoclean/0.29-r5h526f + module load perl-params-validationcompiler/0.31-66qysom + module load perl-specio/0.48-osggrtx +} else { + depends-on perl/5.40.0-lzbctij + depends-on perl-dist-checkconflicts/0.11-zrvz2zx + depends-on perl-file-sharedir/1.118-byamuhe + depends-on perl-namespace-autoclean/0.29-r5h526f + depends-on perl-params-validationcompiler/0.31-66qysom + depends-on perl-specio/0.48-osggrtx +} +conflict perl-datetime-locale + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-datetime-locale-1.40-ckk7n3npfemx3rshqn2r5xkmolqcv4wf/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-datetime-locale-1.40-ckk7n3npfemx3rshqn2r5xkmolqcv4wf/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-datetime-locale-1.40-ckk7n3npfemx3rshqn2r5xkmolqcv4wf/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-datetime-locale-1.40-ckk7n3npfemx3rshqn2r5xkmolqcv4wf/lib/perl5} +setenv PERL_DATETIME_LOCALE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-datetime-locale-1.40-ckk7n3npfemx3rshqn2r5xkmolqcv4wf} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-datetime-timezone/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-datetime-timezone/.modulerc new file mode 100644 index 00000000..68595c62 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-datetime-timezone/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-datetime-timezone/2.60-bvysweh diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-datetime-timezone/2.60-bvysweh b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-datetime-timezone/2.60-bvysweh new file mode 100644 index 00000000..69e9a2f8 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-datetime-timezone/2.60-bvysweh @@ -0,0 +1,82 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:52.855646 +## +## perl-datetime-timezone@2.60%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/bvysweh +## + + +module-whatis {DateTime::TimeZone - Time zone object base class and factory} + +proc ModulesHelp { } { + puts stderr {Name : perl-datetime-timezone} + puts stderr {Version: 2.60} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {DateTime::TimeZone - Time zone object base class and factory} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load perl-class-singleton/1.6-iim55dr + module load perl-module-runtime/0.016-icsesge + module load perl-namespace-autoclean/0.29-r5h526f + module load perl-params-validationcompiler/0.31-66qysom + module load perl-specio/0.48-osggrtx + module load perl-try-tiny/0.31-voibp7l +} else { + depends-on perl/5.40.0-lzbctij + depends-on perl-class-singleton/1.6-iim55dr + depends-on perl-module-runtime/0.016-icsesge + depends-on perl-namespace-autoclean/0.29-r5h526f + depends-on perl-params-validationcompiler/0.31-66qysom + depends-on perl-specio/0.48-osggrtx + depends-on perl-try-tiny/0.31-voibp7l +} +conflict perl-datetime-timezone + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-datetime-timezone-2.60-bvyswehejhzqty7bpirvfucc4ez3iygw/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-datetime-timezone-2.60-bvyswehejhzqty7bpirvfucc4ez3iygw/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-datetime-timezone-2.60-bvyswehejhzqty7bpirvfucc4ez3iygw/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-datetime-timezone-2.60-bvyswehejhzqty7bpirvfucc4ez3iygw/lib/perl5} +setenv PERL_DATETIME_TIMEZONE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-datetime-timezone-2.60-bvyswehejhzqty7bpirvfucc4ez3iygw} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-datetime/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-datetime/.modulerc new file mode 100644 index 00000000..a3112485 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-datetime/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-datetime/1.65-bef5fte diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-datetime/1.65-bef5fte b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-datetime/1.65-bef5fte new file mode 100644 index 00000000..dd88e569 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-datetime/1.65-bef5fte @@ -0,0 +1,84 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:52.795841 +## +## perl-datetime@1.65%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/bef5fte +## + + +module-whatis {DateTime - A date and time object for Perl} + +proc ModulesHelp { } { + puts stderr {Name : perl-datetime} + puts stderr {Version: 1.65} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {DateTime - A date and time object for Perl} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load perl-datetime-locale/1.40-ckk7n3n + module load perl-datetime-timezone/2.60-bvysweh + module load perl-dist-checkconflicts/0.11-zrvz2zx + module load perl-namespace-autoclean/0.29-r5h526f + module load perl-params-validationcompiler/0.31-66qysom + module load perl-specio/0.48-osggrtx + module load perl-try-tiny/0.31-voibp7l +} else { + depends-on perl/5.40.0-lzbctij + depends-on perl-datetime-locale/1.40-ckk7n3n + depends-on perl-datetime-timezone/2.60-bvysweh + depends-on perl-dist-checkconflicts/0.11-zrvz2zx + depends-on perl-namespace-autoclean/0.29-r5h526f + depends-on perl-params-validationcompiler/0.31-66qysom + depends-on perl-specio/0.48-osggrtx + depends-on perl-try-tiny/0.31-voibp7l +} +conflict perl-datetime + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-datetime-1.65-bef5ftetlpbqd2v4lbc3xin3t45k35mv/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-datetime-1.65-bef5ftetlpbqd2v4lbc3xin3t45k35mv/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-datetime-1.65-bef5ftetlpbqd2v4lbc3xin3t45k35mv/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-datetime-1.65-bef5ftetlpbqd2v4lbc3xin3t45k35mv/lib/perl5} +setenv PERL_DATETIME_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-datetime-1.65-bef5ftetlpbqd2v4lbc3xin3t45k35mv} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-devel-cover/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-devel-cover/.modulerc new file mode 100644 index 00000000..d2027839 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-devel-cover/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-devel-cover/1.42-ln22bue diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-devel-cover/1.42-ln22bue b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-devel-cover/1.42-ln22bue new file mode 100644 index 00000000..d2dad4ce --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-devel-cover/1.42-ln22bue @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:52.884129 +## +## perl-devel-cover@1.42%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/ln22bue +## + + +module-whatis {Devel::Cover - Perl extension for code coverage metrics} + +proc ModulesHelp { } { + puts stderr {Name : perl-devel-cover} + puts stderr {Version: 1.42} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Devel::Cover - Perl extension for code coverage metrics} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-devel-cover + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-devel-cover-1.42-ln22buermrrxc2uecri7sh6w6wqciysl/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-devel-cover-1.42-ln22buermrrxc2uecri7sh6w6wqciysl/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-devel-cover-1.42-ln22buermrrxc2uecri7sh6w6wqciysl/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-devel-cover-1.42-ln22buermrrxc2uecri7sh6w6wqciysl/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-devel-cover-1.42-ln22buermrrxc2uecri7sh6w6wqciysl/lib/perl5} +setenv PERL_DEVEL_COVER_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-devel-cover-1.42-ln22buermrrxc2uecri7sh6w6wqciysl} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-devel-cycle/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-devel-cycle/.modulerc new file mode 100644 index 00000000..e578aaa7 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-devel-cycle/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-devel-cycle/1.12-vmrt3yy diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-devel-cycle/1.12-vmrt3yy b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-devel-cycle/1.12-vmrt3yy new file mode 100644 index 00000000..88da71c9 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-devel-cycle/1.12-vmrt3yy @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:52.895339 +## +## perl-devel-cycle@1.12%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/vmrt3yy +## + + +module-whatis {Find memory cycles in objects} + +proc ModulesHelp { } { + puts stderr {Name : perl-devel-cycle} + puts stderr {Version: 1.12} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Find memory cycles in objects} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-devel-cycle + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-devel-cycle-1.12-vmrt3yylnkqtmfybytbeg3hb24bnplj2/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-devel-cycle-1.12-vmrt3yylnkqtmfybytbeg3hb24bnplj2/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-devel-cycle-1.12-vmrt3yylnkqtmfybytbeg3hb24bnplj2/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-devel-cycle-1.12-vmrt3yylnkqtmfybytbeg3hb24bnplj2/lib/perl5} +setenv PERL_DEVEL_CYCLE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-devel-cycle-1.12-vmrt3yylnkqtmfybytbeg3hb24bnplj2} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-devel-size/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-devel-size/.modulerc new file mode 100644 index 00000000..44389bb8 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-devel-size/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-devel-size/0.83-a7ntcnk diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-devel-size/0.83-a7ntcnk b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-devel-size/0.83-a7ntcnk new file mode 100644 index 00000000..1733bd79 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-devel-size/0.83-a7ntcnk @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:52.907126 +## +## perl-devel-size@0.83%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/a7ntcnk +## + + +module-whatis {Devel::Size - Perl extension for finding the memory usage of Perl variables} + +proc ModulesHelp { } { + puts stderr {Name : perl-devel-size} + puts stderr {Version: 0.83} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Devel::Size - Perl extension for finding the memory usage of Perl} + puts stderr {variables} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-devel-size + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-devel-size-0.83-a7ntcnks6byfkz2r26rncak4iz2cwj43/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-devel-size-0.83-a7ntcnks6byfkz2r26rncak4iz2cwj43/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-devel-size-0.83-a7ntcnks6byfkz2r26rncak4iz2cwj43/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-devel-size-0.83-a7ntcnks6byfkz2r26rncak4iz2cwj43/lib/perl5} +setenv PERL_DEVEL_SIZE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-devel-size-0.83-a7ntcnks6byfkz2r26rncak4iz2cwj43} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-devel-stacktrace/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-devel-stacktrace/.modulerc new file mode 100644 index 00000000..df7fbca5 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-devel-stacktrace/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-devel-stacktrace/2.05-ttfoh5u diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-devel-stacktrace/2.05-ttfoh5u b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-devel-stacktrace/2.05-ttfoh5u new file mode 100644 index 00000000..7b27394d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-devel-stacktrace/2.05-ttfoh5u @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:52.931675 +## +## perl-devel-stacktrace@2.05%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/ttfoh5u +## + + +module-whatis {An object representing a stack trace.} + +proc ModulesHelp { } { + puts stderr {Name : perl-devel-stacktrace} + puts stderr {Version: 2.05} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {An object representing a stack trace.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-devel-stacktrace + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-devel-stacktrace-2.05-ttfoh5uqvqzzddy7qo5vykh3mspagoos/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-devel-stacktrace-2.05-ttfoh5uqvqzzddy7qo5vykh3mspagoos/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-devel-stacktrace-2.05-ttfoh5uqvqzzddy7qo5vykh3mspagoos/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-devel-stacktrace-2.05-ttfoh5uqvqzzddy7qo5vykh3mspagoos/lib/perl5} +setenv PERL_DEVEL_STACKTRACE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-devel-stacktrace-2.05-ttfoh5uqvqzzddy7qo5vykh3mspagoos} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-digest-md5/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-digest-md5/.modulerc new file mode 100644 index 00000000..872b55a6 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-digest-md5/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-digest-md5/2.55-g35blic diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-digest-md5/2.55-g35blic b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-digest-md5/2.55-g35blic new file mode 100644 index 00000000..837a8120 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-digest-md5/2.55-g35blic @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:52.942960 +## +## perl-digest-md5@2.55%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/g35blic +## + + +module-whatis {Perl interface to the MD5 Algorithm} + +proc ModulesHelp { } { + puts stderr {Name : perl-digest-md5} + puts stderr {Version: 2.55} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Perl interface to the MD5 Algorithm} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-digest-md5 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-digest-md5-2.55-g35blicz57u52lmmidkqou7azqouvv7k/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-digest-md5-2.55-g35blicz57u52lmmidkqou7azqouvv7k/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-digest-md5-2.55-g35blicz57u52lmmidkqou7azqouvv7k/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-digest-md5-2.55-g35blicz57u52lmmidkqou7azqouvv7k/lib/perl5} +setenv PERL_DIGEST_MD5_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-digest-md5-2.55-g35blicz57u52lmmidkqou7azqouvv7k} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-dist-checkconflicts/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-dist-checkconflicts/.modulerc new file mode 100644 index 00000000..d1ad019a --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-dist-checkconflicts/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-dist-checkconflicts/0.11-zrvz2zx diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-dist-checkconflicts/0.11-zrvz2zx b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-dist-checkconflicts/0.11-zrvz2zx new file mode 100644 index 00000000..7190154a --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-dist-checkconflicts/0.11-zrvz2zx @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:52.954243 +## +## perl-dist-checkconflicts@0.11%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/zrvz2zx +## + + +module-whatis {Declare version conflicts for your dist} + +proc ModulesHelp { } { + puts stderr {Name : perl-dist-checkconflicts} + puts stderr {Version: 0.11} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Declare version conflicts for your dist} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-dist-checkconflicts + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-dist-checkconflicts-0.11-zrvz2zx4wmsgc2i63vjehhyi7y35n2ld/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-dist-checkconflicts-0.11-zrvz2zx4wmsgc2i63vjehhyi7y35n2ld/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-dist-checkconflicts-0.11-zrvz2zx4wmsgc2i63vjehhyi7y35n2ld/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-dist-checkconflicts-0.11-zrvz2zx4wmsgc2i63vjehhyi7y35n2ld/lib/perl5} +setenv PERL_DIST_CHECKCONFLICTS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-dist-checkconflicts-0.11-zrvz2zx4wmsgc2i63vjehhyi7y35n2ld} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-encode-locale/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-encode-locale/.modulerc new file mode 100644 index 00000000..41e88e98 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-encode-locale/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-encode-locale/1.05-usk65hu diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-encode-locale/1.05-usk65hu b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-encode-locale/1.05-usk65hu new file mode 100644 index 00000000..6a0d4766 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-encode-locale/1.05-usk65hu @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:52.965560 +## +## perl-encode-locale@1.05%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/usk65hu +## + + +module-whatis {Determine the locale encoding} + +proc ModulesHelp { } { + puts stderr {Name : perl-encode-locale} + puts stderr {Version: 1.05} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Determine the locale encoding} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-encode-locale + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-encode-locale-1.05-usk65hun5ke6f2m7wr5vvgzaslnudvyn/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-encode-locale-1.05-usk65hun5ke6f2m7wr5vvgzaslnudvyn/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-encode-locale-1.05-usk65hun5ke6f2m7wr5vvgzaslnudvyn/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-encode-locale-1.05-usk65hun5ke6f2m7wr5vvgzaslnudvyn/lib/perl5} +setenv PERL_ENCODE_LOCALE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-encode-locale-1.05-usk65hun5ke6f2m7wr5vvgzaslnudvyn} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-error/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-error/.modulerc new file mode 100644 index 00000000..49a514c0 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-error/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-error/0.17029-7yzrldw diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-error/0.17029-7yzrldw b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-error/0.17029-7yzrldw new file mode 100644 index 00000000..a9ff6591 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-error/0.17029-7yzrldw @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:52.976865 +## +## perl-error@0.17029%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/7yzrldw +## + + +module-whatis {The Error package provides two interfaces. Firstly Error provides a procedural interface to exception handling. Secondly Error is a base class for errors/exceptions that can either be thrown, for subsequent catch, or can simply be recorded.} + +proc ModulesHelp { } { + puts stderr {Name : perl-error} + puts stderr {Version: 0.17029} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The Error package provides two interfaces. Firstly Error provides a} + puts stderr {procedural interface to exception handling. Secondly Error is a base} + puts stderr {class for errors/exceptions that can either be thrown, for subsequent} + puts stderr {catch, or can simply be recorded.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-error + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-error-0.17029-7yzrldw7t2yaojv2g6umbsa7yisup6sv/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-error-0.17029-7yzrldw7t2yaojv2g6umbsa7yisup6sv/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-error-0.17029-7yzrldw7t2yaojv2g6umbsa7yisup6sv/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-error-0.17029-7yzrldw7t2yaojv2g6umbsa7yisup6sv/lib/perl5} +setenv PERL_ERROR_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-error-0.17029-7yzrldw7t2yaojv2g6umbsa7yisup6sv} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-eval-closure/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-eval-closure/.modulerc new file mode 100644 index 00000000..ea690685 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-eval-closure/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-eval-closure/0.14-o2yh2ho diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-eval-closure/0.14-o2yh2ho b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-eval-closure/0.14-o2yh2ho new file mode 100644 index 00000000..91888e1f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-eval-closure/0.14-o2yh2ho @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:52.988373 +## +## perl-eval-closure@0.14%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/o2yh2ho +## + + +module-whatis {Safely and cleanly create closures via string eval} + +proc ModulesHelp { } { + puts stderr {Name : perl-eval-closure} + puts stderr {Version: 0.14} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Safely and cleanly create closures via string eval} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-eval-closure + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-eval-closure-0.14-o2yh2hoakyaq5othekj3qsrlbw4f5sat/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-eval-closure-0.14-o2yh2hoakyaq5othekj3qsrlbw4f5sat/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-eval-closure-0.14-o2yh2hoakyaq5othekj3qsrlbw4f5sat/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-eval-closure-0.14-o2yh2hoakyaq5othekj3qsrlbw4f5sat/lib/perl5} +setenv PERL_EVAL_CLOSURE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-eval-closure-0.14-o2yh2hoakyaq5othekj3qsrlbw4f5sat} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-exception-class/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-exception-class/.modulerc new file mode 100644 index 00000000..8259bfa9 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-exception-class/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-exception-class/1.45-ashse2v diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-exception-class/1.45-ashse2v b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-exception-class/1.45-ashse2v new file mode 100644 index 00000000..7ccfb436 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-exception-class/1.45-ashse2v @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:52.999686 +## +## perl-exception-class@1.45%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/ashse2v +## + + +module-whatis {A module that allows you to declare real exception classes in Perl} + +proc ModulesHelp { } { + puts stderr {Name : perl-exception-class} + puts stderr {Version: 1.45} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A module that allows you to declare real exception classes in Perl} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load perl-class-data-inheritable/0.09-xwupgwa + module load perl-devel-stacktrace/2.05-ttfoh5u +} else { + depends-on perl/5.40.0-lzbctij + depends-on perl-class-data-inheritable/0.09-xwupgwa + depends-on perl-devel-stacktrace/2.05-ttfoh5u +} +conflict perl-exception-class + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-exception-class-1.45-ashse2vthhqg3daszpelsjiirnjnylzc/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-exception-class-1.45-ashse2vthhqg3daszpelsjiirnjnylzc/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-exception-class-1.45-ashse2vthhqg3daszpelsjiirnjnylzc/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-exception-class-1.45-ashse2vthhqg3daszpelsjiirnjnylzc/lib/perl5} +setenv PERL_EXCEPTION_CLASS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-exception-class-1.45-ashse2vthhqg3daszpelsjiirnjnylzc} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-exporter-tiny/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-exporter-tiny/.modulerc new file mode 100644 index 00000000..3f836b76 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-exporter-tiny/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-exporter-tiny/1.006002-37txk54 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-exporter-tiny/1.006002-37txk54 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-exporter-tiny/1.006002-37txk54 new file mode 100644 index 00000000..e0dcd608 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-exporter-tiny/1.006002-37txk54 @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.014054 +## +## perl-exporter-tiny@1.006002%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/37txk54 +## + + +module-whatis {An exporter with the features of Sub::Exporter but only core dependencies} + +proc ModulesHelp { } { + puts stderr {Name : perl-exporter-tiny} + puts stderr {Version: 1.006002} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {An exporter with the features of Sub::Exporter but only core} + puts stderr {dependencies} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-exporter-tiny + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-exporter-tiny-1.006002-37txk54gopfc6mbvicr6t636curxbaqb/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-exporter-tiny-1.006002-37txk54gopfc6mbvicr6t636curxbaqb/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-exporter-tiny-1.006002-37txk54gopfc6mbvicr6t636curxbaqb/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-exporter-tiny-1.006002-37txk54gopfc6mbvicr6t636curxbaqb/lib/perl5} +setenv PERL_EXPORTER_TINY_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-exporter-tiny-1.006002-37txk54gopfc6mbvicr6t636curxbaqb} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-extutils-makemaker/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-extutils-makemaker/.modulerc new file mode 100644 index 00000000..0d3a22f5 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-extutils-makemaker/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-extutils-makemaker/7.70-46ob73g diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-extutils-makemaker/7.70-46ob73g b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-extutils-makemaker/7.70-46ob73g new file mode 100644 index 00000000..e43498d2 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-extutils-makemaker/7.70-46ob73g @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.025323 +## +## perl-extutils-makemaker@7.70%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/46ob73g +## + + +module-whatis {ExtUtils::MakeMaker - Create a module Makefile. This utility is designed to write a Makefile for an extension module from a Makefile.PL. It is based on the Makefile.SH model provided by Andy Dougherty and the perl5-porters. } + +proc ModulesHelp { } { + puts stderr {Name : perl-extutils-makemaker} + puts stderr {Version: 7.70} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {ExtUtils::MakeMaker - Create a module Makefile. This utility is designed} + puts stderr {to write a Makefile for an extension module from a Makefile.PL. It is} + puts stderr {based on the Makefile.SH model provided by Andy Dougherty and the} + puts stderr {perl5-porters.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-extutils-makemaker + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-extutils-makemaker-7.70-46ob73gr7wgzs2zyqh4x2xngrczimzv7/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-extutils-makemaker-7.70-46ob73gr7wgzs2zyqh4x2xngrczimzv7/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-extutils-makemaker-7.70-46ob73gr7wgzs2zyqh4x2xngrczimzv7/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-extutils-makemaker-7.70-46ob73gr7wgzs2zyqh4x2xngrczimzv7/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-extutils-makemaker-7.70-46ob73gr7wgzs2zyqh4x2xngrczimzv7/lib/perl5} +setenv PERL_EXTUTILS_MAKEMAKER_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-extutils-makemaker-7.70-46ob73gr7wgzs2zyqh4x2xngrczimzv7} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-extutils-pkgconfig/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-extutils-pkgconfig/.modulerc new file mode 100644 index 00000000..4106f4a7 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-extutils-pkgconfig/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-extutils-pkgconfig/1.16-e776bpz diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-extutils-pkgconfig/1.16-e776bpz b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-extutils-pkgconfig/1.16-e776bpz new file mode 100644 index 00000000..ed90c403 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-extutils-pkgconfig/1.16-e776bpz @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.036677 +## +## perl-extutils-pkgconfig@1.16%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/e776bpz +## + + +module-whatis {simplistic interface to pkg-config} + +proc ModulesHelp { } { + puts stderr {Name : perl-extutils-pkgconfig} + puts stderr {Version: 1.16} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {simplistic interface to pkg-config} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load pkgconf/2.2.0-rtve2ea +} else { + depends-on perl/5.40.0-lzbctij + depends-on pkgconf/2.2.0-rtve2ea +} +conflict perl-extutils-pkgconfig + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-extutils-pkgconfig-1.16-e776bpzzb65su4ey4zkhcml5s6xr5u3m/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-extutils-pkgconfig-1.16-e776bpzzb65su4ey4zkhcml5s6xr5u3m/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-extutils-pkgconfig-1.16-e776bpzzb65su4ey4zkhcml5s6xr5u3m/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-extutils-pkgconfig-1.16-e776bpzzb65su4ey4zkhcml5s6xr5u3m/lib/perl5} +setenv PERL_EXTUTILS_PKGCONFIG_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-extutils-pkgconfig-1.16-e776bpzzb65su4ey4zkhcml5s6xr5u3m} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-file-listing/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-file-listing/.modulerc new file mode 100644 index 00000000..21e8e097 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-file-listing/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-file-listing/6.16-uetnohv diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-file-listing/6.16-uetnohv b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-file-listing/6.16-uetnohv new file mode 100644 index 00000000..273eaa92 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-file-listing/6.16-uetnohv @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.049806 +## +## perl-file-listing@6.16%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/uetnohv +## + + +module-whatis {Parse directory listing} + +proc ModulesHelp { } { + puts stderr {Name : perl-file-listing} + puts stderr {Version: 6.16} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Parse directory listing} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load perl-http-date/6.06-inh4jwd +} else { + depends-on perl/5.40.0-lzbctij + depends-on perl-http-date/6.06-inh4jwd +} +conflict perl-file-listing + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-file-listing-6.16-uetnohvvbuqrgtmdyqbqvtsbeh2u55mn/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-file-listing-6.16-uetnohvvbuqrgtmdyqbqvtsbeh2u55mn/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-file-listing-6.16-uetnohvvbuqrgtmdyqbqvtsbeh2u55mn/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-file-listing-6.16-uetnohvvbuqrgtmdyqbqvtsbeh2u55mn/lib/perl5} +setenv PERL_FILE_LISTING_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-file-listing-6.16-uetnohvvbuqrgtmdyqbqvtsbeh2u55mn} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-file-sharedir-install/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-file-sharedir-install/.modulerc new file mode 100644 index 00000000..febfb577 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-file-sharedir-install/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-file-sharedir-install/0.14-eycd56l diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-file-sharedir-install/0.14-eycd56l b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-file-sharedir-install/0.14-eycd56l new file mode 100644 index 00000000..e1becdbb --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-file-sharedir-install/0.14-eycd56l @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.075859 +## +## perl-file-sharedir-install@0.14%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/eycd56l +## + + +module-whatis {Install shared files} + +proc ModulesHelp { } { + puts stderr {Name : perl-file-sharedir-install} + puts stderr {Version: 0.14} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Install shared files} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-file-sharedir-install + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-file-sharedir-install-0.14-eycd56lb5hdppr6ccvndl4ua4uyt3go6/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-file-sharedir-install-0.14-eycd56lb5hdppr6ccvndl4ua4uyt3go6/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-file-sharedir-install-0.14-eycd56lb5hdppr6ccvndl4ua4uyt3go6/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-file-sharedir-install-0.14-eycd56lb5hdppr6ccvndl4ua4uyt3go6/lib/perl5} +setenv PERL_FILE_SHAREDIR_INSTALL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-file-sharedir-install-0.14-eycd56lb5hdppr6ccvndl4ua4uyt3go6} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-file-sharedir/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-file-sharedir/.modulerc new file mode 100644 index 00000000..bb389d91 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-file-sharedir/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-file-sharedir/1.118-byamuhe diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-file-sharedir/1.118-byamuhe b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-file-sharedir/1.118-byamuhe new file mode 100644 index 00000000..6e05cc61 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-file-sharedir/1.118-byamuhe @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.062637 +## +## perl-file-sharedir@1.118%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/byamuhe +## + + +module-whatis {File::ShareDir - Locate per-dist and per-module shared files} + +proc ModulesHelp { } { + puts stderr {Name : perl-file-sharedir} + puts stderr {Version: 1.118} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {File::ShareDir - Locate per-dist and per-module shared files} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load perl-class-inspector/1.36-odg2nxk +} else { + depends-on perl/5.40.0-lzbctij + depends-on perl-class-inspector/1.36-odg2nxk +} +conflict perl-file-sharedir + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-file-sharedir-1.118-byamuhebblxmlfb2z7xz2ecinrgienjo/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-file-sharedir-1.118-byamuhebblxmlfb2z7xz2ecinrgienjo/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-file-sharedir-1.118-byamuhebblxmlfb2z7xz2ecinrgienjo/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-file-sharedir-1.118-byamuhebblxmlfb2z7xz2ecinrgienjo/lib/perl5} +setenv PERL_FILE_SHAREDIR_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-file-sharedir-1.118-byamuhebblxmlfb2z7xz2ecinrgienjo} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-file-spec/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-file-spec/.modulerc new file mode 100644 index 00000000..076f955d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-file-spec/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-file-spec/0.90-3rojs7j diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-file-spec/0.90-3rojs7j b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-file-spec/0.90-3rojs7j new file mode 100644 index 00000000..a3185366 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-file-spec/0.90-3rojs7j @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.087140 +## +## perl-file-spec@0.90%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/3rojs7j +## + + +module-whatis {File::Spec - Perl extension for portably performing operations on file names} + +proc ModulesHelp { } { + puts stderr {Name : perl-file-spec} + puts stderr {Version: 0.90} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {File::Spec - Perl extension for portably performing operations on file} + puts stderr {names} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-file-spec + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-file-spec-0.90-3rojs7jlzosj2faou2v3lc2giezhxo3v/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-file-spec-0.90-3rojs7jlzosj2faou2v3lc2giezhxo3v/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-file-spec-0.90-3rojs7jlzosj2faou2v3lc2giezhxo3v/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-file-spec-0.90-3rojs7jlzosj2faou2v3lc2giezhxo3v/lib/perl5} +setenv PERL_FILE_SPEC_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-file-spec-0.90-3rojs7jlzosj2faou2v3lc2giezhxo3v} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-file-which/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-file-which/.modulerc new file mode 100644 index 00000000..ed3d882b --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-file-which/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-file-which/1.27-hrc2jwq diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-file-which/1.27-hrc2jwq b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-file-which/1.27-hrc2jwq new file mode 100644 index 00000000..86073524 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-file-which/1.27-hrc2jwq @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.099107 +## +## perl-file-which@1.27%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/hrc2jwq +## + + +module-whatis {Perl implementation of the which utility as an API} + +proc ModulesHelp { } { + puts stderr {Name : perl-file-which} + puts stderr {Version: 1.27} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Perl implementation of the which utility as an API} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-file-which + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-file-which-1.27-hrc2jwqnxwv2zupgqsxp2zvqmjcny3sn/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-file-which-1.27-hrc2jwqnxwv2zupgqsxp2zvqmjcny3sn/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-file-which-1.27-hrc2jwqnxwv2zupgqsxp2zvqmjcny3sn/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-file-which-1.27-hrc2jwqnxwv2zupgqsxp2zvqmjcny3sn/lib/perl5} +setenv PERL_FILE_WHICH_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-file-which-1.27-hrc2jwqnxwv2zupgqsxp2zvqmjcny3sn} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-font-ttf/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-font-ttf/.modulerc new file mode 100644 index 00000000..1b6e6261 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-font-ttf/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-font-ttf/1.06-524am4m diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-font-ttf/1.06-524am4m b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-font-ttf/1.06-524am4m new file mode 100644 index 00000000..42c5422c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-font-ttf/1.06-524am4m @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.123678 +## +## perl-font-ttf@1.06%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/524am4m +## + + +module-whatis {Perl module for TrueType Font hacking} + +proc ModulesHelp { } { + puts stderr {Name : perl-font-ttf} + puts stderr {Version: 1.06} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Perl module for TrueType Font hacking} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-font-ttf + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-font-ttf-1.06-524am4mhajqrrewdoveuic27bxaz4hs3/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-font-ttf-1.06-524am4mhajqrrewdoveuic27bxaz4hs3/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-font-ttf-1.06-524am4mhajqrrewdoveuic27bxaz4hs3/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-font-ttf-1.06-524am4mhajqrrewdoveuic27bxaz4hs3/lib/perl5} +setenv PERL_FONT_TTF_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-font-ttf-1.06-524am4mhajqrrewdoveuic27bxaz4hs3} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-gd/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-gd/.modulerc new file mode 100644 index 00000000..c30e4241 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-gd/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-gd/2.81-smc3lei diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-gd/2.81-smc3lei b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-gd/2.81-smc3lei new file mode 100644 index 00000000..c7888f7c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-gd/2.81-smc3lei @@ -0,0 +1,75 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.134976 +## +## perl-gd@2.81%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/smc3lei +## + + +module-whatis {Interface to Gd Graphics Library} + +proc ModulesHelp { } { + puts stderr {Name : perl-gd} + puts stderr {Version: 2.81} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Interface to Gd Graphics Library} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load perl-extutils-makemaker/7.70-46ob73g + module load perl-extutils-pkgconfig/1.16-e776bpz +} else { + depends-on perl/5.40.0-lzbctij + depends-on perl-extutils-makemaker/7.70-46ob73g + depends-on perl-extutils-pkgconfig/1.16-e776bpz +} +conflict perl-gd + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-gd-2.81-smc3leiaycgjl4g6uxvbkt6yonmbbuy4/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-gd-2.81-smc3leiaycgjl4g6uxvbkt6yonmbbuy4/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-gd-2.81-smc3leiaycgjl4g6uxvbkt6yonmbbuy4/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-gd-2.81-smc3leiaycgjl4g6uxvbkt6yonmbbuy4/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-gd-2.81-smc3leiaycgjl4g6uxvbkt6yonmbbuy4/lib/perl5} +setenv PERL_GD_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-gd-2.81-smc3leiaycgjl4g6uxvbkt6yonmbbuy4} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-gdgraph/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-gdgraph/.modulerc new file mode 100644 index 00000000..f47b972f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-gdgraph/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-gdgraph/1.4308-oubxxrv diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-gdgraph/1.4308-oubxxrv b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-gdgraph/1.4308-oubxxrv new file mode 100644 index 00000000..128f37d7 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-gdgraph/1.4308-oubxxrv @@ -0,0 +1,78 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.156749 +## +## perl-gdgraph@1.4308%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/oubxxrv +## + + +module-whatis {Graph Plotting Module for Perl 5} + +proc ModulesHelp { } { + puts stderr {Name : perl-gdgraph} + puts stderr {Version: 1.4308} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Graph Plotting Module for Perl 5} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load perl-capture-tiny/0.48-avgxeiw + module load perl-gd/2.81-smc3lei + module load perl-gdtextutil/0.86-cwcvsmd + module load perl-test-exception/0.43-pyd5kaw +} else { + depends-on perl/5.40.0-lzbctij + depends-on perl-capture-tiny/0.48-avgxeiw + depends-on perl-gd/2.81-smc3lei + depends-on perl-gdtextutil/0.86-cwcvsmd + depends-on perl-test-exception/0.43-pyd5kaw +} +conflict perl-gdgraph + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-gdgraph-1.4308-oubxxrv2hlj23tfyzrydqfak77q7haou/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-gdgraph-1.4308-oubxxrv2hlj23tfyzrydqfak77q7haou/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-gdgraph-1.4308-oubxxrv2hlj23tfyzrydqfak77q7haou/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-gdgraph-1.4308-oubxxrv2hlj23tfyzrydqfak77q7haou/lib/perl5} +setenv PERL_GDGRAPH_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-gdgraph-1.4308-oubxxrv2hlj23tfyzrydqfak77q7haou} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-gdtextutil/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-gdtextutil/.modulerc new file mode 100644 index 00000000..10992ca7 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-gdtextutil/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-gdtextutil/0.86-cwcvsmd diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-gdtextutil/0.86-cwcvsmd b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-gdtextutil/0.86-cwcvsmd new file mode 100644 index 00000000..9e16eaa0 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-gdtextutil/0.86-cwcvsmd @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.183204 +## +## perl-gdtextutil@0.86%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/cwcvsmd +## + + +module-whatis {Text utilities for use with GD} + +proc ModulesHelp { } { + puts stderr {Name : perl-gdtextutil} + puts stderr {Version: 0.86} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Text utilities for use with GD} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load perl-gd/2.81-smc3lei +} else { + depends-on perl/5.40.0-lzbctij + depends-on perl-gd/2.81-smc3lei +} +conflict perl-gdtextutil + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-gdtextutil-0.86-cwcvsmdntf6bxq37flekglfjwioifd6g/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-gdtextutil-0.86-cwcvsmdntf6bxq37flekglfjwioifd6g/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-gdtextutil-0.86-cwcvsmdntf6bxq37flekglfjwioifd6g/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-gdtextutil-0.86-cwcvsmdntf6bxq37flekglfjwioifd6g/lib/perl5} +setenv PERL_GDTEXTUTIL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-gdtextutil-0.86-cwcvsmdntf6bxq37flekglfjwioifd6g} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-graph/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-graph/.modulerc new file mode 100644 index 00000000..d49af0a9 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-graph/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-graph/0.9704-s2vz6de diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-graph/0.9704-s2vz6de b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-graph/0.9704-s2vz6de new file mode 100644 index 00000000..e9e4e4c3 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-graph/0.9704-s2vz6de @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.203979 +## +## perl-graph@0.9704%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/s2vz6de +## + + +module-whatis {Graph data structures and algorithms} + +proc ModulesHelp { } { + puts stderr {Name : perl-graph} + puts stderr {Version: 0.9704} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Graph data structures and algorithms} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-graph + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-graph-0.9704-s2vz6deztd757xtfxopy5ns2gm3vosjl/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-graph-0.9704-s2vz6deztd757xtfxopy5ns2gm3vosjl/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-graph-0.9704-s2vz6deztd757xtfxopy5ns2gm3vosjl/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-graph-0.9704-s2vz6deztd757xtfxopy5ns2gm3vosjl/lib/perl5} +setenv PERL_GRAPH_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-graph-0.9704-s2vz6deztd757xtfxopy5ns2gm3vosjl} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-hash-merge/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-hash-merge/.modulerc new file mode 100644 index 00000000..794343f4 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-hash-merge/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-hash-merge/0.300-qscuwm2 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-hash-merge/0.300-qscuwm2 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-hash-merge/0.300-qscuwm2 new file mode 100644 index 00000000..44783598 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-hash-merge/0.300-qscuwm2 @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.215227 +## +## perl-hash-merge@0.300%gcc@11.4.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/qscuwm2 +## + + +module-whatis {Hash::Merge merges two arbitrarily deep hashes into a single hash.} + +proc ModulesHelp { } { + puts stderr {Name : perl-hash-merge} + puts stderr {Version: 0.300} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Hash::Merge merges two arbitrarily deep hashes into a single hash.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.38.0-okr2qfj + module load perl-clone-choose/0.010-ystd2v7 + module load perl-scalar-list-utils/1.63-x4g4otq +} else { + depends-on perl/5.38.0-okr2qfj + depends-on perl-clone-choose/0.010-ystd2v7 + depends-on perl-scalar-list-utils/1.63-x4g4otq +} +conflict perl-hash-merge + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-hash-merge-0.300-qscuwm2tr5dn6k5yvpgruc4cztyjcw4t/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-hash-merge-0.300-qscuwm2tr5dn6k5yvpgruc4cztyjcw4t/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-hash-merge-0.300-qscuwm2tr5dn6k5yvpgruc4cztyjcw4t/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-hash-merge-0.300-qscuwm2tr5dn6k5yvpgruc4cztyjcw4t/lib/perl5} +setenv PERL_HASH_MERGE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-hash-merge-0.300-qscuwm2tr5dn6k5yvpgruc4cztyjcw4t} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-html-parser/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-html-parser/.modulerc new file mode 100644 index 00000000..36d1f47b --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-html-parser/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-html-parser/3.72-jnn6b3n diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-html-parser/3.72-jnn6b3n b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-html-parser/3.72-jnn6b3n new file mode 100644 index 00000000..5bb2f842 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-html-parser/3.72-jnn6b3n @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.228569 +## +## perl-html-parser@3.72%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/jnn6b3n +## + + +module-whatis {HTML parser class} + +proc ModulesHelp { } { + puts stderr {Name : perl-html-parser} + puts stderr {Version: 3.72} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {HTML parser class} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load perl-html-tagset/3.24-32prdm3 +} else { + depends-on perl/5.40.0-lzbctij + depends-on perl-html-tagset/3.24-32prdm3 +} +conflict perl-html-parser + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-html-parser-3.72-jnn6b3nuyfvpm5swxogpggttxtnkizip/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-html-parser-3.72-jnn6b3nuyfvpm5swxogpggttxtnkizip/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-html-parser-3.72-jnn6b3nuyfvpm5swxogpggttxtnkizip/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-html-parser-3.72-jnn6b3nuyfvpm5swxogpggttxtnkizip/lib/perl5} +setenv PERL_HTML_PARSER_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-html-parser-3.72-jnn6b3nuyfvpm5swxogpggttxtnkizip} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-html-tagset/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-html-tagset/.modulerc new file mode 100644 index 00000000..dd6c7058 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-html-tagset/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-html-tagset/3.24-32prdm3 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-html-tagset/3.24-32prdm3 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-html-tagset/3.24-32prdm3 new file mode 100644 index 00000000..8e88b2df --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-html-tagset/3.24-32prdm3 @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.241633 +## +## perl-html-tagset@3.24%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/32prdm3 +## + + +module-whatis {Data tables useful in parsing HTML} + +proc ModulesHelp { } { + puts stderr {Name : perl-html-tagset} + puts stderr {Version: 3.24} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Data tables useful in parsing HTML} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-html-tagset + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-html-tagset-3.24-32prdm3v6oodfsyixbwyg4edvmimmbpf/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-html-tagset-3.24-32prdm3v6oodfsyixbwyg4edvmimmbpf/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-html-tagset-3.24-32prdm3v6oodfsyixbwyg4edvmimmbpf/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-html-tagset-3.24-32prdm3v6oodfsyixbwyg4edvmimmbpf/lib/perl5} +setenv PERL_HTML_TAGSET_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-html-tagset-3.24-32prdm3v6oodfsyixbwyg4edvmimmbpf} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-http-cookies/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-http-cookies/.modulerc new file mode 100644 index 00000000..14d5ce02 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-http-cookies/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-http-cookies/6.11-62zdnjy diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-http-cookies/6.11-62zdnjy b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-http-cookies/6.11-62zdnjy new file mode 100644 index 00000000..bff88307 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-http-cookies/6.11-62zdnjy @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.252819 +## +## perl-http-cookies@6.11%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/62zdnjy +## + + +module-whatis {HTTP cookie jars} + +proc ModulesHelp { } { + puts stderr {Name : perl-http-cookies} + puts stderr {Version: 6.11} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {HTTP cookie jars} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load perl-http-message/6.45-2jh2jmd + module load perl-uri/5.08-d7o47om +} else { + depends-on perl/5.40.0-lzbctij + depends-on perl-http-message/6.45-2jh2jmd + depends-on perl-uri/5.08-d7o47om +} +conflict perl-http-cookies + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-http-cookies-6.11-62zdnjyo7jsk4uf3ionbadymkj47wz6r/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-http-cookies-6.11-62zdnjyo7jsk4uf3ionbadymkj47wz6r/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-http-cookies-6.11-62zdnjyo7jsk4uf3ionbadymkj47wz6r/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-http-cookies-6.11-62zdnjyo7jsk4uf3ionbadymkj47wz6r/lib/perl5} +setenv PERL_HTTP_COOKIES_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-http-cookies-6.11-62zdnjyo7jsk4uf3ionbadymkj47wz6r} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-http-daemon/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-http-daemon/.modulerc new file mode 100644 index 00000000..bac98d89 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-http-daemon/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-http-daemon/6.16-ngpxyml diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-http-daemon/6.16-ngpxyml b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-http-daemon/6.16-ngpxyml new file mode 100644 index 00000000..8e38de4f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-http-daemon/6.16-ngpxyml @@ -0,0 +1,76 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.269729 +## +## perl-http-daemon@6.16%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/ngpxyml +## + + +module-whatis {A simple http server class} + +proc ModulesHelp { } { + puts stderr {Name : perl-http-daemon} + puts stderr {Version: 6.16} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A simple http server class} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load perl-http-date/6.06-inh4jwd + module load perl-http-message/6.45-2jh2jmd + module load perl-lwp-mediatypes/6.04-jlasvnj +} else { + depends-on perl/5.40.0-lzbctij + depends-on perl-http-date/6.06-inh4jwd + depends-on perl-http-message/6.45-2jh2jmd + depends-on perl-lwp-mediatypes/6.04-jlasvnj +} +conflict perl-http-daemon + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-http-daemon-6.16-ngpxymlcsj6ibul7yjcdnb7434mucnkd/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-http-daemon-6.16-ngpxymlcsj6ibul7yjcdnb7434mucnkd/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-http-daemon-6.16-ngpxymlcsj6ibul7yjcdnb7434mucnkd/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-http-daemon-6.16-ngpxymlcsj6ibul7yjcdnb7434mucnkd/lib/perl5} +setenv PERL_HTTP_DAEMON_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-http-daemon-6.16-ngpxymlcsj6ibul7yjcdnb7434mucnkd} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-http-date/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-http-date/.modulerc new file mode 100644 index 00000000..5e33dd11 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-http-date/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-http-date/6.06-inh4jwd diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-http-date/6.06-inh4jwd b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-http-date/6.06-inh4jwd new file mode 100644 index 00000000..d830ee4d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-http-date/6.06-inh4jwd @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.287870 +## +## perl-http-date@6.06%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/inh4jwd +## + + +module-whatis {Date conversion routines} + +proc ModulesHelp { } { + puts stderr {Name : perl-http-date} + puts stderr {Version: 6.06} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Date conversion routines} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-http-date + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-http-date-6.06-inh4jwdmn4vk5zgfpfwvyqlby6ss7qiw/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-http-date-6.06-inh4jwdmn4vk5zgfpfwvyqlby6ss7qiw/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-http-date-6.06-inh4jwdmn4vk5zgfpfwvyqlby6ss7qiw/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-http-date-6.06-inh4jwdmn4vk5zgfpfwvyqlby6ss7qiw/lib/perl5} +setenv PERL_HTTP_DATE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-http-date-6.06-inh4jwdmn4vk5zgfpfwvyqlby6ss7qiw} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-http-message/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-http-message/.modulerc new file mode 100644 index 00000000..d08c4e26 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-http-message/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-http-message/6.45-2jh2jmd diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-http-message/6.45-2jh2jmd b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-http-message/6.45-2jh2jmd new file mode 100644 index 00000000..94857f05 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-http-message/6.45-2jh2jmd @@ -0,0 +1,84 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.299130 +## +## perl-http-message@6.45%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/2jh2jmd +## + + +module-whatis {HTTP style message (base class)} + +proc ModulesHelp { } { + puts stderr {Name : perl-http-message} + puts stderr {Version: 6.45} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {HTTP style message (base class)} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load perl-clone/0.46-3guhici + module load perl-encode-locale/1.05-usk65hu + module load perl-http-date/6.06-inh4jwd + module load perl-io-html/1.004-d7lpn4x + module load perl-lwp-mediatypes/6.04-jlasvnj + module load perl-try-tiny/0.31-voibp7l + module load perl-uri/5.08-d7o47om +} else { + depends-on perl/5.40.0-lzbctij + depends-on perl-clone/0.46-3guhici + depends-on perl-encode-locale/1.05-usk65hu + depends-on perl-http-date/6.06-inh4jwd + depends-on perl-io-html/1.004-d7lpn4x + depends-on perl-lwp-mediatypes/6.04-jlasvnj + depends-on perl-try-tiny/0.31-voibp7l + depends-on perl-uri/5.08-d7o47om +} +conflict perl-http-message + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-http-message-6.45-2jh2jmdivb7rnw7ky2zxxxflvav7ebal/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-http-message-6.45-2jh2jmdivb7rnw7ky2zxxxflvav7ebal/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-http-message-6.45-2jh2jmdivb7rnw7ky2zxxxflvav7ebal/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-http-message-6.45-2jh2jmdivb7rnw7ky2zxxxflvav7ebal/lib/perl5} +setenv PERL_HTTP_MESSAGE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-http-message-6.45-2jh2jmdivb7rnw7ky2zxxxflvav7ebal} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-http-negotiate/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-http-negotiate/.modulerc new file mode 100644 index 00000000..f3c31dde --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-http-negotiate/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-http-negotiate/6.01-tgyfbei diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-http-negotiate/6.01-tgyfbei b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-http-negotiate/6.01-tgyfbei new file mode 100644 index 00000000..f7808c66 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-http-negotiate/6.01-tgyfbei @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.321457 +## +## perl-http-negotiate@6.01%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/tgyfbei +## + + +module-whatis {Choose a variant to serve} + +proc ModulesHelp { } { + puts stderr {Name : perl-http-negotiate} + puts stderr {Version: 6.01} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Choose a variant to serve} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load perl-http-message/6.45-2jh2jmd +} else { + depends-on perl/5.40.0-lzbctij + depends-on perl-http-message/6.45-2jh2jmd +} +conflict perl-http-negotiate + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-http-negotiate-6.01-tgyfbei4wswz4ask5t466jadopynbf7r/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-http-negotiate-6.01-tgyfbei4wswz4ask5t466jadopynbf7r/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-http-negotiate-6.01-tgyfbei4wswz4ask5t466jadopynbf7r/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-http-negotiate-6.01-tgyfbei4wswz4ask5t466jadopynbf7r/lib/perl5} +setenv PERL_HTTP_NEGOTIATE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-http-negotiate-6.01-tgyfbei4wswz4ask5t466jadopynbf7r} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-io-html/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-io-html/.modulerc new file mode 100644 index 00000000..bdab1378 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-io-html/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-io-html/1.004-d7lpn4x diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-io-html/1.004-d7lpn4x b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-io-html/1.004-d7lpn4x new file mode 100644 index 00000000..6bc95466 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-io-html/1.004-d7lpn4x @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.337073 +## +## perl-io-html@1.004%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/d7lpn4x +## + + +module-whatis {Open an HTML file with automatic charset detection.} + +proc ModulesHelp { } { + puts stderr {Name : perl-io-html} + puts stderr {Version: 1.004} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Open an HTML file with automatic charset detection.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-io-html + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-io-html-1.004-d7lpn4xlkxjtx2bujudvtbqibgwyv737/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-io-html-1.004-d7lpn4xlkxjtx2bujudvtbqibgwyv737/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-io-html-1.004-d7lpn4xlkxjtx2bujudvtbqibgwyv737/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-io-html-1.004-d7lpn4xlkxjtx2bujudvtbqibgwyv737/lib/perl5} +setenv PERL_IO_HTML_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-io-html-1.004-d7lpn4xlkxjtx2bujudvtbqibgwyv737} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-io-string/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-io-string/.modulerc new file mode 100644 index 00000000..30d81a1f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-io-string/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-io-string/1.08-uc43fnq diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-io-string/1.08-uc43fnq b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-io-string/1.08-uc43fnq new file mode 100644 index 00000000..7f45237a --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-io-string/1.08-uc43fnq @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.348320 +## +## perl-io-string@1.08%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/uc43fnq +## + + +module-whatis {Emulate file interface for in-core strings} + +proc ModulesHelp { } { + puts stderr {Name : perl-io-string} + puts stderr {Version: 1.08} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Emulate file interface for in-core strings} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-io-string + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-io-string-1.08-uc43fnqquhpievx4pxzxsphxvx5hracu/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-io-string-1.08-uc43fnqquhpievx4pxzxsphxvx5hracu/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-io-string-1.08-uc43fnqquhpievx4pxzxsphxvx5hracu/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-io-string-1.08-uc43fnqquhpievx4pxzxsphxvx5hracu/lib/perl5} +setenv PERL_IO_STRING_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-io-string-1.08-uc43fnqquhpievx4pxzxsphxvx5hracu} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-io-stringy/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-io-stringy/.modulerc new file mode 100644 index 00000000..8b0bda66 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-io-stringy/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-io-stringy/2.113-w3alcwn diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-io-stringy/2.113-w3alcwn b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-io-stringy/2.113-w3alcwn new file mode 100644 index 00000000..23cd8288 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-io-stringy/2.113-w3alcwn @@ -0,0 +1,79 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.359569 +## +## perl-io-stringy@2.113%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/w3alcwn +## + + +module-whatis {This toolkit primarily provides modules for performing both traditional and object-oriented i/o) on things other than normal filehandles; in particular, IO::Scalar, IO::ScalarArray, and IO::Lines.} + +proc ModulesHelp { } { + puts stderr {Name : perl-io-stringy} + puts stderr {Version: 2.113} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {This toolkit primarily provides modules for performing both traditional} + puts stderr {and object-oriented i/o) on things other than normal filehandles; in} + puts stderr {particular, IO::Scalar, IO::ScalarArray, and IO::Lines. In the more-} + puts stderr {traditional IO::Handle front, we have IO::AtomicFile which may be used} + puts stderr {to painlessly create files which are updated atomically. And in the} + puts stderr {"this-may-prove-useful" corner, we have IO::Wrap, whose exported} + puts stderr {wraphandle() function will clothe anything that's not a blessed object} + puts stderr {in an IO::Handle-like wrapper... so you can just use OO syntax and stop} + puts stderr {worrying about whether your function's caller handed you a string, a} + puts stderr {globref, or a FileHandle.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-io-stringy + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-io-stringy-2.113-w3alcwnmewazue3tv3ygf4wkx22mollf/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-io-stringy-2.113-w3alcwnmewazue3tv3ygf4wkx22mollf/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-io-stringy-2.113-w3alcwnmewazue3tv3ygf4wkx22mollf/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-io-stringy-2.113-w3alcwnmewazue3tv3ygf4wkx22mollf/lib/perl5} +setenv PERL_IO_STRINGY_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-io-stringy-2.113-w3alcwnmewazue3tv3ygf4wkx22mollf} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-io-tty/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-io-tty/.modulerc new file mode 100644 index 00000000..0fe6125f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-io-tty/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-io-tty/1.20-2pfvmin diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-io-tty/1.20-2pfvmin b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-io-tty/1.20-2pfvmin new file mode 100644 index 00000000..10a56563 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-io-tty/1.20-2pfvmin @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.370973 +## +## perl-io-tty@1.20%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/2pfvmin +## + + +module-whatis {IO::Tty is used internally by IO::Pty to create a pseudo-tty. You wouldn't want to use it directly except to import constants, use IO::Pty. For a list of importable constants, see IO::Tty::Constant.} + +proc ModulesHelp { } { + puts stderr {Name : perl-io-tty} + puts stderr {Version: 1.20} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {IO::Tty is used internally by IO::Pty to create a pseudo-tty. You} + puts stderr {wouldn't want to use it directly except to import constants, use} + puts stderr {IO::Pty. For a list of importable constants, see IO::Tty::Constant.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-io-tty + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-io-tty-1.20-2pfvmin2uzrehxlbbxin7amjxg5clrjz/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-io-tty-1.20-2pfvmin2uzrehxlbbxin7amjxg5clrjz/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-io-tty-1.20-2pfvmin2uzrehxlbbxin7amjxg5clrjz/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-io-tty-1.20-2pfvmin2uzrehxlbbxin7amjxg5clrjz/lib/perl5} +setenv PERL_IO_TTY_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-io-tty-1.20-2pfvmin2uzrehxlbbxin7amjxg5clrjz} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-ipc-run/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-ipc-run/.modulerc new file mode 100644 index 00000000..c0557a49 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-ipc-run/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-ipc-run/20231003.0-wk5tppj diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-ipc-run/20231003.0-wk5tppj b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-ipc-run/20231003.0-wk5tppj new file mode 100644 index 00000000..7578b388 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-ipc-run/20231003.0-wk5tppj @@ -0,0 +1,75 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.382392 +## +## perl-ipc-run@20231003.0%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/wk5tppj +## + + +module-whatis {IPC::Run allows you to run and interact with child processes using files, pipes, and pseudo-ttys. Both system()-style and scripted usages are supported and may be mixed. Likewise, functional and OO API styles are both supported and may be mixed.} + +proc ModulesHelp { } { + puts stderr {Name : perl-ipc-run} + puts stderr {Version: 20231003.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {IPC::Run allows you to run and interact with child processes using} + puts stderr {files, pipes, and pseudo-ttys. Both system()-style and scripted usages} + puts stderr {are supported and may be mixed. Likewise, functional and OO API styles} + puts stderr {are both supported and may be mixed.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load perl-io-tty/1.20-2pfvmin +} else { + depends-on perl/5.40.0-lzbctij + depends-on perl-io-tty/1.20-2pfvmin +} +conflict perl-ipc-run + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-ipc-run-20231003.0-wk5tppjpjnaiv4bdyquv6sanja7jixkd/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-ipc-run-20231003.0-wk5tppjpjnaiv4bdyquv6sanja7jixkd/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-ipc-run-20231003.0-wk5tppjpjnaiv4bdyquv6sanja7jixkd/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-ipc-run-20231003.0-wk5tppjpjnaiv4bdyquv6sanja7jixkd/lib/perl5} +setenv PERL_IPC_RUN_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-ipc-run-20231003.0-wk5tppjpjnaiv4bdyquv6sanja7jixkd} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-json-xs/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-json-xs/.modulerc new file mode 100644 index 00000000..41f14f29 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-json-xs/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-json-xs/4.03-icessw6 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-json-xs/4.03-icessw6 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-json-xs/4.03-icessw6 new file mode 100644 index 00000000..3b941b38 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-json-xs/4.03-icessw6 @@ -0,0 +1,75 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.409091 +## +## perl-json-xs@4.03%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/icessw6 +## + + +module-whatis {JSON serialising/deserialising, done correctly and fast} + +proc ModulesHelp { } { + puts stderr {Name : perl-json-xs} + puts stderr {Version: 4.03} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {JSON serialising/deserialising, done correctly and fast} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load perl-common-sense/3.75-cj4o65i + module load perl-types-serialiser/1.01-bovcrky +} else { + depends-on perl/5.40.0-lzbctij + depends-on perl-common-sense/3.75-cj4o65i + depends-on perl-types-serialiser/1.01-bovcrky +} +conflict perl-json-xs + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-json-xs-4.03-icessw6bc7xe4fibiohgmwfeyn66ylbq/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-json-xs-4.03-icessw6bc7xe4fibiohgmwfeyn66ylbq/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-json-xs-4.03-icessw6bc7xe4fibiohgmwfeyn66ylbq/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-json-xs-4.03-icessw6bc7xe4fibiohgmwfeyn66ylbq/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-json-xs-4.03-icessw6bc7xe4fibiohgmwfeyn66ylbq/lib/perl5} +setenv PERL_JSON_XS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-json-xs-4.03-icessw6bc7xe4fibiohgmwfeyn66ylbq} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-json/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-json/.modulerc new file mode 100644 index 00000000..b179e8f7 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-json/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-json/4.10-bc2iipf diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-json/4.10-bc2iipf b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-json/4.10-bc2iipf new file mode 100644 index 00000000..6717edbc --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-json/4.10-bc2iipf @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.395366 +## +## perl-json@4.10%gcc@13.2.0+json-xs build_system=perl arch=linux-ubuntu22.04-x86_64_v3/bc2iipf +## + + +module-whatis {JSON (JavaScript Object Notation) encoder/decoder} + +proc ModulesHelp { } { + puts stderr {Name : perl-json} + puts stderr {Version: 4.10} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {JSON (JavaScript Object Notation) encoder/decoder} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load perl-json-xs/4.03-icessw6 +} else { + depends-on perl/5.40.0-lzbctij + depends-on perl-json-xs/4.03-icessw6 +} +conflict perl-json + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-json-4.10-bc2iipf5mv3wrod5ry774um2cdwcfxjb/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-json-4.10-bc2iipf5mv3wrod5ry774um2cdwcfxjb/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-json-4.10-bc2iipf5mv3wrod5ry774um2cdwcfxjb/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-json-4.10-bc2iipf5mv3wrod5ry774um2cdwcfxjb/lib/perl5} +setenv PERL_JSON_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-json-4.10-bc2iipf5mv3wrod5ry774um2cdwcfxjb} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-libwww-perl/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-libwww-perl/.modulerc new file mode 100644 index 00000000..d1d6c85c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-libwww-perl/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-libwww-perl/6.68-hsaecxw diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-libwww-perl/6.68-hsaecxw b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-libwww-perl/6.68-hsaecxw new file mode 100644 index 00000000..3f74d877 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-libwww-perl/6.68-hsaecxw @@ -0,0 +1,102 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.423623 +## +## perl-libwww-perl@6.68%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/hsaecxw +## + + +module-whatis {The libwww-perl collection is a set of Perl modules which provides a simple and consistent application programming interface to the World-Wide Web. The main focus of the library is to provide classes and functions that allow you to write WWW clients.} + +proc ModulesHelp { } { + puts stderr {Name : perl-libwww-perl} + puts stderr {Version: 6.68} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The libwww-perl collection is a set of Perl modules which provides a} + puts stderr {simple and consistent application programming interface to the World-} + puts stderr {Wide Web. The main focus of the library is to provide classes and} + puts stderr {functions that allow you to write WWW clients.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load perl-clone/0.46-3guhici + module load perl-encode-locale/1.05-usk65hu + module load perl-file-listing/6.16-uetnohv + module load perl-html-parser/3.72-jnn6b3n + module load perl-http-cookies/6.11-62zdnjy + module load perl-http-daemon/6.16-ngpxyml + module load perl-http-date/6.06-inh4jwd + module load perl-http-message/6.45-2jh2jmd + module load perl-http-negotiate/6.01-tgyfbei + module load perl-lwp-mediatypes/6.04-jlasvnj + module load perl-net-http/6.23-p2ncvf7 + module load perl-try-tiny/0.31-voibp7l + module load perl-uri/5.08-d7o47om + module load perl-www-robotrules/6.02-kjfudrh +} else { + depends-on perl/5.40.0-lzbctij + depends-on perl-clone/0.46-3guhici + depends-on perl-encode-locale/1.05-usk65hu + depends-on perl-file-listing/6.16-uetnohv + depends-on perl-html-parser/3.72-jnn6b3n + depends-on perl-http-cookies/6.11-62zdnjy + depends-on perl-http-daemon/6.16-ngpxyml + depends-on perl-http-date/6.06-inh4jwd + depends-on perl-http-message/6.45-2jh2jmd + depends-on perl-http-negotiate/6.01-tgyfbei + depends-on perl-lwp-mediatypes/6.04-jlasvnj + depends-on perl-net-http/6.23-p2ncvf7 + depends-on perl-try-tiny/0.31-voibp7l + depends-on perl-uri/5.08-d7o47om + depends-on perl-www-robotrules/6.02-kjfudrh +} +conflict perl-libwww-perl + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-libwww-perl-6.68-hsaecxwbfy6a56ggp6wniji52xemtptc/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-libwww-perl-6.68-hsaecxwbfy6a56ggp6wniji52xemtptc/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-libwww-perl-6.68-hsaecxwbfy6a56ggp6wniji52xemtptc/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-libwww-perl-6.68-hsaecxwbfy6a56ggp6wniji52xemtptc/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-libwww-perl-6.68-hsaecxwbfy6a56ggp6wniji52xemtptc/lib/perl5} +setenv PERL_LIBWWW_PERL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-libwww-perl-6.68-hsaecxwbfy6a56ggp6wniji52xemtptc} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-libxml-perl/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-libxml-perl/.modulerc new file mode 100644 index 00000000..8ac7be0d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-libxml-perl/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-libxml-perl/0.08-vurv5vo diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-libxml-perl/0.08-vurv5vo b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-libxml-perl/0.08-vurv5vo new file mode 100644 index 00000000..65a2b43c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-libxml-perl/0.08-vurv5vo @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.458497 +## +## perl-libxml-perl@0.08%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/vurv5vo +## + + +module-whatis {libxml-perl is a collection of smaller Perl modules, scripts, and documents for working with XML in Perl. libxml-perl software works in combination with XML::Parser, PerlSAX, XML::DOM, XML::Grove and others.} + +proc ModulesHelp { } { + puts stderr {Name : perl-libxml-perl} + puts stderr {Version: 0.08} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {libxml-perl is a collection of smaller Perl modules, scripts, and} + puts stderr {documents for working with XML in Perl. libxml-perl software works in} + puts stderr {combination with XML::Parser, PerlSAX, XML::DOM, XML::Grove and others.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-libxml-perl + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-libxml-perl-0.08-vurv5vobbo7cjyzrhtlwryh7324n73x7/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-libxml-perl-0.08-vurv5vobbo7cjyzrhtlwryh7324n73x7/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-libxml-perl-0.08-vurv5vobbo7cjyzrhtlwryh7324n73x7/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-libxml-perl-0.08-vurv5vobbo7cjyzrhtlwryh7324n73x7/lib/perl5} +setenv PERL_LIBXML_PERL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-libxml-perl-0.08-vurv5vobbo7cjyzrhtlwryh7324n73x7} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-list-moreutils-xs/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-list-moreutils-xs/.modulerc new file mode 100644 index 00000000..0ad3519d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-list-moreutils-xs/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-list-moreutils-xs/0.430-hyniwh6 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-list-moreutils-xs/0.430-hyniwh6 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-list-moreutils-xs/0.430-hyniwh6 new file mode 100644 index 00000000..76a36769 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-list-moreutils-xs/0.430-hyniwh6 @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.484138 +## +## perl-list-moreutils-xs@0.430%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/hyniwh6 +## + + +module-whatis {List::MoreUtils::XS is a backend for List::MoreUtils. Even if it's possible (because of user wishes) to have it practically independent from List::MoreUtils, it technically depend on List::MoreUtils. Since it's only a backend, the API is not public and can change without any warning.} + +proc ModulesHelp { } { + puts stderr {Name : perl-list-moreutils-xs} + puts stderr {Version: 0.430} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {List::MoreUtils::XS is a backend for List::MoreUtils. Even if it's} + puts stderr {possible (because of user wishes) to have it practically independent} + puts stderr {from List::MoreUtils, it technically depend on List::MoreUtils. Since} + puts stderr {it's only a backend, the API is not public and can change without any} + puts stderr {warning.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-list-moreutils-xs + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-list-moreutils-xs-0.430-hyniwh6yrzox6z5c76feznz4hyjnq57o/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-list-moreutils-xs-0.430-hyniwh6yrzox6z5c76feznz4hyjnq57o/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-list-moreutils-xs-0.430-hyniwh6yrzox6z5c76feznz4hyjnq57o/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-list-moreutils-xs-0.430-hyniwh6yrzox6z5c76feznz4hyjnq57o/lib/perl5} +setenv PERL_LIST_MOREUTILS_XS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-list-moreutils-xs-0.430-hyniwh6yrzox6z5c76feznz4hyjnq57o} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-list-moreutils/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-list-moreutils/.modulerc new file mode 100644 index 00000000..50c114d3 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-list-moreutils/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-list-moreutils/0.430-gt3gh55 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-list-moreutils/0.430-gt3gh55 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-list-moreutils/0.430-gt3gh55 new file mode 100644 index 00000000..6fc86598 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-list-moreutils/0.430-gt3gh55 @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.469819 +## +## perl-list-moreutils@0.430%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/gt3gh55 +## + + +module-whatis {Provide the stuff missing in List::Util} + +proc ModulesHelp { } { + puts stderr {Name : perl-list-moreutils} + puts stderr {Version: 0.430} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Provide the stuff missing in List::Util} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load perl-exporter-tiny/1.006002-37txk54 + module load perl-list-moreutils-xs/0.430-hyniwh6 +} else { + depends-on perl/5.40.0-lzbctij + depends-on perl-exporter-tiny/1.006002-37txk54 + depends-on perl-list-moreutils-xs/0.430-hyniwh6 +} +conflict perl-list-moreutils + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-list-moreutils-0.430-gt3gh55mkh425eoytzefnte7i6jowdfm/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-list-moreutils-0.430-gt3gh55mkh425eoytzefnte7i6jowdfm/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-list-moreutils-0.430-gt3gh55mkh425eoytzefnte7i6jowdfm/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-list-moreutils-0.430-gt3gh55mkh425eoytzefnte7i6jowdfm/lib/perl5} +setenv PERL_LIST_MOREUTILS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-list-moreutils-0.430-gt3gh55mkh425eoytzefnte7i6jowdfm} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-lwp-mediatypes/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-lwp-mediatypes/.modulerc new file mode 100644 index 00000000..15f034f6 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-lwp-mediatypes/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-lwp-mediatypes/6.04-jlasvnj diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-lwp-mediatypes/6.04-jlasvnj b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-lwp-mediatypes/6.04-jlasvnj new file mode 100644 index 00000000..6a0c664d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-lwp-mediatypes/6.04-jlasvnj @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.495455 +## +## perl-lwp-mediatypes@6.04%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/jlasvnj +## + + +module-whatis {Guess media type for a file or a URL} + +proc ModulesHelp { } { + puts stderr {Name : perl-lwp-mediatypes} + puts stderr {Version: 6.04} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Guess media type for a file or a URL} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-lwp-mediatypes + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-lwp-mediatypes-6.04-jlasvnjbrar555e2itftnfgwiegcavor/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-lwp-mediatypes-6.04-jlasvnjbrar555e2itftnfgwiegcavor/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-lwp-mediatypes-6.04-jlasvnjbrar555e2itftnfgwiegcavor/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-lwp-mediatypes-6.04-jlasvnjbrar555e2itftnfgwiegcavor/lib/perl5} +setenv PERL_LWP_MEDIATYPES_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-lwp-mediatypes-6.04-jlasvnjbrar555e2itftnfgwiegcavor} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-math-bezier/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-math-bezier/.modulerc new file mode 100644 index 00000000..2c30baad --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-math-bezier/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-math-bezier/0.01-kr6ht2v diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-math-bezier/0.01-kr6ht2v b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-math-bezier/0.01-kr6ht2v new file mode 100644 index 00000000..d45dd652 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-math-bezier/0.01-kr6ht2v @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.506681 +## +## perl-math-bezier@0.01%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/kr6ht2v +## + + +module-whatis {Math::Bezier - solution of Bezier Curves} + +proc ModulesHelp { } { + puts stderr {Name : perl-math-bezier} + puts stderr {Version: 0.01} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Math::Bezier - solution of Bezier Curves} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-math-bezier + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-math-bezier-0.01-kr6ht2vasabqv6ycgducenwcwiex2xe3/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-math-bezier-0.01-kr6ht2vasabqv6ycgducenwcwiex2xe3/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-math-bezier-0.01-kr6ht2vasabqv6ycgducenwcwiex2xe3/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-math-bezier-0.01-kr6ht2vasabqv6ycgducenwcwiex2xe3/lib/perl5} +setenv PERL_MATH_BEZIER_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-math-bezier-0.01-kr6ht2vasabqv6ycgducenwcwiex2xe3} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-math-round/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-math-round/.modulerc new file mode 100644 index 00000000..1212ed82 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-math-round/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-math-round/0.07-t2wwkqh diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-math-round/0.07-t2wwkqh b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-math-round/0.07-t2wwkqh new file mode 100644 index 00000000..367cb16c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-math-round/0.07-t2wwkqh @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.518066 +## +## perl-math-round@0.07%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/t2wwkqh +## + + +module-whatis {Math::Round - Perl extension for rounding numbers} + +proc ModulesHelp { } { + puts stderr {Name : perl-math-round} + puts stderr {Version: 0.07} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Math::Round - Perl extension for rounding numbers} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-math-round + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-math-round-0.07-t2wwkqhsi2fnbs4z7gw7fshrg3ogi7fl/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-math-round-0.07-t2wwkqhsi2fnbs4z7gw7fshrg3ogi7fl/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-math-round-0.07-t2wwkqhsi2fnbs4z7gw7fshrg3ogi7fl/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-math-round-0.07-t2wwkqhsi2fnbs4z7gw7fshrg3ogi7fl/lib/perl5} +setenv PERL_MATH_ROUND_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-math-round-0.07-t2wwkqhsi2fnbs4z7gw7fshrg3ogi7fl} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-math-vecstat/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-math-vecstat/.modulerc new file mode 100644 index 00000000..d9e584e2 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-math-vecstat/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-math-vecstat/0.08-2pawj3b diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-math-vecstat/0.08-2pawj3b b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-math-vecstat/0.08-2pawj3b new file mode 100644 index 00000000..bd03ba37 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-math-vecstat/0.08-2pawj3b @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.529389 +## +## perl-math-vecstat@0.08%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/2pawj3b +## + + +module-whatis {Math::VecStat - Some basic numeric stats on vectors} + +proc ModulesHelp { } { + puts stderr {Name : perl-math-vecstat} + puts stderr {Version: 0.08} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Math::VecStat - Some basic numeric stats on vectors} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-math-vecstat + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-math-vecstat-0.08-2pawj3bbbyphx7csbcrt2wqggrbhz3ok/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-math-vecstat-0.08-2pawj3bbbyphx7csbcrt2wqggrbhz3ok/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-math-vecstat-0.08-2pawj3bbbyphx7csbcrt2wqggrbhz3ok/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-math-vecstat-0.08-2pawj3bbbyphx7csbcrt2wqggrbhz3ok/lib/perl5} +setenv PERL_MATH_VECSTAT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-math-vecstat-0.08-2pawj3bbbyphx7csbcrt2wqggrbhz3ok} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-mce/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-mce/.modulerc new file mode 100644 index 00000000..a9918ae1 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-mce/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-mce/1.884-gzqlvcm diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-mce/1.884-gzqlvcm b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-mce/1.884-gzqlvcm new file mode 100644 index 00000000..876b446d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-mce/1.884-gzqlvcm @@ -0,0 +1,75 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.540722 +## +## perl-mce@1.884%gcc@11.4.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/gzqlvcm +## + + +module-whatis {MCE - Many-Core Engine for Perl providing parallel processing capabilities.} + +proc ModulesHelp { } { + puts stderr {Name : perl-mce} + puts stderr {Version: 1.884} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {MCE - Many-Core Engine for Perl providing parallel processing} + puts stderr {capabilities. MCE spawns a pool of workers and therefore does not fork a} + puts stderr {new process per each element of data. Instead, MCE follows a bank} + puts stderr {queuing model. Imagine the line being the data and bank-tellers the} + puts stderr {parallel workers. MCE enhances that model by adding the ability to chunk} + puts stderr {the next n elements from the input stream to the next available worker.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.38.0-okr2qfj +} else { + depends-on perl/5.38.0-okr2qfj +} +conflict perl-mce + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-mce-1.884-gzqlvcmuoq6ej74ee23u23ux2gsux5gx/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-mce-1.884-gzqlvcmuoq6ej74ee23u23ux2gsux5gx/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-mce-1.884-gzqlvcmuoq6ej74ee23u23ux2gsux5gx/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-mce-1.884-gzqlvcmuoq6ej74ee23u23ux2gsux5gx/lib/perl5} +setenv PERL_MCE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-mce-1.884-gzqlvcmuoq6ej74ee23u23ux2gsux5gx} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-memory-process/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-memory-process/.modulerc new file mode 100644 index 00000000..0887a52f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-memory-process/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-memory-process/0.06-5ef6fmq diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-memory-process/0.06-5ef6fmq b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-memory-process/0.06-5ef6fmq new file mode 100644 index 00000000..fb05f3e6 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-memory-process/0.06-5ef6fmq @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.550974 +## +## perl-memory-process@0.06%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/5ef6fmq +## + + +module-whatis {Memory::Process - Perl class to determine actual memory usage} + +proc ModulesHelp { } { + puts stderr {Name : perl-memory-process} + puts stderr {Version: 0.06} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Memory::Process - Perl class to determine actual memory usage} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-memory-process + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-memory-process-0.06-5ef6fmqtroikfq6dgzibtreetbzuuwza/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-memory-process-0.06-5ef6fmqtroikfq6dgzibtreetbzuuwza/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-memory-process-0.06-5ef6fmqtroikfq6dgzibtreetbzuuwza/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-memory-process-0.06-5ef6fmqtroikfq6dgzibtreetbzuuwza/lib/perl5} +setenv PERL_MEMORY_PROCESS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-memory-process-0.06-5ef6fmqtroikfq6dgzibtreetbzuuwza} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-module-build/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-module-build/.modulerc new file mode 100644 index 00000000..a8f58a0d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-module-build/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-module-build/0.4234-xals7ew diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-module-build/0.4234-xals7ew b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-module-build/0.4234-xals7ew new file mode 100644 index 00000000..9494a2f9 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-module-build/0.4234-xals7ew @@ -0,0 +1,76 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.562281 +## +## perl-module-build@0.4234%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/xals7ew +## + + +module-whatis {Module::Build is a system for building, testing, and installing Perl modules. It is meant to be an alternative to ExtUtils::MakeMaker. Developers may alter the behavior of the module through subclassing in a much more straightforward way than with MakeMaker. It also does not require a make on your system - most of the Module::Build code is pure-perl and written in a very cross-platform way. } + +proc ModulesHelp { } { + puts stderr {Name : perl-module-build} + puts stderr {Version: 0.4234} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Module::Build is a system for building, testing, and installing Perl} + puts stderr {modules. It is meant to be an alternative to ExtUtils::MakeMaker.} + puts stderr {Developers may alter the behavior of the module through subclassing in a} + puts stderr {much more straightforward way than with MakeMaker. It also does not} + puts stderr {require a make on your system - most of the Module::Build code is pure-} + puts stderr {perl and written in a very cross-platform way.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-module-build + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-module-build-0.4234-xals7ewv6hm6vuhvi4nxm6y6p6te5224/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-module-build-0.4234-xals7ewv6hm6vuhvi4nxm6y6p6te5224/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-module-build-0.4234-xals7ewv6hm6vuhvi4nxm6y6p6te5224/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-module-build-0.4234-xals7ewv6hm6vuhvi4nxm6y6p6te5224/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-module-build-0.4234-xals7ewv6hm6vuhvi4nxm6y6p6te5224/lib/perl5} +setenv PERL_MODULE_BUILD_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-module-build-0.4234-xals7ewv6hm6vuhvi4nxm6y6p6te5224} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-module-implementation/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-module-implementation/.modulerc new file mode 100644 index 00000000..3432ec0a --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-module-implementation/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-module-implementation/0.09-llwz36d diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-module-implementation/0.09-llwz36d b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-module-implementation/0.09-llwz36d new file mode 100644 index 00000000..87c679e1 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-module-implementation/0.09-llwz36d @@ -0,0 +1,78 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.573938 +## +## perl-module-implementation@0.09%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/llwz36d +## + + +module-whatis {Loads one of several alternate underlying implementations for a module} + +proc ModulesHelp { } { + puts stderr {Name : perl-module-implementation} + puts stderr {Version: 0.09} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Loads one of several alternate underlying implementations for a module} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load perl-module-runtime/0.016-icsesge + module load perl-test-fatal/0.017-2n6ftep + module load perl-test-requires/0.11-xe6hiht + module load perl-try-tiny/0.31-voibp7l +} else { + depends-on perl/5.40.0-lzbctij + depends-on perl-module-runtime/0.016-icsesge + depends-on perl-test-fatal/0.017-2n6ftep + depends-on perl-test-requires/0.11-xe6hiht + depends-on perl-try-tiny/0.31-voibp7l +} +conflict perl-module-implementation + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-module-implementation-0.09-llwz36dyku446cbosefn6yslaneoobac/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-module-implementation-0.09-llwz36dyku446cbosefn6yslaneoobac/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-module-implementation-0.09-llwz36dyku446cbosefn6yslaneoobac/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-module-implementation-0.09-llwz36dyku446cbosefn6yslaneoobac/lib/perl5} +setenv PERL_MODULE_IMPLEMENTATION_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-module-implementation-0.09-llwz36dyku446cbosefn6yslaneoobac} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-module-runtime/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-module-runtime/.modulerc new file mode 100644 index 00000000..a823cff4 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-module-runtime/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-module-runtime/0.016-icsesge diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-module-runtime/0.016-icsesge b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-module-runtime/0.016-icsesge new file mode 100644 index 00000000..216f2e1a --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-module-runtime/0.016-icsesge @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.591521 +## +## perl-module-runtime@0.016%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/icsesge +## + + +module-whatis {Runtime module handling} + +proc ModulesHelp { } { + puts stderr {Name : perl-module-runtime} + puts stderr {Version: 0.016} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Runtime module handling} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-module-runtime + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-module-runtime-0.016-icsesgecxrdeasrp2frienemsq6rgpql/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-module-runtime-0.016-icsesgecxrdeasrp2frienemsq6rgpql/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-module-runtime-0.016-icsesgecxrdeasrp2frienemsq6rgpql/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-module-runtime-0.016-icsesgecxrdeasrp2frienemsq6rgpql/lib/perl5} +setenv PERL_MODULE_RUNTIME_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-module-runtime-0.016-icsesgecxrdeasrp2frienemsq6rgpql} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-mro-compat/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-mro-compat/.modulerc new file mode 100644 index 00000000..09d4265d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-mro-compat/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-mro-compat/0.15-rqmggtp diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-mro-compat/0.15-rqmggtp b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-mro-compat/0.15-rqmggtp new file mode 100644 index 00000000..cffa8ef3 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-mro-compat/0.15-rqmggtp @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.602764 +## +## perl-mro-compat@0.15%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/rqmggtp +## + + +module-whatis {Provides several utilities for dealing with method resolution order.} + +proc ModulesHelp { } { + puts stderr {Name : perl-mro-compat} + puts stderr {Version: 0.15} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Provides several utilities for dealing with method resolution order.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-mro-compat + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-mro-compat-0.15-rqmggtpsp5oaun7iq7ucdrrrpbcxlmpc/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-mro-compat-0.15-rqmggtpsp5oaun7iq7ucdrrrpbcxlmpc/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-mro-compat-0.15-rqmggtpsp5oaun7iq7ucdrrrpbcxlmpc/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-mro-compat-0.15-rqmggtpsp5oaun7iq7ucdrrrpbcxlmpc/lib/perl5} +setenv PERL_MRO_COMPAT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-mro-compat-0.15-rqmggtpsp5oaun7iq7ucdrrrpbcxlmpc} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-namespace-autoclean/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-namespace-autoclean/.modulerc new file mode 100644 index 00000000..2caaab07 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-namespace-autoclean/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-namespace-autoclean/0.29-r5h526f diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-namespace-autoclean/0.29-r5h526f b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-namespace-autoclean/0.29-r5h526f new file mode 100644 index 00000000..01df48c3 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-namespace-autoclean/0.29-r5h526f @@ -0,0 +1,76 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.614008 +## +## perl-namespace-autoclean@0.29%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/r5h526f +## + + +module-whatis {Namespace::Autoclean - Keep imports out of your namespace} + +proc ModulesHelp { } { + puts stderr {Name : perl-namespace-autoclean} + puts stderr {Version: 0.29} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Namespace::Autoclean - Keep imports out of your namespace} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load perl-b-hooks-endofscope/0.26-of4f42j + module load perl-namespace-clean/0.27-ppjbany + module load perl-sub-identify/0.14-mbwevo6 +} else { + depends-on perl/5.40.0-lzbctij + depends-on perl-b-hooks-endofscope/0.26-of4f42j + depends-on perl-namespace-clean/0.27-ppjbany + depends-on perl-sub-identify/0.14-mbwevo6 +} +conflict perl-namespace-autoclean + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-namespace-autoclean-0.29-r5h526fc766fo2ovvhpsvcvx3s6k2ugw/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-namespace-autoclean-0.29-r5h526fc766fo2ovvhpsvcvx3s6k2ugw/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-namespace-autoclean-0.29-r5h526fc766fo2ovvhpsvcvx3s6k2ugw/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-namespace-autoclean-0.29-r5h526fc766fo2ovvhpsvcvx3s6k2ugw/lib/perl5} +setenv PERL_NAMESPACE_AUTOCLEAN_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-namespace-autoclean-0.29-r5h526fc766fo2ovvhpsvcvx3s6k2ugw} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-namespace-clean/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-namespace-clean/.modulerc new file mode 100644 index 00000000..359ffbb1 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-namespace-clean/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-namespace-clean/0.27-ppjbany diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-namespace-clean/0.27-ppjbany b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-namespace-clean/0.27-ppjbany new file mode 100644 index 00000000..cc431a93 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-namespace-clean/0.27-ppjbany @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.633400 +## +## perl-namespace-clean@0.27%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/ppjbany +## + + +module-whatis {Keep imports and functions out of your namespace.} + +proc ModulesHelp { } { + puts stderr {Name : perl-namespace-clean} + puts stderr {Version: 0.27} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Keep imports and functions out of your namespace.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load perl-b-hooks-endofscope/0.26-of4f42j + module load perl-package-stash/0.40-nr63dpd +} else { + depends-on perl/5.40.0-lzbctij + depends-on perl-b-hooks-endofscope/0.26-of4f42j + depends-on perl-package-stash/0.40-nr63dpd +} +conflict perl-namespace-clean + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-namespace-clean-0.27-ppjbanye26t5fbatnidgq2u6mdgnjhh3/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-namespace-clean-0.27-ppjbanye26t5fbatnidgq2u6mdgnjhh3/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-namespace-clean-0.27-ppjbanye26t5fbatnidgq2u6mdgnjhh3/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-namespace-clean-0.27-ppjbanye26t5fbatnidgq2u6mdgnjhh3/lib/perl5} +setenv PERL_NAMESPACE_CLEAN_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-namespace-clean-0.27-ppjbanye26t5fbatnidgq2u6mdgnjhh3} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-net-http/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-net-http/.modulerc new file mode 100644 index 00000000..c815d247 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-net-http/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-net-http/6.23-p2ncvf7 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-net-http/6.23-p2ncvf7 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-net-http/6.23-p2ncvf7 new file mode 100644 index 00000000..9659214c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-net-http/6.23-p2ncvf7 @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.651135 +## +## perl-net-http@6.23%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/p2ncvf7 +## + + +module-whatis {Low-level HTTP connection (client)} + +proc ModulesHelp { } { + puts stderr {Name : perl-net-http} + puts stderr {Version: 6.23} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Low-level HTTP connection (client)} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load perl-uri/5.08-d7o47om +} else { + depends-on perl/5.40.0-lzbctij + depends-on perl-uri/5.08-d7o47om +} +conflict perl-net-http + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-net-http-6.23-p2ncvf7ekq25rnphvlwl5cc7oanbxw7n/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-net-http-6.23-p2ncvf7ekq25rnphvlwl5cc7oanbxw7n/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-net-http-6.23-p2ncvf7ekq25rnphvlwl5cc7oanbxw7n/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-net-http-6.23-p2ncvf7ekq25rnphvlwl5cc7oanbxw7n/lib/perl5} +setenv PERL_NET_HTTP_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-net-http-6.23-p2ncvf7ekq25rnphvlwl5cc7oanbxw7n} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-number-format/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-number-format/.modulerc new file mode 100644 index 00000000..0114fa4d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-number-format/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-number-format/1.75-mtbc7p7 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-number-format/1.75-mtbc7p7 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-number-format/1.75-mtbc7p7 new file mode 100644 index 00000000..7e72f2e4 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-number-format/1.75-mtbc7p7 @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.664113 +## +## perl-number-format@1.75%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/mtbc7p7 +## + + +module-whatis {Number::Format - Perl extension for formatting numbers} + +proc ModulesHelp { } { + puts stderr {Name : perl-number-format} + puts stderr {Version: 1.75} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Number::Format - Perl extension for formatting numbers} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-number-format + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-number-format-1.75-mtbc7p7rftlnbhodmsojlqdbrvkvmljr/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-number-format-1.75-mtbc7p7rftlnbhodmsojlqdbrvkvmljr/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-number-format-1.75-mtbc7p7rftlnbhodmsojlqdbrvkvmljr/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-number-format-1.75-mtbc7p7rftlnbhodmsojlqdbrvkvmljr/lib/perl5} +setenv PERL_NUMBER_FORMAT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-number-format-1.75-mtbc7p7rftlnbhodmsojlqdbrvkvmljr} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-package-stash/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-package-stash/.modulerc new file mode 100644 index 00000000..ca2f5358 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-package-stash/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-package-stash/0.40-nr63dpd diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-package-stash/0.40-nr63dpd b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-package-stash/0.40-nr63dpd new file mode 100644 index 00000000..3c4a2781 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-package-stash/0.40-nr63dpd @@ -0,0 +1,79 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.675359 +## +## perl-package-stash@0.40%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/nr63dpd +## + + +module-whatis {Routines for manipulating stashes} + +proc ModulesHelp { } { + puts stderr {Name : perl-package-stash} + puts stderr {Version: 0.40} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Routines for manipulating stashes} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load perl-dist-checkconflicts/0.11-zrvz2zx + module load perl-module-implementation/0.09-llwz36d + module load perl-test-fatal/0.017-2n6ftep + module load perl-test-requires/0.11-xe6hiht +} else { + depends-on perl/5.40.0-lzbctij + depends-on perl-dist-checkconflicts/0.11-zrvz2zx + depends-on perl-module-implementation/0.09-llwz36d + depends-on perl-test-fatal/0.017-2n6ftep + depends-on perl-test-requires/0.11-xe6hiht +} +conflict perl-package-stash + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-package-stash-0.40-nr63dpdwvplx3chffaazh5tkd3mjeiau/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-package-stash-0.40-nr63dpdwvplx3chffaazh5tkd3mjeiau/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-package-stash-0.40-nr63dpdwvplx3chffaazh5tkd3mjeiau/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-package-stash-0.40-nr63dpdwvplx3chffaazh5tkd3mjeiau/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-package-stash-0.40-nr63dpdwvplx3chffaazh5tkd3mjeiau/lib/perl5} +setenv PERL_PACKAGE_STASH_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-package-stash-0.40-nr63dpdwvplx3chffaazh5tkd3mjeiau} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-padwalker/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-padwalker/.modulerc new file mode 100644 index 00000000..c4840a96 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-padwalker/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-padwalker/2.5-pas54jd diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-padwalker/2.5-pas54jd b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-padwalker/2.5-pas54jd new file mode 100644 index 00000000..64c085c0 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-padwalker/2.5-pas54jd @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.693776 +## +## perl-padwalker@2.5%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/pas54jd +## + + +module-whatis {play with other peoples' lexical variables} + +proc ModulesHelp { } { + puts stderr {Name : perl-padwalker} + puts stderr {Version: 2.5} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {play with other peoples' lexical variables} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-padwalker + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-padwalker-2.5-pas54jdm2xfjmyfh6hxp4f53hen2rt6e/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-padwalker-2.5-pas54jdm2xfjmyfh6hxp4f53hen2rt6e/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-padwalker-2.5-pas54jdm2xfjmyfh6hxp4f53hen2rt6e/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-padwalker-2.5-pas54jdm2xfjmyfh6hxp4f53hen2rt6e/lib/perl5} +setenv PERL_PADWALKER_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-padwalker-2.5-pas54jdm2xfjmyfh6hxp4f53hen2rt6e} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-parallel-forkmanager/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-parallel-forkmanager/.modulerc new file mode 100644 index 00000000..3a8b876e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-parallel-forkmanager/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-parallel-forkmanager/2.02-gmrdmpd diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-parallel-forkmanager/2.02-gmrdmpd b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-parallel-forkmanager/2.02-gmrdmpd new file mode 100644 index 00000000..a7975be6 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-parallel-forkmanager/2.02-gmrdmpd @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.705031 +## +## perl-parallel-forkmanager@2.02%gcc@11.4.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/gmrdmpd +## + + +module-whatis {A simple parallel processing fork manager} + +proc ModulesHelp { } { + puts stderr {Name : perl-parallel-forkmanager} + puts stderr {Version: 2.02} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A simple parallel processing fork manager} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.38.0-okr2qfj +} else { + depends-on perl/5.38.0-okr2qfj +} +conflict perl-parallel-forkmanager + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-parallel-forkmanager-2.02-gmrdmpdgt5tqq7snfprykmpoycm3od7e/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-parallel-forkmanager-2.02-gmrdmpdgt5tqq7snfprykmpoycm3od7e/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-parallel-forkmanager-2.02-gmrdmpdgt5tqq7snfprykmpoycm3od7e/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-parallel-forkmanager-2.02-gmrdmpdgt5tqq7snfprykmpoycm3od7e/lib/perl5} +setenv PERL_PARALLEL_FORKMANAGER_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-parallel-forkmanager-2.02-gmrdmpdgt5tqq7snfprykmpoycm3od7e} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-params-validate/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-params-validate/.modulerc new file mode 100644 index 00000000..d4030198 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-params-validate/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-params-validate/1.31-ujltxgf diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-params-validate/1.31-ujltxgf b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-params-validate/1.31-ujltxgf new file mode 100644 index 00000000..a09244d3 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-params-validate/1.31-ujltxgf @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.715318 +## +## perl-params-validate@1.31%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/ujltxgf +## + + +module-whatis {Params::Validate - Validate method/function parameters} + +proc ModulesHelp { } { + puts stderr {Name : perl-params-validate} + puts stderr {Version: 1.31} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Params::Validate - Validate method/function parameters} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load perl-module-implementation/0.09-llwz36d +} else { + depends-on perl/5.40.0-lzbctij + depends-on perl-module-implementation/0.09-llwz36d +} +conflict perl-params-validate + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-params-validate-1.31-ujltxgf452yx65ffwq4xgh6q4fpovgtc/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-params-validate-1.31-ujltxgf452yx65ffwq4xgh6q4fpovgtc/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-params-validate-1.31-ujltxgf452yx65ffwq4xgh6q4fpovgtc/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-params-validate-1.31-ujltxgf452yx65ffwq4xgh6q4fpovgtc/lib/perl5} +setenv PERL_PARAMS_VALIDATE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-params-validate-1.31-ujltxgf452yx65ffwq4xgh6q4fpovgtc} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-params-validationcompiler/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-params-validationcompiler/.modulerc new file mode 100644 index 00000000..8da96fe1 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-params-validationcompiler/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-params-validationcompiler/0.31-66qysom diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-params-validationcompiler/0.31-66qysom b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-params-validationcompiler/0.31-66qysom new file mode 100644 index 00000000..54bf59b5 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-params-validationcompiler/0.31-66qysom @@ -0,0 +1,75 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.729945 +## +## perl-params-validationcompiler@0.31%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/66qysom +## + + +module-whatis {Params::ValidationCompiler - Build an optimized subroutine parameter validator once, use it forever} + +proc ModulesHelp { } { + puts stderr {Name : perl-params-validationcompiler} + puts stderr {Version: 0.31} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Params::ValidationCompiler - Build an optimized subroutine parameter} + puts stderr {validator once, use it forever} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load perl-eval-closure/0.14-o2yh2ho + module load perl-exception-class/1.45-ashse2v +} else { + depends-on perl/5.40.0-lzbctij + depends-on perl-eval-closure/0.14-o2yh2ho + depends-on perl-exception-class/1.45-ashse2v +} +conflict perl-params-validationcompiler + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-params-validationcompiler-0.31-66qysomeypica264f7rkfhwzhti5ixj4/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-params-validationcompiler-0.31-66qysomeypica264f7rkfhwzhti5ixj4/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-params-validationcompiler-0.31-66qysomeypica264f7rkfhwzhti5ixj4/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-params-validationcompiler-0.31-66qysomeypica264f7rkfhwzhti5ixj4/lib/perl5} +setenv PERL_PARAMS_VALIDATIONCOMPILER_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-params-validationcompiler-0.31-66qysomeypica264f7rkfhwzhti5ixj4} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-pdf-api2/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-pdf-api2/.modulerc new file mode 100644 index 00000000..5c52e339 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-pdf-api2/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-pdf-api2/2.044-gamli2d diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-pdf-api2/2.044-gamli2d b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-pdf-api2/2.044-gamli2d new file mode 100644 index 00000000..9c727624 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-pdf-api2/2.044-gamli2d @@ -0,0 +1,76 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.745184 +## +## perl-pdf-api2@2.044%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/gamli2d +## + + +module-whatis {Facilitates the creation and modification of PDF files} + +proc ModulesHelp { } { + puts stderr {Name : perl-pdf-api2} + puts stderr {Version: 2.044} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Facilitates the creation and modification of PDF files} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load perl-font-ttf/1.06-524am4m + module load perl-test-exception/0.43-pyd5kaw + module load perl-test-memory-cycle/1.06-ve42nbq +} else { + depends-on perl/5.40.0-lzbctij + depends-on perl-font-ttf/1.06-524am4m + depends-on perl-test-exception/0.43-pyd5kaw + depends-on perl-test-memory-cycle/1.06-ve42nbq +} +conflict perl-pdf-api2 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-pdf-api2-2.044-gamli2dy6f23mup243cy22cna4bomgmb/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-pdf-api2-2.044-gamli2dy6f23mup243cy22cna4bomgmb/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-pdf-api2-2.044-gamli2dy6f23mup243cy22cna4bomgmb/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-pdf-api2-2.044-gamli2dy6f23mup243cy22cna4bomgmb/lib/perl5} +setenv PERL_PDF_API2_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-pdf-api2-2.044-gamli2dy6f23mup243cy22cna4bomgmb} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-readonly/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-readonly/.modulerc new file mode 100644 index 00000000..7149784d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-readonly/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-readonly/2.05-kpq5e6g diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-readonly/2.05-kpq5e6g b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-readonly/2.05-kpq5e6g new file mode 100644 index 00000000..d9a3b96a --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-readonly/2.05-kpq5e6g @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.762462 +## +## perl-readonly@2.05%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/kpq5e6g +## + + +module-whatis {Readonly - Facility for creating read-only scalars, arrays, hashes} + +proc ModulesHelp { } { + puts stderr {Name : perl-readonly} + puts stderr {Version: 2.05} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Readonly - Facility for creating read-only scalars, arrays, hashes} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-readonly + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-readonly-2.05-kpq5e6gvbz4rlvxavknswgedzdp7bptx/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-readonly-2.05-kpq5e6gvbz4rlvxavknswgedzdp7bptx/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-readonly-2.05-kpq5e6gvbz4rlvxavknswgedzdp7bptx/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-readonly-2.05-kpq5e6gvbz4rlvxavknswgedzdp7bptx/lib/perl5} +setenv PERL_READONLY_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-readonly-2.05-kpq5e6gvbz4rlvxavknswgedzdp7bptx} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-regexp-common/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-regexp-common/.modulerc new file mode 100644 index 00000000..98bfbc09 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-regexp-common/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-regexp-common/2017060201-4ucoqrk diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-regexp-common/2017060201-4ucoqrk b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-regexp-common/2017060201-4ucoqrk new file mode 100644 index 00000000..60e0e1ae --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-regexp-common/2017060201-4ucoqrk @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.773731 +## +## perl-regexp-common@2017060201%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/4ucoqrk +## + + +module-whatis {Regexp::Common - Provide commonly requested regular expressions} + +proc ModulesHelp { } { + puts stderr {Name : perl-regexp-common} + puts stderr {Version: 2017060201} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Regexp::Common - Provide commonly requested regular expressions} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-regexp-common + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-regexp-common-2017060201-4ucoqrkvlhbw4oizhapwz6y56456heq5/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-regexp-common-2017060201-4ucoqrkvlhbw4oizhapwz6y56456heq5/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-regexp-common-2017060201-4ucoqrkvlhbw4oizhapwz6y56456heq5/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-regexp-common-2017060201-4ucoqrkvlhbw4oizhapwz6y56456heq5/lib/perl5} +setenv PERL_REGEXP_COMMON_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-regexp-common-2017060201-4ucoqrkvlhbw4oizhapwz6y56456heq5} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-role-tiny/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-role-tiny/.modulerc new file mode 100644 index 00000000..3f21a42e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-role-tiny/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-role-tiny/2.002004-usqyn5l diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-role-tiny/2.002004-usqyn5l b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-role-tiny/2.002004-usqyn5l new file mode 100644 index 00000000..ed522779 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-role-tiny/2.002004-usqyn5l @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.785142 +## +## perl-role-tiny@2.002004%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/usqyn5l +## + + +module-whatis {Role::Tiny - Roles: a nouvelle cuisine portion size slice of Moose} + +proc ModulesHelp { } { + puts stderr {Name : perl-role-tiny} + puts stderr {Version: 2.002004} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Role::Tiny - Roles: a nouvelle cuisine portion size slice of Moose} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load perl-exporter-tiny/1.006002-37txk54 +} else { + depends-on perl/5.40.0-lzbctij + depends-on perl-exporter-tiny/1.006002-37txk54 +} +conflict perl-role-tiny + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-role-tiny-2.002004-usqyn5lc65rximuy6sbi2rsbk6xvvfkm/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-role-tiny-2.002004-usqyn5lc65rximuy6sbi2rsbk6xvvfkm/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-role-tiny-2.002004-usqyn5lc65rximuy6sbi2rsbk6xvvfkm/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-role-tiny-2.002004-usqyn5lc65rximuy6sbi2rsbk6xvvfkm/lib/perl5} +setenv PERL_ROLE_TINY_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-role-tiny-2.002004-usqyn5lc65rximuy6sbi2rsbk6xvvfkm} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-scalar-list-utils/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-scalar-list-utils/.modulerc new file mode 100644 index 00000000..75ac326e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-scalar-list-utils/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-scalar-list-utils/1.63-x4g4otq +module-hide --soft --hidden-loaded perl-scalar-list-utils/1.63-h5c2n6d diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-scalar-list-utils/1.63-h5c2n6d b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-scalar-list-utils/1.63-h5c2n6d new file mode 100644 index 00000000..3d5b56b6 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-scalar-list-utils/1.63-h5c2n6d @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.808232 +## +## perl-scalar-list-utils@1.63%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/h5c2n6d +## + + +module-whatis {Scalar::Util - A selection of general-utility scalar subroutines} + +proc ModulesHelp { } { + puts stderr {Name : perl-scalar-list-utils} + puts stderr {Version: 1.63} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Scalar::Util - A selection of general-utility scalar subroutines} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-scalar-list-utils + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-scalar-list-utils-1.63-h5c2n6du323wki4okbr64ultspq7ooxm/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-scalar-list-utils-1.63-h5c2n6du323wki4okbr64ultspq7ooxm/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-scalar-list-utils-1.63-h5c2n6du323wki4okbr64ultspq7ooxm/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-scalar-list-utils-1.63-h5c2n6du323wki4okbr64ultspq7ooxm/lib/perl5} +setenv PERL_SCALAR_LIST_UTILS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-scalar-list-utils-1.63-h5c2n6du323wki4okbr64ultspq7ooxm} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-scalar-list-utils/1.63-x4g4otq b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-scalar-list-utils/1.63-x4g4otq new file mode 100644 index 00000000..ec35a009 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-scalar-list-utils/1.63-x4g4otq @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.798128 +## +## perl-scalar-list-utils@1.63%gcc@11.4.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/x4g4otq +## + + +module-whatis {Scalar::Util - A selection of general-utility scalar subroutines} + +proc ModulesHelp { } { + puts stderr {Name : perl-scalar-list-utils} + puts stderr {Version: 1.63} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Scalar::Util - A selection of general-utility scalar subroutines} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.38.0-okr2qfj +} else { + depends-on perl/5.38.0-okr2qfj +} +conflict perl-scalar-list-utils + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-scalar-list-utils-1.63-x4g4otqeswdqnbb7x77jyinx7umhfsbf/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-scalar-list-utils-1.63-x4g4otqeswdqnbb7x77jyinx7umhfsbf/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-scalar-list-utils-1.63-x4g4otqeswdqnbb7x77jyinx7umhfsbf/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-scalar-list-utils-1.63-x4g4otqeswdqnbb7x77jyinx7umhfsbf/lib/perl5} +setenv PERL_SCALAR_LIST_UTILS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-scalar-list-utils-1.63-x4g4otqeswdqnbb7x77jyinx7umhfsbf} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-set-intspan/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-set-intspan/.modulerc new file mode 100644 index 00000000..af5a54c8 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-set-intspan/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-set-intspan/1.19-dadq6pg diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-set-intspan/1.19-dadq6pg b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-set-intspan/1.19-dadq6pg new file mode 100644 index 00000000..a883b96f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-set-intspan/1.19-dadq6pg @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.819522 +## +## perl-set-intspan@1.19%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/dadq6pg +## + + +module-whatis {Set::IntSpan - Manages sets of integers} + +proc ModulesHelp { } { + puts stderr {Name : perl-set-intspan} + puts stderr {Version: 1.19} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Set::IntSpan - Manages sets of integers} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-set-intspan + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-set-intspan-1.19-dadq6pgdv7xq2d326jqqyxn6wgnr66hq/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-set-intspan-1.19-dadq6pgdv7xq2d326jqqyxn6wgnr66hq/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-set-intspan-1.19-dadq6pgdv7xq2d326jqqyxn6wgnr66hq/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-set-intspan-1.19-dadq6pgdv7xq2d326jqqyxn6wgnr66hq/lib/perl5} +setenv PERL_SET_INTSPAN_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-set-intspan-1.19-dadq6pgdv7xq2d326jqqyxn6wgnr66hq} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-set-scalar/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-set-scalar/.modulerc new file mode 100644 index 00000000..da8a51f1 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-set-scalar/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-set-scalar/1.29-ykddwby diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-set-scalar/1.29-ykddwby b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-set-scalar/1.29-ykddwby new file mode 100644 index 00000000..743d94f5 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-set-scalar/1.29-ykddwby @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.830894 +## +## perl-set-scalar@1.29%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/ykddwby +## + + +module-whatis {Set::Scalar - basic set operations} + +proc ModulesHelp { } { + puts stderr {Name : perl-set-scalar} + puts stderr {Version: 1.29} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Set::Scalar - basic set operations} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-set-scalar + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-set-scalar-1.29-ykddwby676kyu6jvldni3hmv5gaqg3kp/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-set-scalar-1.29-ykddwby676kyu6jvldni3hmv5gaqg3kp/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-set-scalar-1.29-ykddwby676kyu6jvldni3hmv5gaqg3kp/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-set-scalar-1.29-ykddwby676kyu6jvldni3hmv5gaqg3kp/lib/perl5} +setenv PERL_SET_SCALAR_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-set-scalar-1.29-ykddwby676kyu6jvldni3hmv5gaqg3kp} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-specio/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-specio/.modulerc new file mode 100644 index 00000000..2a5d2b98 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-specio/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-specio/0.48-osggrtx diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-specio/0.48-osggrtx b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-specio/0.48-osggrtx new file mode 100644 index 00000000..12dadfda --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-specio/0.48-osggrtx @@ -0,0 +1,86 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.842366 +## +## perl-specio@0.48%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/osggrtx +## + + +module-whatis {Type constraints and coercions for Perl .} + +proc ModulesHelp { } { + puts stderr {Name : perl-specio} + puts stderr {Version: 0.48} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Type constraints and coercions for Perl .} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load perl-devel-stacktrace/2.05-ttfoh5u + module load perl-eval-closure/0.14-o2yh2ho + module load perl-module-runtime/0.016-icsesge + module load perl-mro-compat/0.15-rqmggtp + module load perl-role-tiny/2.002004-usqyn5l + module load perl-sub-quote/2.006008-7r6a3z3 + module load perl-test-fatal/0.017-2n6ftep + module load perl-try-tiny/0.31-voibp7l +} else { + depends-on perl/5.40.0-lzbctij + depends-on perl-devel-stacktrace/2.05-ttfoh5u + depends-on perl-eval-closure/0.14-o2yh2ho + depends-on perl-module-runtime/0.016-icsesge + depends-on perl-mro-compat/0.15-rqmggtp + depends-on perl-role-tiny/2.002004-usqyn5l + depends-on perl-sub-quote/2.006008-7r6a3z3 + depends-on perl-test-fatal/0.017-2n6ftep + depends-on perl-try-tiny/0.31-voibp7l +} +conflict perl-specio + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-specio-0.48-osggrtxksgl6lkxp4pfmd6r2ax2czp4k/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-specio-0.48-osggrtxksgl6lkxp4pfmd6r2ax2czp4k/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-specio-0.48-osggrtxksgl6lkxp4pfmd6r2ax2czp4k/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-specio-0.48-osggrtxksgl6lkxp4pfmd6r2ax2czp4k/lib/perl5} +setenv PERL_SPECIO_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-specio-0.48-osggrtxksgl6lkxp4pfmd6r2ax2czp4k} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-statistics-basic/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-statistics-basic/.modulerc new file mode 100644 index 00000000..c382d56b --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-statistics-basic/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-statistics-basic/1.6611-265wn7q diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-statistics-basic/1.6611-265wn7q b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-statistics-basic/1.6611-265wn7q new file mode 100644 index 00000000..af1dbb0b --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-statistics-basic/1.6611-265wn7q @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.866943 +## +## perl-statistics-basic@1.6611%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/265wn7q +## + + +module-whatis {Statistics::Basic - A collection of very basic statistics modules} + +proc ModulesHelp { } { + puts stderr {Name : perl-statistics-basic} + puts stderr {Version: 1.6611} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Statistics::Basic - A collection of very basic statistics modules} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load perl-number-format/1.75-mtbc7p7 + module load perl-scalar-list-utils/1.63-h5c2n6d +} else { + depends-on perl/5.40.0-lzbctij + depends-on perl-number-format/1.75-mtbc7p7 + depends-on perl-scalar-list-utils/1.63-h5c2n6d +} +conflict perl-statistics-basic + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-statistics-basic-1.6611-265wn7qt3blf6wnpygslg2lgpd6x4h3p/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-statistics-basic-1.6611-265wn7qt3blf6wnpygslg2lgpd6x4h3p/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-statistics-basic-1.6611-265wn7qt3blf6wnpygslg2lgpd6x4h3p/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-statistics-basic-1.6611-265wn7qt3blf6wnpygslg2lgpd6x4h3p/lib/perl5} +setenv PERL_STATISTICS_BASIC_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-statistics-basic-1.6611-265wn7qt3blf6wnpygslg2lgpd6x4h3p} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-sub-exporter-progressive/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-sub-exporter-progressive/.modulerc new file mode 100644 index 00000000..a3591666 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-sub-exporter-progressive/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-sub-exporter-progressive/0.001013-efnpjii diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-sub-exporter-progressive/0.001013-efnpjii b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-sub-exporter-progressive/0.001013-efnpjii new file mode 100644 index 00000000..452dd7d3 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-sub-exporter-progressive/0.001013-efnpjii @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.881448 +## +## perl-sub-exporter-progressive@0.001013%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/efnpjii +## + + +module-whatis {Progressive Sub::Exporter} + +proc ModulesHelp { } { + puts stderr {Name : perl-sub-exporter-progressive} + puts stderr {Version: 0.001013} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Progressive Sub::Exporter} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-sub-exporter-progressive + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-sub-exporter-progressive-0.001013-efnpjii4i62jy7fkv4larqntvuox6hns/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-sub-exporter-progressive-0.001013-efnpjii4i62jy7fkv4larqntvuox6hns/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-sub-exporter-progressive-0.001013-efnpjii4i62jy7fkv4larqntvuox6hns/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-sub-exporter-progressive-0.001013-efnpjii4i62jy7fkv4larqntvuox6hns/lib/perl5} +setenv PERL_SUB_EXPORTER_PROGRESSIVE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-sub-exporter-progressive-0.001013-efnpjii4i62jy7fkv4larqntvuox6hns} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-sub-identify/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-sub-identify/.modulerc new file mode 100644 index 00000000..b32d969e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-sub-identify/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-sub-identify/0.14-mbwevo6 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-sub-identify/0.14-mbwevo6 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-sub-identify/0.14-mbwevo6 new file mode 100644 index 00000000..27b4a6a6 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-sub-identify/0.14-mbwevo6 @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.892653 +## +## perl-sub-identify@0.14%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/mbwevo6 +## + + +module-whatis {Retrieve names of code references} + +proc ModulesHelp { } { + puts stderr {Name : perl-sub-identify} + puts stderr {Version: 0.14} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Retrieve names of code references} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-sub-identify + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-sub-identify-0.14-mbwevo63igc4vcg7ac3e262c7u5betof/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-sub-identify-0.14-mbwevo63igc4vcg7ac3e262c7u5betof/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-sub-identify-0.14-mbwevo63igc4vcg7ac3e262c7u5betof/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-sub-identify-0.14-mbwevo63igc4vcg7ac3e262c7u5betof/lib/perl5} +setenv PERL_SUB_IDENTIFY_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-sub-identify-0.14-mbwevo63igc4vcg7ac3e262c7u5betof} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-sub-quote/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-sub-quote/.modulerc new file mode 100644 index 00000000..1eb5bedf --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-sub-quote/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-sub-quote/2.006008-7r6a3z3 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-sub-quote/2.006008-7r6a3z3 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-sub-quote/2.006008-7r6a3z3 new file mode 100644 index 00000000..36ec9ef0 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-sub-quote/2.006008-7r6a3z3 @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.903904 +## +## perl-sub-quote@2.006008%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/7r6a3z3 +## + + +module-whatis {Sub::Quote - Efficient generation of subroutines via string eval} + +proc ModulesHelp { } { + puts stderr {Name : perl-sub-quote} + puts stderr {Version: 2.006008} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Sub::Quote - Efficient generation of subroutines via string eval} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load perl-scalar-list-utils/1.63-h5c2n6d +} else { + depends-on perl/5.40.0-lzbctij + depends-on perl-scalar-list-utils/1.63-h5c2n6d +} +conflict perl-sub-quote + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-sub-quote-2.006008-7r6a3z3viqoynfnpogzowyaontizwfik/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-sub-quote-2.006008-7r6a3z3viqoynfnpogzowyaontizwfik/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-sub-quote-2.006008-7r6a3z3viqoynfnpogzowyaontizwfik/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-sub-quote-2.006008-7r6a3z3viqoynfnpogzowyaontizwfik/lib/perl5} +setenv PERL_SUB_QUOTE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-sub-quote-2.006008-7r6a3z3viqoynfnpogzowyaontizwfik} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-sub-uplevel/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-sub-uplevel/.modulerc new file mode 100644 index 00000000..82fd561d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-sub-uplevel/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-sub-uplevel/0.2800-qssqbsn diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-sub-uplevel/0.2800-qssqbsn b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-sub-uplevel/0.2800-qssqbsn new file mode 100644 index 00000000..c58e2558 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-sub-uplevel/0.2800-qssqbsn @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.916945 +## +## perl-sub-uplevel@0.2800%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/qssqbsn +## + + +module-whatis {apparently run a function in a higher stack frame} + +proc ModulesHelp { } { + puts stderr {Name : perl-sub-uplevel} + puts stderr {Version: 0.2800} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {apparently run a function in a higher stack frame} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-sub-uplevel + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-sub-uplevel-0.2800-qssqbsnb4agrkzg3syk3bb7333euwik2/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-sub-uplevel-0.2800-qssqbsnb4agrkzg3syk3bb7333euwik2/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-sub-uplevel-0.2800-qssqbsnb4agrkzg3syk3bb7333euwik2/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-sub-uplevel-0.2800-qssqbsnb4agrkzg3syk3bb7333euwik2/lib/perl5} +setenv PERL_SUB_UPLEVEL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-sub-uplevel-0.2800-qssqbsnb4agrkzg3syk3bb7333euwik2} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-svg/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-svg/.modulerc new file mode 100644 index 00000000..b3445ca1 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-svg/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-svg/2.87-mcus2f5 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-svg/2.87-mcus2f5 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-svg/2.87-mcus2f5 new file mode 100644 index 00000000..41651327 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-svg/2.87-mcus2f5 @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.928208 +## +## perl-svg@2.87%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/mcus2f5 +## + + +module-whatis {Perl extension for generating Scalable Vector Graphics (SVG) documents.} + +proc ModulesHelp { } { + puts stderr {Name : perl-svg} + puts stderr {Version: 2.87} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Perl extension for generating Scalable Vector Graphics (SVG) documents.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-svg + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-svg-2.87-mcus2f5naelhodshm6lm43mt6e7d4gij/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-svg-2.87-mcus2f5naelhodshm6lm43mt6e7d4gij/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-svg-2.87-mcus2f5naelhodshm6lm43mt6e7d4gij/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-svg-2.87-mcus2f5naelhodshm6lm43mt6e7d4gij/lib/perl5} +setenv PERL_SVG_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-svg-2.87-mcus2f5naelhodshm6lm43mt6e7d4gij} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-test-deep/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-test-deep/.modulerc new file mode 100644 index 00000000..f1f1b53c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-test-deep/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-test-deep/1.204-gmy5awh diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-test-deep/1.204-gmy5awh b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-test-deep/1.204-gmy5awh new file mode 100644 index 00000000..ef64f092 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-test-deep/1.204-gmy5awh @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.939460 +## +## perl-test-deep@1.204%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/gmy5awh +## + + +module-whatis {Extremely flexible deep comparison} + +proc ModulesHelp { } { + puts stderr {Name : perl-test-deep} + puts stderr {Version: 1.204} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Extremely flexible deep comparison} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-test-deep + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-test-deep-1.204-gmy5awhjbwzaxawiycowzxn5luex4lxk/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-test-deep-1.204-gmy5awhjbwzaxawiycowzxn5luex4lxk/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-test-deep-1.204-gmy5awhjbwzaxawiycowzxn5luex4lxk/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-test-deep-1.204-gmy5awhjbwzaxawiycowzxn5luex4lxk/lib/perl5} +setenv PERL_TEST_DEEP_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-test-deep-1.204-gmy5awhjbwzaxawiycowzxn5luex4lxk} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-test-differences/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-test-differences/.modulerc new file mode 100644 index 00000000..91140ab1 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-test-differences/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-test-differences/0.71-3uka5bk diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-test-differences/0.71-3uka5bk b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-test-differences/0.71-3uka5bk new file mode 100644 index 00000000..259869e6 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-test-differences/0.71-3uka5bk @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.950996 +## +## perl-test-differences@0.71%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/3uka5bk +## + + +module-whatis {Test strings and data structures and show differences if not ok} + +proc ModulesHelp { } { + puts stderr {Name : perl-test-differences} + puts stderr {Version: 0.71} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Test strings and data structures and show differences if not ok} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load perl-capture-tiny/0.48-avgxeiw + module load perl-text-diff/1.45-zickdx4 +} else { + depends-on perl/5.40.0-lzbctij + depends-on perl-capture-tiny/0.48-avgxeiw + depends-on perl-text-diff/1.45-zickdx4 +} +conflict perl-test-differences + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-test-differences-0.71-3uka5bk3opnzk3qfc3rnnasnouh3jhhy/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-test-differences-0.71-3uka5bk3opnzk3qfc3rnnasnouh3jhhy/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-test-differences-0.71-3uka5bk3opnzk3qfc3rnnasnouh3jhhy/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-test-differences-0.71-3uka5bk3opnzk3qfc3rnnasnouh3jhhy/lib/perl5} +setenv PERL_TEST_DIFFERENCES_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-test-differences-0.71-3uka5bk3opnzk3qfc3rnnasnouh3jhhy} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-test-exception/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-test-exception/.modulerc new file mode 100644 index 00000000..9b7c714b --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-test-exception/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-test-exception/0.43-pyd5kaw diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-test-exception/0.43-pyd5kaw b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-test-exception/0.43-pyd5kaw new file mode 100644 index 00000000..b65b966c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-test-exception/0.43-pyd5kaw @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.965775 +## +## perl-test-exception@0.43%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/pyd5kaw +## + + +module-whatis {Test exception-based code} + +proc ModulesHelp { } { + puts stderr {Name : perl-test-exception} + puts stderr {Version: 0.43} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Test exception-based code} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load perl-sub-uplevel/0.2800-qssqbsn +} else { + depends-on perl/5.40.0-lzbctij + depends-on perl-sub-uplevel/0.2800-qssqbsn +} +conflict perl-test-exception + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-test-exception-0.43-pyd5kaw4dyhdzxqwg44qqsgmrdegdbtb/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-test-exception-0.43-pyd5kaw4dyhdzxqwg44qqsgmrdegdbtb/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-test-exception-0.43-pyd5kaw4dyhdzxqwg44qqsgmrdegdbtb/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-test-exception-0.43-pyd5kaw4dyhdzxqwg44qqsgmrdegdbtb/lib/perl5} +setenv PERL_TEST_EXCEPTION_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-test-exception-0.43-pyd5kaw4dyhdzxqwg44qqsgmrdegdbtb} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-test-fatal/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-test-fatal/.modulerc new file mode 100644 index 00000000..7c1a239b --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-test-fatal/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-test-fatal/0.017-2n6ftep diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-test-fatal/0.017-2n6ftep b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-test-fatal/0.017-2n6ftep new file mode 100644 index 00000000..732a8c3d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-test-fatal/0.017-2n6ftep @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.978782 +## +## perl-test-fatal@0.017%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/2n6ftep +## + + +module-whatis {Incredibly simple helpers for testing code with exceptions} + +proc ModulesHelp { } { + puts stderr {Name : perl-test-fatal} + puts stderr {Version: 0.017} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Incredibly simple helpers for testing code with exceptions} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load perl-try-tiny/0.31-voibp7l +} else { + depends-on perl/5.40.0-lzbctij + depends-on perl-try-tiny/0.31-voibp7l +} +conflict perl-test-fatal + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-test-fatal-0.017-2n6ftep5ymg4ifra4j4e2ya6i247vyao/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-test-fatal-0.017-2n6ftep5ymg4ifra4j4e2ya6i247vyao/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-test-fatal-0.017-2n6ftep5ymg4ifra4j4e2ya6i247vyao/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-test-fatal-0.017-2n6ftep5ymg4ifra4j4e2ya6i247vyao/lib/perl5} +setenv PERL_TEST_FATAL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-test-fatal-0.017-2n6ftep5ymg4ifra4j4e2ya6i247vyao} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-test-memory-cycle/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-test-memory-cycle/.modulerc new file mode 100644 index 00000000..258308af --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-test-memory-cycle/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-test-memory-cycle/1.06-ve42nbq diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-test-memory-cycle/1.06-ve42nbq b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-test-memory-cycle/1.06-ve42nbq new file mode 100644 index 00000000..842b3896 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-test-memory-cycle/1.06-ve42nbq @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:53.991693 +## +## perl-test-memory-cycle@1.06%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/ve42nbq +## + + +module-whatis {Check for memory leaks and circular memory references} + +proc ModulesHelp { } { + puts stderr {Name : perl-test-memory-cycle} + puts stderr {Version: 1.06} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Check for memory leaks and circular memory references} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load perl-devel-cycle/1.12-vmrt3yy + module load perl-padwalker/2.5-pas54jd +} else { + depends-on perl/5.40.0-lzbctij + depends-on perl-devel-cycle/1.12-vmrt3yy + depends-on perl-padwalker/2.5-pas54jd +} +conflict perl-test-memory-cycle + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-test-memory-cycle-1.06-ve42nbqdqkibfswwiahermh4koxjzvy2/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-test-memory-cycle-1.06-ve42nbqdqkibfswwiahermh4koxjzvy2/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-test-memory-cycle-1.06-ve42nbqdqkibfswwiahermh4koxjzvy2/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-test-memory-cycle-1.06-ve42nbqdqkibfswwiahermh4koxjzvy2/lib/perl5} +setenv PERL_TEST_MEMORY_CYCLE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-test-memory-cycle-1.06-ve42nbqdqkibfswwiahermh4koxjzvy2} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-test-most/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-test-most/.modulerc new file mode 100644 index 00000000..3eb391c9 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-test-most/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-test-most/0.38-4pll5wx diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-test-most/0.38-4pll5wx b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-test-most/0.38-4pll5wx new file mode 100644 index 00000000..eefa802b --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-test-most/0.38-4pll5wx @@ -0,0 +1,80 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.006009 +## +## perl-test-most@0.38%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/4pll5wx +## + + +module-whatis {Most commonly needed test functions and features.} + +proc ModulesHelp { } { + puts stderr {Name : perl-test-most} + puts stderr {Version: 0.38} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Most commonly needed test functions and features.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load perl-exception-class/1.45-ashse2v + module load perl-test-deep/1.204-gmy5awh + module load perl-test-differences/0.71-3uka5bk + module load perl-test-exception/0.43-pyd5kaw + module load perl-test-warn/0.37-umyvksc +} else { + depends-on perl/5.40.0-lzbctij + depends-on perl-exception-class/1.45-ashse2v + depends-on perl-test-deep/1.204-gmy5awh + depends-on perl-test-differences/0.71-3uka5bk + depends-on perl-test-exception/0.43-pyd5kaw + depends-on perl-test-warn/0.37-umyvksc +} +conflict perl-test-most + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-test-most-0.38-4pll5wxxqptpnhuefvjsdim4dv64efni/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-test-most-0.38-4pll5wxxqptpnhuefvjsdim4dv64efni/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-test-most-0.38-4pll5wxxqptpnhuefvjsdim4dv64efni/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-test-most-0.38-4pll5wxxqptpnhuefvjsdim4dv64efni/lib/perl5} +setenv PERL_TEST_MOST_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-test-most-0.38-4pll5wxxqptpnhuefvjsdim4dv64efni} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-test-requires/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-test-requires/.modulerc new file mode 100644 index 00000000..187daa03 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-test-requires/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-test-requires/0.11-xe6hiht diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-test-requires/0.11-xe6hiht b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-test-requires/0.11-xe6hiht new file mode 100644 index 00000000..a1aabd03 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-test-requires/0.11-xe6hiht @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.028255 +## +## perl-test-requires@0.11%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/xe6hiht +## + + +module-whatis {Checks to see if the module can be loaded.} + +proc ModulesHelp { } { + puts stderr {Name : perl-test-requires} + puts stderr {Version: 0.11} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Checks to see if the module can be loaded.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-test-requires + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-test-requires-0.11-xe6hihtxxl4pvf3wgty7dv56hjfp2r4v/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-test-requires-0.11-xe6hihtxxl4pvf3wgty7dv56hjfp2r4v/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-test-requires-0.11-xe6hihtxxl4pvf3wgty7dv56hjfp2r4v/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-test-requires-0.11-xe6hihtxxl4pvf3wgty7dv56hjfp2r4v/lib/perl5} +setenv PERL_TEST_REQUIRES_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-test-requires-0.11-xe6hihtxxl4pvf3wgty7dv56hjfp2r4v} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-test-requiresinternet/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-test-requiresinternet/.modulerc new file mode 100644 index 00000000..94fb61a9 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-test-requiresinternet/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-test-requiresinternet/0.05-ot5zt4s diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-test-requiresinternet/0.05-ot5zt4s b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-test-requiresinternet/0.05-ot5zt4s new file mode 100644 index 00000000..6919b033 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-test-requiresinternet/0.05-ot5zt4s @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.039789 +## +## perl-test-requiresinternet@0.05%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/ot5zt4s +## + + +module-whatis {Easily test network connectivity} + +proc ModulesHelp { } { + puts stderr {Name : perl-test-requiresinternet} + puts stderr {Version: 0.05} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Easily test network connectivity} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-test-requiresinternet + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-test-requiresinternet-0.05-ot5zt4syxpzmmihoewtptu4neihz4jcl/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-test-requiresinternet-0.05-ot5zt4syxpzmmihoewtptu4neihz4jcl/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-test-requiresinternet-0.05-ot5zt4syxpzmmihoewtptu4neihz4jcl/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-test-requiresinternet-0.05-ot5zt4syxpzmmihoewtptu4neihz4jcl/lib/perl5} +setenv PERL_TEST_REQUIRESINTERNET_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-test-requiresinternet-0.05-ot5zt4syxpzmmihoewtptu4neihz4jcl} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-test-warn/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-test-warn/.modulerc new file mode 100644 index 00000000..9618461e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-test-warn/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-test-warn/0.37-umyvksc diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-test-warn/0.37-umyvksc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-test-warn/0.37-umyvksc new file mode 100644 index 00000000..4ffd0752 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-test-warn/0.37-umyvksc @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.051259 +## +## perl-test-warn@0.37%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/umyvksc +## + + +module-whatis {Perl extension to test methods for warnings} + +proc ModulesHelp { } { + puts stderr {Name : perl-test-warn} + puts stderr {Version: 0.37} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Perl extension to test methods for warnings} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load perl-sub-uplevel/0.2800-qssqbsn +} else { + depends-on perl/5.40.0-lzbctij + depends-on perl-sub-uplevel/0.2800-qssqbsn +} +conflict perl-test-warn + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-test-warn-0.37-umyvkscugvb7cyhxjthczekfz5ruzrrf/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-test-warn-0.37-umyvkscugvb7cyhxjthczekfz5ruzrrf/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-test-warn-0.37-umyvkscugvb7cyhxjthczekfz5ruzrrf/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-test-warn-0.37-umyvkscugvb7cyhxjthczekfz5ruzrrf/lib/perl5} +setenv PERL_TEST_WARN_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-test-warn-0.37-umyvkscugvb7cyhxjthczekfz5ruzrrf} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-text-diff/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-text-diff/.modulerc new file mode 100644 index 00000000..d43c9dba --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-text-diff/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-text-diff/1.45-zickdx4 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-text-diff/1.45-zickdx4 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-text-diff/1.45-zickdx4 new file mode 100644 index 00000000..14e356d9 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-text-diff/1.45-zickdx4 @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.064254 +## +## perl-text-diff@1.45%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/zickdx4 +## + + +module-whatis {Provides a basic set of services akin to the GNU diff utility.} + +proc ModulesHelp { } { + puts stderr {Name : perl-text-diff} + puts stderr {Version: 1.45} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Provides a basic set of services akin to the GNU diff utility.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load perl-algorithm-diff/1.1903-gqe7mah +} else { + depends-on perl/5.40.0-lzbctij + depends-on perl-algorithm-diff/1.1903-gqe7mah +} +conflict perl-text-diff + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-text-diff-1.45-zickdx42wjw74sntjcncuyattnpyuwj3/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-text-diff-1.45-zickdx42wjw74sntjcncuyattnpyuwj3/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-text-diff-1.45-zickdx42wjw74sntjcncuyattnpyuwj3/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-text-diff-1.45-zickdx42wjw74sntjcncuyattnpyuwj3/lib/perl5} +setenv PERL_TEXT_DIFF_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-text-diff-1.45-zickdx42wjw74sntjcncuyattnpyuwj3} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-text-format/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-text-format/.modulerc new file mode 100644 index 00000000..d11a6147 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-text-format/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-text-format/0.62-qv2xewz diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-text-format/0.62-qv2xewz b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-text-format/0.62-qv2xewz new file mode 100644 index 00000000..d5cd25dc --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-text-format/0.62-qv2xewz @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.077036 +## +## perl-text-format@0.62%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/qv2xewz +## + + +module-whatis {Text::Format - Various subroutines to format text} + +proc ModulesHelp { } { + puts stderr {Name : perl-text-format} + puts stderr {Version: 0.62} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Text::Format - Various subroutines to format text} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-text-format + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-text-format-0.62-qv2xewzpex2t3gyoklhw24hece2mrdoa/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-text-format-0.62-qv2xewzpex2t3gyoklhw24hece2mrdoa/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-text-format-0.62-qv2xewzpex2t3gyoklhw24hece2mrdoa/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-text-format-0.62-qv2xewzpex2t3gyoklhw24hece2mrdoa/lib/perl5} +setenv PERL_TEXT_FORMAT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-text-format-0.62-qv2xewzpex2t3gyoklhw24hece2mrdoa} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-text-nsp/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-text-nsp/.modulerc new file mode 100644 index 00000000..0004cfab --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-text-nsp/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-text-nsp/1.31-6brg4kp diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-text-nsp/1.31-6brg4kp b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-text-nsp/1.31-6brg4kp new file mode 100644 index 00000000..60007e15 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-text-nsp/1.31-6brg4kp @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.088310 +## +## perl-text-nsp@1.31%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/6brg4kp +## + + +module-whatis { The Ngram Statistics Package (NSP) is a suite of programs that aids in analyzing Ngrams in text files. } + +proc ModulesHelp { } { + puts stderr {Name : perl-text-nsp} + puts stderr {Version: 1.31} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr { The Ngram Statistics Package (NSP) is a suite of programs that aids in} + puts stderr {analyzing Ngrams in text files.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-text-nsp + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-text-nsp-1.31-6brg4kpd2yh54ikt7hq4sakcnmj5ttxs/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-text-nsp-1.31-6brg4kpd2yh54ikt7hq4sakcnmj5ttxs/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-text-nsp-1.31-6brg4kpd2yh54ikt7hq4sakcnmj5ttxs/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-text-nsp-1.31-6brg4kpd2yh54ikt7hq4sakcnmj5ttxs/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-text-nsp-1.31-6brg4kpd2yh54ikt7hq4sakcnmj5ttxs/lib/perl5} +setenv PERL_TEXT_NSP_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-text-nsp-1.31-6brg4kpd2yh54ikt7hq4sakcnmj5ttxs} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-text-soundex/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-text-soundex/.modulerc new file mode 100644 index 00000000..98fac981 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-text-soundex/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-text-soundex/3.05-osjgx3p diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-text-soundex/3.05-osjgx3p b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-text-soundex/3.05-osjgx3p new file mode 100644 index 00000000..f599b986 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-text-soundex/3.05-osjgx3p @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.099618 +## +## perl-text-soundex@3.05%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/osjgx3p +## + + +module-whatis {Soundex is a phonetic algorithm for indexing names by sound, as pronounced in English. The goal is for names with the same pronunciation to be encoded to the same representation so that they can be matched despite minor differences in spelling} + +proc ModulesHelp { } { + puts stderr {Name : perl-text-soundex} + puts stderr {Version: 3.05} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Soundex is a phonetic algorithm for indexing names by sound, as} + puts stderr {pronounced in English. The goal is for names with the same pronunciation} + puts stderr {to be encoded to the same representation so that they can be matched} + puts stderr {despite minor differences in spelling} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-text-soundex + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-text-soundex-3.05-osjgx3pfpmfddqnsrtriu4nsrmfh2d52/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-text-soundex-3.05-osjgx3pfpmfddqnsrtriu4nsrmfh2d52/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-text-soundex-3.05-osjgx3pfpmfddqnsrtriu4nsrmfh2d52/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-text-soundex-3.05-osjgx3pfpmfddqnsrtriu4nsrmfh2d52/lib/perl5} +setenv PERL_TEXT_SOUNDEX_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-text-soundex-3.05-osjgx3pfpmfddqnsrtriu4nsrmfh2d52} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-thread-queue/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-thread-queue/.modulerc new file mode 100644 index 00000000..4b7ba322 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-thread-queue/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-thread-queue/3.13-624gumz diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-thread-queue/3.13-624gumz b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-thread-queue/3.13-624gumz new file mode 100644 index 00000000..3c92ddc3 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-thread-queue/3.13-624gumz @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.111144 +## +## perl-thread-queue@3.13%gcc@11.4.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/624gumz +## + + +module-whatis {Thread::Queue - Thread-safe queues.} + +proc ModulesHelp { } { + puts stderr {Name : perl-thread-queue} + puts stderr {Version: 3.13} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Thread::Queue - Thread-safe queues. This module provides thread-safe} + puts stderr {FIFO queues that can be accessed safely by any number of threads.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.38.0-okr2qfj +} else { + depends-on perl/5.38.0-okr2qfj +} +conflict perl-thread-queue + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-thread-queue-3.13-624gumz5g2lqkm6sqguitcyjhkuzpev7/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-thread-queue-3.13-624gumz5g2lqkm6sqguitcyjhkuzpev7/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-thread-queue-3.13-624gumz5g2lqkm6sqguitcyjhkuzpev7/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-thread-queue-3.13-624gumz5g2lqkm6sqguitcyjhkuzpev7/lib/perl5} +setenv PERL_THREAD_QUEUE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-thread-queue-3.13-624gumz5g2lqkm6sqguitcyjhkuzpev7} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-threads/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-threads/.modulerc new file mode 100644 index 00000000..b9df729f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-threads/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-threads/2.21-bc4dbxw diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-threads/2.21-bc4dbxw b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-threads/2.21-bc4dbxw new file mode 100644 index 00000000..3f250c9e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-threads/2.21-bc4dbxw @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.121247 +## +## perl-threads@2.21%gcc@11.4.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/bc4dbxw +## + + +module-whatis {threads - Perl interpreter-based threads} + +proc ModulesHelp { } { + puts stderr {Name : perl-threads} + puts stderr {Version: 2.21} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {threads - Perl interpreter-based threads} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.38.0-okr2qfj +} else { + depends-on perl/5.38.0-okr2qfj +} +conflict perl-threads + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-threads-2.21-bc4dbxwtcqmnh6cnpw26swpc53erxil2/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-threads-2.21-bc4dbxwtcqmnh6cnpw26swpc53erxil2/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-threads-2.21-bc4dbxwtcqmnh6cnpw26swpc53erxil2/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-threads-2.21-bc4dbxwtcqmnh6cnpw26swpc53erxil2/lib/perl5} +setenv PERL_THREADS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-threads-2.21-bc4dbxwtcqmnh6cnpw26swpc53erxil2} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-time-hires/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-time-hires/.modulerc new file mode 100644 index 00000000..46808ad0 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-time-hires/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-time-hires/1.9758-m54hiwg diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-time-hires/1.9758-m54hiwg b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-time-hires/1.9758-m54hiwg new file mode 100644 index 00000000..98733254 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-time-hires/1.9758-m54hiwg @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.131320 +## +## perl-time-hires@1.9758%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/m54hiwg +## + + +module-whatis {High resolution alarm, sleep, gettimeofday, interval timers} + +proc ModulesHelp { } { + puts stderr {Name : perl-time-hires} + puts stderr {Version: 1.9758} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {High resolution alarm, sleep, gettimeofday, interval timers} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-time-hires + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-time-hires-1.9758-m54hiwgjydyhpddg7otrs7qctvceycpl/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-time-hires-1.9758-m54hiwgjydyhpddg7otrs7qctvceycpl/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-time-hires-1.9758-m54hiwgjydyhpddg7otrs7qctvceycpl/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-time-hires-1.9758-m54hiwgjydyhpddg7otrs7qctvceycpl/lib/perl5} +setenv PERL_TIME_HIRES_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-time-hires-1.9758-m54hiwgjydyhpddg7otrs7qctvceycpl} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-timedate/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-timedate/.modulerc new file mode 100644 index 00000000..3ad21dd5 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-timedate/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-timedate/2.33-pdpr62y diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-timedate/2.33-pdpr62y b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-timedate/2.33-pdpr62y new file mode 100644 index 00000000..3bdb66ff --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-timedate/2.33-pdpr62y @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.142581 +## +## perl-timedate@2.33%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/pdpr62y +## + + +module-whatis {The parser contained here will only parse absolute dates, if you want a date parser that can parse relative dates then take a look at the Time modules by David Muir on CPAN.} + +proc ModulesHelp { } { + puts stderr {Name : perl-timedate} + puts stderr {Version: 2.33} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The parser contained here will only parse absolute dates, if you want a} + puts stderr {date parser that can parse relative dates then take a look at the Time} + puts stderr {modules by David Muir on CPAN.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-timedate + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-timedate-2.33-pdpr62yz5slq7x2kbyhrt6hr6dsnhzry/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-timedate-2.33-pdpr62yz5slq7x2kbyhrt6hr6dsnhzry/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-timedate-2.33-pdpr62yz5slq7x2kbyhrt6hr6dsnhzry/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-timedate-2.33-pdpr62yz5slq7x2kbyhrt6hr6dsnhzry/lib/perl5} +setenv PERL_TIMEDATE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-timedate-2.33-pdpr62yz5slq7x2kbyhrt6hr6dsnhzry} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-try-tiny/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-try-tiny/.modulerc new file mode 100644 index 00000000..645c090b --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-try-tiny/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-try-tiny/0.31-voibp7l diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-try-tiny/0.31-voibp7l b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-try-tiny/0.31-voibp7l new file mode 100644 index 00000000..f3fc769b --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-try-tiny/0.31-voibp7l @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.154006 +## +## perl-try-tiny@0.31%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/voibp7l +## + + +module-whatis {Minimal try/catch with proper preservation of $@} + +proc ModulesHelp { } { + puts stderr {Name : perl-try-tiny} + puts stderr {Version: 0.31} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Minimal try/catch with proper preservation of $@} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-try-tiny + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-try-tiny-0.31-voibp7ljfax4qiybk2m3gtda3qhmml2g/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-try-tiny-0.31-voibp7ljfax4qiybk2m3gtda3qhmml2g/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-try-tiny-0.31-voibp7ljfax4qiybk2m3gtda3qhmml2g/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-try-tiny-0.31-voibp7ljfax4qiybk2m3gtda3qhmml2g/lib/perl5} +setenv PERL_TRY_TINY_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-try-tiny-0.31-voibp7ljfax4qiybk2m3gtda3qhmml2g} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-types-serialiser/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-types-serialiser/.modulerc new file mode 100644 index 00000000..bad1d7b4 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-types-serialiser/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-types-serialiser/1.01-bovcrky diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-types-serialiser/1.01-bovcrky b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-types-serialiser/1.01-bovcrky new file mode 100644 index 00000000..844efb08 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-types-serialiser/1.01-bovcrky @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.165352 +## +## perl-types-serialiser@1.01%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/bovcrky +## + + +module-whatis {Simple data types for common serialisation formats} + +proc ModulesHelp { } { + puts stderr {Name : perl-types-serialiser} + puts stderr {Version: 1.01} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Simple data types for common serialisation formats} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load perl-common-sense/3.75-cj4o65i +} else { + depends-on perl/5.40.0-lzbctij + depends-on perl-common-sense/3.75-cj4o65i +} +conflict perl-types-serialiser + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-types-serialiser-1.01-bovcrkyc4oap7hvmpaiqsldjv4u2yont/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-types-serialiser-1.01-bovcrkyc4oap7hvmpaiqsldjv4u2yont/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-types-serialiser-1.01-bovcrkyc4oap7hvmpaiqsldjv4u2yont/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-types-serialiser-1.01-bovcrkyc4oap7hvmpaiqsldjv4u2yont/lib/perl5} +setenv PERL_TYPES_SERIALISER_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-types-serialiser-1.01-bovcrkyc4oap7hvmpaiqsldjv4u2yont} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-uri/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-uri/.modulerc new file mode 100644 index 00000000..65f1b0b8 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-uri/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-uri/5.08-d7o47om diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-uri/5.08-d7o47om b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-uri/5.08-d7o47om new file mode 100644 index 00000000..c15eff80 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-uri/5.08-d7o47om @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.178423 +## +## perl-uri@5.08%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/d7o47om +## + + +module-whatis {Uniform Resource Identifiers (absolute and relative)} + +proc ModulesHelp { } { + puts stderr {Name : perl-uri} + puts stderr {Version: 5.08} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Uniform Resource Identifiers (absolute and relative)} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-uri + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-uri-5.08-d7o47omwi4hvslygxppmzijnqlqmbbp3/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-uri-5.08-d7o47omwi4hvslygxppmzijnqlqmbbp3/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-uri-5.08-d7o47omwi4hvslygxppmzijnqlqmbbp3/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-uri-5.08-d7o47omwi4hvslygxppmzijnqlqmbbp3/lib/perl5} +setenv PERL_URI_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-uri-5.08-d7o47omwi4hvslygxppmzijnqlqmbbp3} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-www-robotrules/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-www-robotrules/.modulerc new file mode 100644 index 00000000..d329cbd8 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-www-robotrules/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-www-robotrules/6.02-kjfudrh diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-www-robotrules/6.02-kjfudrh b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-www-robotrules/6.02-kjfudrh new file mode 100644 index 00000000..f0b323d4 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-www-robotrules/6.02-kjfudrh @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.189706 +## +## perl-www-robotrules@6.02%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/kjfudrh +## + + +module-whatis {Database of robots.txt-derived permissions} + +proc ModulesHelp { } { + puts stderr {Name : perl-www-robotrules} + puts stderr {Version: 6.02} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Database of robots.txt-derived permissions} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load perl-uri/5.08-d7o47om +} else { + depends-on perl/5.40.0-lzbctij + depends-on perl-uri/5.08-d7o47om +} +conflict perl-www-robotrules + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-www-robotrules-6.02-kjfudrhwaiclirqqoaz3eglwxgctktzy/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-www-robotrules-6.02-kjfudrhwaiclirqqoaz3eglwxgctktzy/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-www-robotrules-6.02-kjfudrhwaiclirqqoaz3eglwxgctktzy/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-www-robotrules-6.02-kjfudrhwaiclirqqoaz3eglwxgctktzy/lib/perl5} +setenv PERL_WWW_ROBOTRULES_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-www-robotrules-6.02-kjfudrhwaiclirqqoaz3eglwxgctktzy} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-dom-xpath/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-dom-xpath/.modulerc new file mode 100644 index 00000000..31b3bebf --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-dom-xpath/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-xml-dom-xpath/0.14-nko5nhw diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-dom-xpath/0.14-nko5nhw b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-dom-xpath/0.14-nko5nhw new file mode 100644 index 00000000..f1101eb6 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-dom-xpath/0.14-nko5nhw @@ -0,0 +1,75 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.228289 +## +## perl-xml-dom-xpath@0.14%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/nko5nhw +## + + +module-whatis {XML::DOM::XPath allows you to use XML::XPath methods to query a DOM. This is often much easier than relying only on getElementsByTagName.} + +proc ModulesHelp { } { + puts stderr {Name : perl-xml-dom-xpath} + puts stderr {Version: 0.14} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {XML::DOM::XPath allows you to use XML::XPath methods to query a DOM.} + puts stderr {This is often much easier than relying only on getElementsByTagName.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load perl-xml-dom/1.46-zcsjlow + module load perl-xml-xpathengine/0.14-5djaisy +} else { + depends-on perl/5.40.0-lzbctij + depends-on perl-xml-dom/1.46-zcsjlow + depends-on perl-xml-xpathengine/0.14-5djaisy +} +conflict perl-xml-dom-xpath + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-dom-xpath-0.14-nko5nhwxkyejguvfwqyxrqpbj2t4y2wr/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-dom-xpath-0.14-nko5nhwxkyejguvfwqyxrqpbj2t4y2wr/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-dom-xpath-0.14-nko5nhwxkyejguvfwqyxrqpbj2t4y2wr/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-dom-xpath-0.14-nko5nhwxkyejguvfwqyxrqpbj2t4y2wr/lib/perl5} +setenv PERL_XML_DOM_XPATH_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-dom-xpath-0.14-nko5nhwxkyejguvfwqyxrqpbj2t4y2wr} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-dom/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-dom/.modulerc new file mode 100644 index 00000000..87cbd5bf --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-dom/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-xml-dom/1.46-zcsjlow diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-dom/1.46-zcsjlow b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-dom/1.46-zcsjlow new file mode 100644 index 00000000..56718baa --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-dom/1.46-zcsjlow @@ -0,0 +1,80 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.202494 +## +## perl-xml-dom@1.46%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/zcsjlow +## + + +module-whatis {This module extends the XML::Parser module by Clark Cooper. The XML::Parser module is built on top of XML::Parser::Expat, which is a lower level interface to James Clark's expat library.} + +proc ModulesHelp { } { + puts stderr {Name : perl-xml-dom} + puts stderr {Version: 1.46} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {This module extends the XML::Parser module by Clark Cooper. The} + puts stderr {XML::Parser module is built on top of XML::Parser::Expat, which is a} + puts stderr {lower level interface to James Clark's expat library.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load perl-libwww-perl/6.68-hsaecxw + module load perl-libxml-perl/0.08-vurv5vo + module load perl-xml-parser/2.47-uotde6y + module load perl-xml-regexp/0.04-cid4qgl +} else { + depends-on perl/5.40.0-lzbctij + depends-on perl-libwww-perl/6.68-hsaecxw + depends-on perl-libxml-perl/0.08-vurv5vo + depends-on perl-xml-parser/2.47-uotde6y + depends-on perl-xml-regexp/0.04-cid4qgl +} +conflict perl-xml-dom + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-dom-1.46-zcsjlowsu3jqxsq4ivwxcffjgtiqhxsx/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-dom-1.46-zcsjlowsu3jqxsq4ivwxcffjgtiqhxsx/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-dom-1.46-zcsjlowsu3jqxsq4ivwxcffjgtiqhxsx/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-dom-1.46-zcsjlowsu3jqxsq4ivwxcffjgtiqhxsx/lib/perl5} +setenv PERL_XML_DOM_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-dom-1.46-zcsjlowsu3jqxsq4ivwxcffjgtiqhxsx} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-filter-buffertext/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-filter-buffertext/.modulerc new file mode 100644 index 00000000..539fd465 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-filter-buffertext/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-xml-filter-buffertext/1.01-nait7dy diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-filter-buffertext/1.01-nait7dy b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-filter-buffertext/1.01-nait7dy new file mode 100644 index 00000000..6dd71af6 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-filter-buffertext/1.01-nait7dy @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.252615 +## +## perl-xml-filter-buffertext@1.01%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/nait7dy +## + + +module-whatis {This is a very simple filter. One common cause of grief (and programmer error) is that XML parsers aren't required to provide character events in one chunk. They can, but are not forced to, and most don't. This filter does the trivial but oft-repeated task of putting all characters into a single event.} + +proc ModulesHelp { } { + puts stderr {Name : perl-xml-filter-buffertext} + puts stderr {Version: 1.01} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {This is a very simple filter. One common cause of grief (and programmer} + puts stderr {error) is that XML parsers aren't required to provide character events} + puts stderr {in one chunk. They can, but are not forced to, and most don't. This} + puts stderr {filter does the trivial but oft-repeated task of putting all characters} + puts stderr {into a single event.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-xml-filter-buffertext + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-filter-buffertext-1.01-nait7dymlbgblpr7tkmkc3evzabnyioe/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-filter-buffertext-1.01-nait7dymlbgblpr7tkmkc3evzabnyioe/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-filter-buffertext-1.01-nait7dymlbgblpr7tkmkc3evzabnyioe/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-filter-buffertext-1.01-nait7dymlbgblpr7tkmkc3evzabnyioe/lib/perl5} +setenv PERL_XML_FILTER_BUFFERTEXT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-filter-buffertext-1.01-nait7dymlbgblpr7tkmkc3evzabnyioe} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-libxml/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-libxml/.modulerc new file mode 100644 index 00000000..6cd22558 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-libxml/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-xml-libxml/2.0210-rqqhzqw diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-libxml/2.0210-rqqhzqw b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-libxml/2.0210-rqqhzqw new file mode 100644 index 00000000..32079d95 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-libxml/2.0210-rqqhzqw @@ -0,0 +1,81 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.264019 +## +## perl-xml-libxml@2.0210%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/rqqhzqw +## + + +module-whatis {This module is an interface to libxml2, providing XML and HTML parsers with DOM, SAX and XMLReader interfaces, a large subset of DOM Layer 3 interface and a XML::XPath-like interface to XPath API of libxml2. The module is split into several packages which are not described in this section; unless stated otherwise, you only need to use XML::LibXML; in your programs.} + +proc ModulesHelp { } { + puts stderr {Name : perl-xml-libxml} + puts stderr {Version: 2.0210} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {This module is an interface to libxml2, providing XML and HTML parsers} + puts stderr {with DOM, SAX and XMLReader interfaces, a large subset of DOM Layer 3} + puts stderr {interface and a XML::XPath-like interface to XPath API of libxml2. The} + puts stderr {module is split into several packages which are not described in this} + puts stderr {section; unless stated otherwise, you only need to use XML::LibXML; in} + puts stderr {your programs.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load perl-xml-namespacesupport/1.12_9-rc4xuz5 + module load perl-xml-sax/1.02-ner6hhv + module load perl-xml-sax-base/1.09-ulcgtlz +} else { + depends-on perl/5.40.0-lzbctij + depends-on perl-xml-namespacesupport/1.12_9-rc4xuz5 + depends-on perl-xml-sax/1.02-ner6hhv + depends-on perl-xml-sax-base/1.09-ulcgtlz +} +conflict perl-xml-libxml + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-libxml-2.0210-rqqhzqwfc36gzfkphkkoqmk252k7g336/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-libxml-2.0210-rqqhzqwfc36gzfkphkkoqmk252k7g336/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-libxml-2.0210-rqqhzqwfc36gzfkphkkoqmk252k7g336/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-libxml-2.0210-rqqhzqwfc36gzfkphkkoqmk252k7g336/lib/perl5} +setenv PERL_XML_LIBXML_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-libxml-2.0210-rqqhzqwfc36gzfkphkkoqmk252k7g336} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-namespacesupport/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-namespacesupport/.modulerc new file mode 100644 index 00000000..ebafa752 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-namespacesupport/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-xml-namespacesupport/1.12_9-rc4xuz5 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-namespacesupport/1.12_9-rc4xuz5 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-namespacesupport/1.12_9-rc4xuz5 new file mode 100644 index 00000000..15586f5d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-namespacesupport/1.12_9-rc4xuz5 @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.281200 +## +## perl-xml-namespacesupport@1.12_9%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/rc4xuz5 +## + + +module-whatis {This module offers a simple to process namespaced XML names (unames) from within any application that may need them. It also helps maintain a prefix to namespace URI map, and provides a number of basic checks.} + +proc ModulesHelp { } { + puts stderr {Name : perl-xml-namespacesupport} + puts stderr {Version: 1.12_9} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {This module offers a simple to process namespaced XML names (unames)} + puts stderr {from within any application that may need them. It also helps maintain a} + puts stderr {prefix to namespace URI map, and provides a number of basic checks.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-xml-namespacesupport + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-namespacesupport-1.12_9-rc4xuz5drpmaxx65vyppejnacs2uqxrs/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-namespacesupport-1.12_9-rc4xuz5drpmaxx65vyppejnacs2uqxrs/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-namespacesupport-1.12_9-rc4xuz5drpmaxx65vyppejnacs2uqxrs/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-namespacesupport-1.12_9-rc4xuz5drpmaxx65vyppejnacs2uqxrs/lib/perl5} +setenv PERL_XML_NAMESPACESUPPORT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-namespacesupport-1.12_9-rc4xuz5drpmaxx65vyppejnacs2uqxrs} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-parser/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-parser/.modulerc new file mode 100644 index 00000000..4f25f051 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-parser/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-xml-parser/2.47-uotde6y diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-parser/2.47-uotde6y b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-parser/2.47-uotde6y new file mode 100644 index 00000000..391abf93 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-parser/2.47-uotde6y @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.292535 +## +## perl-xml-parser@2.47%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/uotde6y +## +## Configure options: EXPATLIBPATH=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/expat-2.6.4-zrieukekssfaket6eoftkam5jh6n2w23/lib EXPATINCPATH=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/expat-2.6.4-zrieukekssfaket6eoftkam5jh6n2w23/include +## + + +module-whatis {XML::Parser - A perl module for parsing XML documents} + +proc ModulesHelp { } { + puts stderr {Name : perl-xml-parser} + puts stderr {Version: 2.47} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {XML::Parser - A perl module for parsing XML documents} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load perl-libwww-perl/6.68-hsaecxw +} else { + depends-on perl/5.40.0-lzbctij + depends-on perl-libwww-perl/6.68-hsaecxw +} +conflict perl-xml-parser + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-parser-2.47-uotde6ynf6siu54qu6eruiaeunvshcfe/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-parser-2.47-uotde6ynf6siu54qu6eruiaeunvshcfe/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-parser-2.47-uotde6ynf6siu54qu6eruiaeunvshcfe/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-parser-2.47-uotde6ynf6siu54qu6eruiaeunvshcfe/lib/perl5} +setenv PERL_XML_PARSER_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-parser-2.47-uotde6ynf6siu54qu6eruiaeunvshcfe} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-regexp/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-regexp/.modulerc new file mode 100644 index 00000000..e440fe22 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-regexp/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-xml-regexp/0.04-cid4qgl diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-regexp/0.04-cid4qgl b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-regexp/0.04-cid4qgl new file mode 100644 index 00000000..d73be46f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-regexp/0.04-cid4qgl @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.313561 +## +## perl-xml-regexp@0.04%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/cid4qgl +## + + +module-whatis {This package contains regular expressions for the following XML tokens: BaseChar, Ideographic, Letter, Digit, Extender, CombiningChar, NameChar, EntityRef, CharRef, Reference, Name, NmToken, and AttValue.} + +proc ModulesHelp { } { + puts stderr {Name : perl-xml-regexp} + puts stderr {Version: 0.04} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {This package contains regular expressions for the following XML tokens:} + puts stderr {BaseChar, Ideographic, Letter, Digit, Extender, CombiningChar, NameChar,} + puts stderr {EntityRef, CharRef, Reference, Name, NmToken, and AttValue.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-xml-regexp + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-regexp-0.04-cid4qglgcqq4xadc2m6we6zvr22h5522/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-regexp-0.04-cid4qglgcqq4xadc2m6we6zvr22h5522/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-regexp-0.04-cid4qglgcqq4xadc2m6we6zvr22h5522/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-regexp-0.04-cid4qglgcqq4xadc2m6we6zvr22h5522/lib/perl5} +setenv PERL_XML_REGEXP_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-regexp-0.04-cid4qglgcqq4xadc2m6we6zvr22h5522} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-sax-base/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-sax-base/.modulerc new file mode 100644 index 00000000..277d4f14 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-sax-base/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-xml-sax-base/1.09-ulcgtlz diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-sax-base/1.09-ulcgtlz b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-sax-base/1.09-ulcgtlz new file mode 100644 index 00000000..2d5abb33 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-sax-base/1.09-ulcgtlz @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.339676 +## +## perl-xml-sax-base@1.09%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/ulcgtlz +## + + +module-whatis {This module has a very simple task - to be a base class for PerlSAX drivers and filters. It's default behaviour is to pass the input directly to the output unchanged. It can be useful to use this module as a base class so you don't have to, for example, implement the characters() callback.} + +proc ModulesHelp { } { + puts stderr {Name : perl-xml-sax-base} + puts stderr {Version: 1.09} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {This module has a very simple task - to be a base class for PerlSAX} + puts stderr {drivers and filters. It's default behaviour is to pass the input} + puts stderr {directly to the output unchanged. It can be useful to use this module as} + puts stderr {a base class so you don't have to, for example, implement the} + puts stderr {characters() callback.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-xml-sax-base + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-sax-base-1.09-ulcgtlz6we2k3idcqnasbrgp7u73q4b4/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-sax-base-1.09-ulcgtlz6we2k3idcqnasbrgp7u73q4b4/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-sax-base-1.09-ulcgtlz6we2k3idcqnasbrgp7u73q4b4/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-sax-base-1.09-ulcgtlz6we2k3idcqnasbrgp7u73q4b4/lib/perl5} +setenv PERL_XML_SAX_BASE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-sax-base-1.09-ulcgtlz6we2k3idcqnasbrgp7u73q4b4} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-sax-writer/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-sax-writer/.modulerc new file mode 100644 index 00000000..1ca1f4bc --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-sax-writer/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-xml-sax-writer/0.57-wmr56we diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-sax-writer/0.57-wmr56we b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-sax-writer/0.57-wmr56we new file mode 100644 index 00000000..db09207e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-sax-writer/0.57-wmr56we @@ -0,0 +1,79 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.351103 +## +## perl-xml-sax-writer@0.57%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/wmr56we +## + + +module-whatis {A new XML Writer was needed to match the SAX2 effort because quite naturally no existing writer understood SAX2. My first intention had been to start patching XML::Handler::YAWriter as it had previously been my favourite writer in the SAX1 world.} + +proc ModulesHelp { } { + puts stderr {Name : perl-xml-sax-writer} + puts stderr {Version: 0.57} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A new XML Writer was needed to match the SAX2 effort because quite} + puts stderr {naturally no existing writer understood SAX2. My first intention had} + puts stderr {been to start patching XML::Handler::YAWriter as it had previously been} + puts stderr {my favourite writer in the SAX1 world.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load perl-xml-filter-buffertext/1.01-nait7dy + module load perl-xml-namespacesupport/1.12_9-rc4xuz5 + module load perl-xml-sax-base/1.09-ulcgtlz +} else { + depends-on perl/5.40.0-lzbctij + depends-on perl-xml-filter-buffertext/1.01-nait7dy + depends-on perl-xml-namespacesupport/1.12_9-rc4xuz5 + depends-on perl-xml-sax-base/1.09-ulcgtlz +} +conflict perl-xml-sax-writer + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-sax-writer-0.57-wmr56weq72jlajwysso3ntajeqo7awhg/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-sax-writer-0.57-wmr56weq72jlajwysso3ntajeqo7awhg/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-sax-writer-0.57-wmr56weq72jlajwysso3ntajeqo7awhg/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-sax-writer-0.57-wmr56weq72jlajwysso3ntajeqo7awhg/lib/perl5} +setenv PERL_XML_SAX_WRITER_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-sax-writer-0.57-wmr56weq72jlajwysso3ntajeqo7awhg} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-sax/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-sax/.modulerc new file mode 100644 index 00000000..dea9d393 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-sax/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-xml-sax/1.02-ner6hhv diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-sax/1.02-ner6hhv b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-sax/1.02-ner6hhv new file mode 100644 index 00000000..f5287e8d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-sax/1.02-ner6hhv @@ -0,0 +1,76 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.324896 +## +## perl-xml-sax@1.02%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/ner6hhv +## + + +module-whatis {XML::SAX is a SAX parser access API for Perl. It includes classes and APIs required for implementing SAX drivers, along with a factory class for returning any SAX parser installed on the user's system.} + +proc ModulesHelp { } { + puts stderr {Name : perl-xml-sax} + puts stderr {Version: 1.02} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {XML::SAX is a SAX parser access API for Perl. It includes classes and} + puts stderr {APIs required for implementing SAX drivers, along with a factory class} + puts stderr {for returning any SAX parser installed on the user's system.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load perl-xml-namespacesupport/1.12_9-rc4xuz5 + module load perl-xml-sax-base/1.09-ulcgtlz +} else { + depends-on perl/5.40.0-lzbctij + depends-on perl-xml-namespacesupport/1.12_9-rc4xuz5 + depends-on perl-xml-sax-base/1.09-ulcgtlz +} +conflict perl-xml-sax + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-sax-1.02-ner6hhvwh77z4tel35kjg4ngx2zvutuf/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-sax-1.02-ner6hhvwh77z4tel35kjg4ngx2zvutuf/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-sax-1.02-ner6hhvwh77z4tel35kjg4ngx2zvutuf/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-sax-1.02-ner6hhvwh77z4tel35kjg4ngx2zvutuf/lib/perl5} +setenv PERL_XML_SAX_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-sax-1.02-ner6hhvwh77z4tel35kjg4ngx2zvutuf} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-simple/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-simple/.modulerc new file mode 100644 index 00000000..cc92a15a --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-simple/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-xml-simple/2.25-bcuc24x diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-simple/2.25-bcuc24x b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-simple/2.25-bcuc24x new file mode 100644 index 00000000..79f70bf2 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-simple/2.25-bcuc24x @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.367130 +## +## perl-xml-simple@2.25%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/bcuc24x +## + + +module-whatis {An API for simple XML files} + +proc ModulesHelp { } { + puts stderr {Name : perl-xml-simple} + puts stderr {Version: 2.25} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {An API for simple XML files} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load perl-xml-parser/2.47-uotde6y +} else { + depends-on perl/5.40.0-lzbctij + depends-on perl-xml-parser/2.47-uotde6y +} +conflict perl-xml-simple + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-simple-2.25-bcuc24xqs6wzvqagsl7sc5apo45tw4a4/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-simple-2.25-bcuc24xqs6wzvqagsl7sc5apo45tw4a4/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-simple-2.25-bcuc24xqs6wzvqagsl7sc5apo45tw4a4/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-simple-2.25-bcuc24xqs6wzvqagsl7sc5apo45tw4a4/lib/perl5} +setenv PERL_XML_SIMPLE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-simple-2.25-bcuc24xqs6wzvqagsl7sc5apo45tw4a4} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-twig/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-twig/.modulerc new file mode 100644 index 00000000..705a783f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-twig/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-xml-twig/3.52-34zuat4 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-twig/3.52-34zuat4 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-twig/3.52-34zuat4 new file mode 100644 index 00000000..d1e477d9 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-twig/3.52-34zuat4 @@ -0,0 +1,83 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.388625 +## +## perl-xml-twig@3.52%gcc@13.2.0 build_system=perl patches=e73f49a arch=linux-ubuntu22.04-x86_64_v3/34zuat4 +## + + +module-whatis {This module provides a way to process XML documents. It is build on top of XML::Parser.} + +proc ModulesHelp { } { + puts stderr {Name : perl-xml-twig} + puts stderr {Version: 3.52} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {This module provides a way to process XML documents. It is build on top} + puts stderr {of XML::Parser. The module offers a tree interface to the document,} + puts stderr {while allowing you to output the parts of it that have been completely} + puts stderr {processed. It allows minimal resource (CPU and memory) usage by building} + puts stderr {the tree only for the parts of the documents that need actual} + puts stderr {processing, through the use of the twig_roots and} + puts stderr {twig_print_outside_roots options. The finish and finish_print methods} + puts stderr {also help to increase performances. XML::Twig tries to make simple} + puts stderr {things easy so it tries its best to takes care of a lot of the (usually)} + puts stderr {annoying (but sometimes necessary) features that come with XML and} + puts stderr {XML::Parser.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load perl-xml-parser/2.47-uotde6y +} else { + depends-on perl/5.40.0-lzbctij + depends-on perl-xml-parser/2.47-uotde6y +} +conflict perl-xml-twig + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-twig-3.52-34zuat4h74lgeqxacussr4txsvp2l7vd/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-twig-3.52-34zuat4h74lgeqxacussr4txsvp2l7vd/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-twig-3.52-34zuat4h74lgeqxacussr4txsvp2l7vd/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-twig-3.52-34zuat4h74lgeqxacussr4txsvp2l7vd/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-twig-3.52-34zuat4h74lgeqxacussr4txsvp2l7vd/lib/perl5} +setenv PERL_XML_TWIG_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-twig-3.52-34zuat4h74lgeqxacussr4txsvp2l7vd} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-xpathengine/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-xpathengine/.modulerc new file mode 100644 index 00000000..4cd867d5 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-xpathengine/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-xml-xpathengine/0.14-5djaisy diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-xpathengine/0.14-5djaisy b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-xpathengine/0.14-5djaisy new file mode 100644 index 00000000..9b3cdb5f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-xml-xpathengine/0.14-5djaisy @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.409952 +## +## perl-xml-xpathengine@0.14%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/5djaisy +## + + +module-whatis {This module provides an XPath engine, that can be re-used by other module/classes that implement trees.} + +proc ModulesHelp { } { + puts stderr {Name : perl-xml-xpathengine} + puts stderr {Version: 0.14} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {This module provides an XPath engine, that can be re-used by other} + puts stderr {module/classes that implement trees.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-xml-xpathengine + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-xpathengine-0.14-5djaisylkhd2ewxdcis3or5dmmvgomzh/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-xpathengine-0.14-5djaisylkhd2ewxdcis3or5dmmvgomzh/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-xpathengine-0.14-5djaisylkhd2ewxdcis3or5dmmvgomzh/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-xpathengine-0.14-5djaisylkhd2ewxdcis3or5dmmvgomzh/lib/perl5} +setenv PERL_XML_XPATHENGINE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-xml-xpathengine-0.14-5djaisylkhd2ewxdcis3or5dmmvgomzh} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-yaml/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-yaml/.modulerc new file mode 100644 index 00000000..1e3c78c9 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-yaml/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl-yaml/1.30-bvksyj6 +module-hide --soft --hidden-loaded perl-yaml/1.30-nhnvo3a diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-yaml/1.30-bvksyj6 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-yaml/1.30-bvksyj6 new file mode 100644 index 00000000..82d2cfb1 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-yaml/1.30-bvksyj6 @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.421261 +## +## perl-yaml@1.30%gcc@11.4.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/bvksyj6 +## + + +module-whatis {This module has been released to CPAN as YAML::Old, and soon YAML.pm will be changed to just be a frontend interface module for all the various Perl YAML implementation modules, including YAML::Old} + +proc ModulesHelp { } { + puts stderr {Name : perl-yaml} + puts stderr {Version: 1.30} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {This module has been released to CPAN as YAML::Old, and soon YAML.pm} + puts stderr {will be changed to just be a frontend interface module for all the} + puts stderr {various Perl YAML implementation modules, including YAML::Old} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.38.0-okr2qfj +} else { + depends-on perl/5.38.0-okr2qfj +} +conflict perl-yaml + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-yaml-1.30-bvksyj67tagpvxpawkdnbydn3ldmsymv/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-yaml-1.30-bvksyj67tagpvxpawkdnbydn3ldmsymv/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-yaml-1.30-bvksyj67tagpvxpawkdnbydn3ldmsymv/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-yaml-1.30-bvksyj67tagpvxpawkdnbydn3ldmsymv/lib/perl5} +setenv PERL_YAML_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-yaml-1.30-bvksyj67tagpvxpawkdnbydn3ldmsymv} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-yaml/1.30-nhnvo3a b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-yaml/1.30-nhnvo3a new file mode 100644 index 00000000..84545625 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl-yaml/1.30-nhnvo3a @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.431463 +## +## perl-yaml@1.30%gcc@13.2.0 build_system=perl arch=linux-ubuntu22.04-x86_64_v3/nhnvo3a +## + + +module-whatis {This module has been released to CPAN as YAML::Old, and soon YAML.pm will be changed to just be a frontend interface module for all the various Perl YAML implementation modules, including YAML::Old} + +proc ModulesHelp { } { + puts stderr {Name : perl-yaml} + puts stderr {Version: 1.30} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {This module has been released to CPAN as YAML::Old, and soon YAML.pm} + puts stderr {will be changed to just be a frontend interface module for all the} + puts stderr {various Perl YAML implementation modules, including YAML::Old} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict perl-yaml + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-yaml-1.30-nhnvo3au43nxxnhw5dr6qf75q2a3ibrl/lib} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-yaml-1.30-nhnvo3au43nxxnhw5dr6qf75q2a3ibrl/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-yaml-1.30-nhnvo3au43nxxnhw5dr6qf75q2a3ibrl/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-yaml-1.30-nhnvo3au43nxxnhw5dr6qf75q2a3ibrl/lib/perl5} +setenv PERL_YAML_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-yaml-1.30-nhnvo3au43nxxnhw5dr6qf75q2a3ibrl} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl/.modulerc new file mode 100644 index 00000000..246b6a61 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl/.modulerc @@ -0,0 +1,4 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl/5.38.0-okr2qfj +module-hide --soft --hidden-loaded perl/5.40.0-lzbctij +module-hide --soft --hidden-loaded perl/5.40.0-v76o5kk diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl/5.38.0-okr2qfj b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl/5.38.0-okr2qfj new file mode 100644 index 00000000..0b10f4f2 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl/5.38.0-okr2qfj @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:52.495781 +## +## perl@5.38.0%gcc@11.4.0+cpanm+opcode+open+shared+threads build_system=generic patches=714e4d1 arch=linux-ubuntu22.04-x86_64_v3/okr2qfj +## +## Configure options: -des -Dprefix=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-5.38.0-okr2qfjxgz4jc5xnkxwl74haxa33sf5w -Dlocincpth=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gdbm-1.23-ohbrdtphnhbycgd6p3btrxzjbtkwiqn6/include -Dloclibpth=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/gdbm-1.23-ohbrdtphnhbycgd6p3btrxzjbtkwiqn6/lib -Accflags=-DAPPLLIB_EXP=\"/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-5.38.0-okr2qfjxgz4jc5xnkxwl74haxa33sf5w/lib/perl5\" -Duseshrplib -Dusethreads +## + + +module-whatis {Perl 5 is a highly capable, feature-rich programming language with over 27 years of development.} + +proc ModulesHelp { } { + puts stderr {Name : perl} + puts stderr {Version: 5.38.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Perl 5 is a highly capable, feature-rich programming language with over} + puts stderr {27 years of development.} +} + +conflict perl + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-5.38.0-okr2qfjxgz4jc5xnkxwl74haxa33sf5w/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-5.38.0-okr2qfjxgz4jc5xnkxwl74haxa33sf5w/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-5.38.0-okr2qfjxgz4jc5xnkxwl74haxa33sf5w/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-5.38.0-okr2qfjxgz4jc5xnkxwl74haxa33sf5w/.} +setenv PERL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/perl-5.38.0-okr2qfjxgz4jc5xnkxwl74haxa33sf5w} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl/5.40.0-lzbctij b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl/5.40.0-lzbctij new file mode 100644 index 00000000..38bef514 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl/5.40.0-lzbctij @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:52.504720 +## +## perl@5.40.0%gcc@13.2.0+cpanm+opcode+open+shared+threads build_system=generic arch=linux-ubuntu22.04-x86_64_v3/lzbctij +## +## Configure options: -des -Dprefix=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-5.40.0-lzbctije7oh4wvh3uk67gnm57qxc26f6 -Dlocincpth=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gdbm-1.23-2cugdkieyw4a3tx42jdsf2defuvn2xxb/include -Dloclibpth=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gdbm-1.23-2cugdkieyw4a3tx42jdsf2defuvn2xxb/lib -Accflags=-DAPPLLIB_EXP=\"/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-5.40.0-lzbctije7oh4wvh3uk67gnm57qxc26f6/lib/perl5\" -Duseshrplib -Dusethreads +## + + +module-whatis {Perl 5 is a highly capable, feature-rich programming language with over 27 years of development.} + +proc ModulesHelp { } { + puts stderr {Name : perl} + puts stderr {Version: 5.40.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Perl 5 is a highly capable, feature-rich programming language with over} + puts stderr {27 years of development.} +} + +conflict perl + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-5.40.0-lzbctije7oh4wvh3uk67gnm57qxc26f6/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-5.40.0-lzbctije7oh4wvh3uk67gnm57qxc26f6/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-5.40.0-lzbctije7oh4wvh3uk67gnm57qxc26f6/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-5.40.0-lzbctije7oh4wvh3uk67gnm57qxc26f6/.} +setenv PERL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-5.40.0-lzbctije7oh4wvh3uk67gnm57qxc26f6} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl/5.40.0-v76o5kk b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl/5.40.0-v76o5kk new file mode 100644 index 00000000..8542620e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/perl/5.40.0-v76o5kk @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:52.514875 +## +## perl@5.40.0%gcc@13.2.0+cpanm+opcode+open+shared+threads build_system=generic arch=linux-ubuntu22.04-x86_64_v3/v76o5kk +## +## Configure options: -des -Dprefix=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-5.40.0-v76o5kk2ty5pssxjfdqt54ijhjjvu6zt -Dlocincpth=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gdbm-1.23-2cugdkieyw4a3tx42jdsf2defuvn2xxb/include -Dloclibpth=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gdbm-1.23-2cugdkieyw4a3tx42jdsf2defuvn2xxb/lib -Accflags=-DAPPLLIB_EXP=\"/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-5.40.0-v76o5kk2ty5pssxjfdqt54ijhjjvu6zt/lib/perl5\" -Duseshrplib -Dusethreads +## + + +module-whatis {Perl 5 is a highly capable, feature-rich programming language with over 27 years of development.} + +proc ModulesHelp { } { + puts stderr {Name : perl} + puts stderr {Version: 5.40.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Perl 5 is a highly capable, feature-rich programming language with over} + puts stderr {27 years of development.} +} + +conflict perl + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-5.40.0-v76o5kk2ty5pssxjfdqt54ijhjjvu6zt/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-5.40.0-v76o5kk2ty5pssxjfdqt54ijhjjvu6zt/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-5.40.0-v76o5kk2ty5pssxjfdqt54ijhjjvu6zt/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-5.40.0-v76o5kk2ty5pssxjfdqt54ijhjjvu6zt/.} +setenv PERL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/perl-5.40.0-v76o5kk2ty5pssxjfdqt54ijhjjvu6zt} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/phydrus-fortran/0.2.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/phydrus-fortran/0.2.0 new file mode 100644 index 00000000..3a8fea3b --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/phydrus-fortran/0.2.0 @@ -0,0 +1,63 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.443346 +## +## phydrus-fortran@0.2.0%gcc@13.2.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/23426v2 +## + + +module-whatis {Phydrus optimised Fortran code for the Hydrus-1D Model..} + +proc ModulesHelp { } { + puts stderr {Name : phydrus-fortran} + puts stderr {Version: 0.2.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Phydrus optimised Fortran code for the Hydrus-1D Model..} +} + +conflict phydrus-fortran + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/phydrus-fortran-0.2.0/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/phydrus-fortran-0.2.0/.} +setenv HYDRUS_BINARY {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/phydrus-fortran-0.2.0/bin/hydrus} +setenv PHYDRUS_FORTRAN_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/phydrus-fortran-0.2.0-23426v2fe33cyesgm5evchimhsm6pk2z} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/phylip/3.697 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/phylip/3.697 new file mode 100644 index 00000000..f8aa3106 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/phylip/3.697 @@ -0,0 +1,63 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.465348 +## +## phylip@3.697%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/te2ms2c +## + + +module-whatis {PHYLIP (the PHYLogeny Inference Package) is a package of programs for inferring phylogenies (evolutionary trees).} + +proc ModulesHelp { } { + puts stderr {Name : phylip} + puts stderr {Version: 3.697} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {PHYLIP (the PHYLogeny Inference Package) is a package of programs for} + puts stderr {inferring phylogenies (evolutionary trees).} +} + +conflict phylip + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/phylip-3.697/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/phylip-3.697/.} +setenv PHYLIP_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/phylip-3.697-te2ms2ceng4erqqfxsom4owvynz3djdf} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/picard/3.1.1 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/picard/3.1.1 new file mode 100644 index 00000000..6252a3c6 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/picard/3.1.1 @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.487723 +## +## picard@3.1.1%gcc@13.2.0~parameters build_system=generic arch=linux-ubuntu22.04-x86_64_v3/65lon5g +## + + +module-whatis {Picard is a set of command line tools for manipulating high-throughput sequencing (HTS) data and formats such as SAM/BAM/CRAM and VCF. } + +proc ModulesHelp { } { + puts stderr {Name : picard} + puts stderr {Version: 3.1.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Picard is a set of command line tools for manipulating high-throughput} + puts stderr {sequencing (HTS) data and formats such as SAM/BAM/CRAM and VCF.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load openjdk/17.0.11_9 +} else { + depends-on openjdk/17.0.11_9 +} +conflict picard + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/picard-3.1.1/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/picard-3.1.1/.} +prepend-path PICARD {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/picard-3.1.1/bin/picard.jar} +setenv PICARD_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/picard-3.1.1-65lon5gazotyn27odrjn32r2m2vm6xzd} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pigz/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pigz/.modulerc new file mode 100644 index 00000000..f7506fd0 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pigz/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded pigz/2.8-xdrqihl +module-hide --soft --hidden-loaded pigz/2.8-mzekv6f diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pigz/2.8 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pigz/2.8 new file mode 100644 index 00000000..7bd33a00 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pigz/2.8 @@ -0,0 +1,65 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.525254 +## +## pigz@2.8%gcc@13.2.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/2r6jost +## + + +module-whatis {A parallel implementation of gzip for modern multi-processor, multi-core machines.} + +proc ModulesHelp { } { + puts stderr {Name : pigz} + puts stderr {Version: 2.8} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A parallel implementation of gzip for modern multi-processor, multi-core} + puts stderr {machines.} +} + +conflict pigz + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/pigz-2.8/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/pigz-2.8/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/pigz-2.8/.} +setenv PIGZ_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pigz-2.8-2r6josttnytkmi6d32gqbsgnjw4t7soz} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pigz/2.8-mzekv6f b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pigz/2.8-mzekv6f new file mode 100644 index 00000000..1745ce98 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pigz/2.8-mzekv6f @@ -0,0 +1,65 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.510150 +## +## pigz@2.8%gcc@7.5.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/mzekv6f +## + + +module-whatis {A parallel implementation of gzip for modern multi-processor, multi-core machines.} + +proc ModulesHelp { } { + puts stderr {Name : pigz} + puts stderr {Version: 2.8} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A parallel implementation of gzip for modern multi-processor, multi-core} + puts stderr {machines.} +} + +conflict pigz + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/pigz-2.8-mzekv6fx52jwnegjqqfkrnx2vjm3jqef/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/pigz-2.8-mzekv6fx52jwnegjqqfkrnx2vjm3jqef/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/pigz-2.8-mzekv6fx52jwnegjqqfkrnx2vjm3jqef/.} +setenv PIGZ_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/pigz-2.8-mzekv6fx52jwnegjqqfkrnx2vjm3jqef} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pigz/2.8-xdrqihl b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pigz/2.8-xdrqihl new file mode 100644 index 00000000..768db5b9 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pigz/2.8-xdrqihl @@ -0,0 +1,65 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.517276 +## +## pigz@2.8%gcc@13.2.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/xdrqihl +## + + +module-whatis {A parallel implementation of gzip for modern multi-processor, multi-core machines.} + +proc ModulesHelp { } { + puts stderr {Name : pigz} + puts stderr {Version: 2.8} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A parallel implementation of gzip for modern multi-processor, multi-core} + puts stderr {machines.} +} + +conflict pigz + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pigz-2.8-xdrqihluiueafznz56vyhqafcirwpqxu/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pigz-2.8-xdrqihluiueafznz56vyhqafcirwpqxu/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pigz-2.8-xdrqihluiueafznz56vyhqafcirwpqxu/.} +setenv PIGZ_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pigz-2.8-xdrqihluiueafznz56vyhqafcirwpqxu} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pilon/1.22 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pilon/1.22 new file mode 100644 index 00000000..865c2d36 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pilon/1.22 @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.551327 +## +## pilon@1.22%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/isdxnug +## + + +module-whatis {Pilon is an automated genome assembly improvement and variant detection tool.} + +proc ModulesHelp { } { + puts stderr {Name : pilon} + puts stderr {Version: 1.22} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Pilon is an automated genome assembly improvement and variant detection} + puts stderr {tool.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load openjdk/17.0.11_9 +} else { + depends-on openjdk/17.0.11_9 +} +conflict pilon + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/pilon-1.22/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/pilon-1.22/.} +setenv PILON_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pilon-1.22-isdxnugcwmadzibfevbjwifrvrgxgb63} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pixman/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pixman/.modulerc new file mode 100644 index 00000000..eeaa19fb --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pixman/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded pixman/0.44.0-blw5dlm +module-hide --soft --hidden-loaded pixman/0.44.0-mrhiq2q diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pixman/0.44.0-blw5dlm b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pixman/0.44.0-blw5dlm new file mode 100644 index 00000000..dddd6e86 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pixman/0.44.0-blw5dlm @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.573722 +## +## pixman@0.44.0%gcc@13.2.0+shared build_system=meson arch=linux-ubuntu22.04-x86_64_v3/blw5dlm +## + + +module-whatis {The Pixman package contains a library that provides low-level pixel manipulation features such as image compositing and trapezoid rasterization.} + +proc ModulesHelp { } { + puts stderr {Name : pixman} + puts stderr {Version: 0.44.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The Pixman package contains a library that provides low-level pixel} + puts stderr {manipulation features such as image compositing and trapezoid} + puts stderr {rasterization.} +} + +conflict pixman + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pixman-0.44.0-blw5dlmkbdtmck6oyx7ycfo77z6gknbq/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pixman-0.44.0-blw5dlmkbdtmck6oyx7ycfo77z6gknbq/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pixman-0.44.0-blw5dlmkbdtmck6oyx7ycfo77z6gknbq/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pixman-0.44.0-blw5dlmkbdtmck6oyx7ycfo77z6gknbq/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pixman-0.44.0-blw5dlmkbdtmck6oyx7ycfo77z6gknbq/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pixman-0.44.0-blw5dlmkbdtmck6oyx7ycfo77z6gknbq/.} +setenv PIXMAN_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pixman-0.44.0-blw5dlmkbdtmck6oyx7ycfo77z6gknbq} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pixman/0.44.0-mrhiq2q b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pixman/0.44.0-mrhiq2q new file mode 100644 index 00000000..c2570e00 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pixman/0.44.0-mrhiq2q @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2024-12-19 13:36:54.138251 +## +## pixman@0.44.0%gcc@13.2.0+shared build_system=meson arch=linux-ubuntu22.04-x86_64_v3/mrhiq2q +## + + +module-whatis {The Pixman package contains a library that provides low-level pixel manipulation features such as image compositing and trapezoid rasterization.} + +proc ModulesHelp { } { + puts stderr {Name : pixman} + puts stderr {Version: 0.44.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The Pixman package contains a library that provides low-level pixel} + puts stderr {manipulation features such as image compositing and trapezoid} + puts stderr {rasterization.} +} + +conflict pixman + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pixman-0.44.0-mrhiq2qfmmjl6qdrro4ul7pjm3ab5svx/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pixman-0.44.0-mrhiq2qfmmjl6qdrro4ul7pjm3ab5svx/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pixman-0.44.0-mrhiq2qfmmjl6qdrro4ul7pjm3ab5svx/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pixman-0.44.0-mrhiq2qfmmjl6qdrro4ul7pjm3ab5svx/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pixman-0.44.0-mrhiq2qfmmjl6qdrro4ul7pjm3ab5svx/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pixman-0.44.0-mrhiq2qfmmjl6qdrro4ul7pjm3ab5svx/.} +setenv PIXMAN_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pixman-0.44.0-mrhiq2qfmmjl6qdrro4ul7pjm3ab5svx} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pkgconf/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pkgconf/.modulerc new file mode 100644 index 00000000..bbaee56f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pkgconf/.modulerc @@ -0,0 +1,4 @@ +#%Module4.7 +module-hide --soft --hidden-loaded pkgconf/2.2.0-oplsmxr +module-hide --soft --hidden-loaded pkgconf/2.2.0-rtve2ea +module-hide --soft --hidden-loaded pkgconf/2.2.0-gs2jwam diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pkgconf/2.2.0-gs2jwam b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pkgconf/2.2.0-gs2jwam new file mode 100644 index 00000000..ae278c5e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pkgconf/2.2.0-gs2jwam @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.582533 +## +## pkgconf@2.2.0%gcc@7.5.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/gs2jwam +## + + +module-whatis {pkgconf is a program which helps to configure compiler and linker flags for development frameworks. It is similar to pkg-config from freedesktop.org, providing additional functionality while also maintaining compatibility.} + +proc ModulesHelp { } { + puts stderr {Name : pkgconf} + puts stderr {Version: 2.2.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {pkgconf is a program which helps to configure compiler and linker flags} + puts stderr {for development frameworks. It is similar to pkg-config from} + puts stderr {freedesktop.org, providing additional functionality while also} + puts stderr {maintaining compatibility.} +} + +conflict pkgconf + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/pkgconf-2.2.0-gs2jwamyfns3njuzizkrsuuefrvckfok/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/pkgconf-2.2.0-gs2jwamyfns3njuzizkrsuuefrvckfok/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/pkgconf-2.2.0-gs2jwamyfns3njuzizkrsuuefrvckfok/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/pkgconf-2.2.0-gs2jwamyfns3njuzizkrsuuefrvckfok/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/pkgconf-2.2.0-gs2jwamyfns3njuzizkrsuuefrvckfok/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/pkgconf-2.2.0-gs2jwamyfns3njuzizkrsuuefrvckfok/share/man} +prepend-path ACLOCAL_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/pkgconf-2.2.0-gs2jwamyfns3njuzizkrsuuefrvckfok/share/aclocal} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/pkgconf-2.2.0-gs2jwamyfns3njuzizkrsuuefrvckfok/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/pkgconf-2.2.0-gs2jwamyfns3njuzizkrsuuefrvckfok/.} +setenv PKGCONF_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/pkgconf-2.2.0-gs2jwamyfns3njuzizkrsuuefrvckfok} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pkgconf/2.2.0-oplsmxr b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pkgconf/2.2.0-oplsmxr new file mode 100644 index 00000000..f4e4db02 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pkgconf/2.2.0-oplsmxr @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.602168 +## +## pkgconf@2.2.0%gcc@11.4.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/oplsmxr +## + + +module-whatis {pkgconf is a program which helps to configure compiler and linker flags for development frameworks. It is similar to pkg-config from freedesktop.org, providing additional functionality while also maintaining compatibility.} + +proc ModulesHelp { } { + puts stderr {Name : pkgconf} + puts stderr {Version: 2.2.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {pkgconf is a program which helps to configure compiler and linker flags} + puts stderr {for development frameworks. It is similar to pkg-config from} + puts stderr {freedesktop.org, providing additional functionality while also} + puts stderr {maintaining compatibility.} +} + +conflict pkgconf + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/pkgconf-2.2.0-oplsmxryrcg6ackisqtpszdarzch6a6t/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/pkgconf-2.2.0-oplsmxryrcg6ackisqtpszdarzch6a6t/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/pkgconf-2.2.0-oplsmxryrcg6ackisqtpszdarzch6a6t/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/pkgconf-2.2.0-oplsmxryrcg6ackisqtpszdarzch6a6t/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/pkgconf-2.2.0-oplsmxryrcg6ackisqtpszdarzch6a6t/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/pkgconf-2.2.0-oplsmxryrcg6ackisqtpszdarzch6a6t/share/man} +prepend-path ACLOCAL_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/pkgconf-2.2.0-oplsmxryrcg6ackisqtpszdarzch6a6t/share/aclocal} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/pkgconf-2.2.0-oplsmxryrcg6ackisqtpszdarzch6a6t/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/pkgconf-2.2.0-oplsmxryrcg6ackisqtpszdarzch6a6t/.} +setenv PKGCONF_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/pkgconf-2.2.0-oplsmxryrcg6ackisqtpszdarzch6a6t} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pkgconf/2.2.0-rtve2ea b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pkgconf/2.2.0-rtve2ea new file mode 100644 index 00000000..60a9cbb3 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pkgconf/2.2.0-rtve2ea @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.609238 +## +## pkgconf@2.2.0%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/rtve2ea +## + + +module-whatis {pkgconf is a program which helps to configure compiler and linker flags for development frameworks. It is similar to pkg-config from freedesktop.org, providing additional functionality while also maintaining compatibility.} + +proc ModulesHelp { } { + puts stderr {Name : pkgconf} + puts stderr {Version: 2.2.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {pkgconf is a program which helps to configure compiler and linker flags} + puts stderr {for development frameworks. It is similar to pkg-config from} + puts stderr {freedesktop.org, providing additional functionality while also} + puts stderr {maintaining compatibility.} +} + +conflict pkgconf + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pkgconf-2.2.0-rtve2eavdnliejplmhal47be2n3wo5ay/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pkgconf-2.2.0-rtve2eavdnliejplmhal47be2n3wo5ay/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pkgconf-2.2.0-rtve2eavdnliejplmhal47be2n3wo5ay/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pkgconf-2.2.0-rtve2eavdnliejplmhal47be2n3wo5ay/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pkgconf-2.2.0-rtve2eavdnliejplmhal47be2n3wo5ay/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pkgconf-2.2.0-rtve2eavdnliejplmhal47be2n3wo5ay/share/man} +prepend-path ACLOCAL_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pkgconf-2.2.0-rtve2eavdnliejplmhal47be2n3wo5ay/share/aclocal} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pkgconf-2.2.0-rtve2eavdnliejplmhal47be2n3wo5ay/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pkgconf-2.2.0-rtve2eavdnliejplmhal47be2n3wo5ay/.} +setenv PKGCONF_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pkgconf-2.2.0-rtve2eavdnliejplmhal47be2n3wo5ay} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/planck-likelihood/2.00 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/planck-likelihood/2.00 new file mode 100644 index 00000000..8e2a85c6 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/planck-likelihood/2.00 @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.635031 +## +## planck-likelihood@2.00%gcc@13.2.0~lensing-ext~plik-DS~plik-HM-ext~plik-unbinned build_system=generic patches=933b877,c4719d3 arch=linux-ubuntu22.04-x86_64_v3/xkc7owr +## + + +module-whatis {2015 Cosmic Microwave Background (CMB) spectra and likelihood code} + +proc ModulesHelp { } { + puts stderr {Name : planck-likelihood} + puts stderr {Version: 2.00} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {2015 Cosmic Microwave Background (CMB) spectra and likelihood code} +} + +conflict planck-likelihood + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/planck-likelihood-2.00/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/planck-likelihood-2.00/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/planck-likelihood-2.00/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/planck-likelihood-2.00/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/planck-likelihood-2.00/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/planck-likelihood-2.00/.} +setenv CLIK_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/planck-likelihood-2.00} +setenv CLIK_DATA {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/planck-likelihood-2.00/share/clik} +setenv CLIK_PLUGIN {rel2015} +setenv PLANCK_LIKELIHOOD_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/planck-likelihood-2.00-xkc7owrinna7pjf736bfrdxnd6m4nsau} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/plink/1.07 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/plink/1.07 new file mode 100644 index 00000000..4e126f73 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/plink/1.07 @@ -0,0 +1,64 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.666370 +## +## plink@1.07%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/53244d7 +## + + +module-whatis {PLINK is a free, open-source whole genome association analysis toolset, designed to perform a range of basic, large-scale analyses in a computationally efficient manner.} + +proc ModulesHelp { } { + puts stderr {Name : plink} + puts stderr {Version: 1.07} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {PLINK is a free, open-source whole genome association analysis toolset,} + puts stderr {designed to perform a range of basic, large-scale analyses in a} + puts stderr {computationally efficient manner.} +} + +conflict plink + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/plink-1.07/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/plink-1.07/.} +setenv PLINK_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/plink-1.07-53244d7yrkc2tseq5o6jmt7arh3ys2wv} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/plumed/2.8.2 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/plumed/2.8.2 new file mode 100644 index 00000000..44747348 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/plumed/2.8.2 @@ -0,0 +1,76 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.691877 +## +## plumed@2.8.2%gcc@13.2.0+gsl~mpi+shared arrayfire=none build_system=autotools optional_modules=all arch=linux-ubuntu22.04-x86_64_v3/s6qtylb +## +## Configure options: --disable-ld-r LDFLAGS=-L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gsl-2.8-qyxdwjziabe7axozjyqbzt2suagdwhps/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openblas-0.3.28-ap4k5dzekmdokd4sqkhp6vrac2bypni3/lib -lgsl -lopenblas --enable-shared=yes --enable-gsl=yes --enable-af_cpu=no --enable-af_cuda=no --enable-af_ocl=no --enable-modules=all +## + + +module-whatis {PLUMED is an open source library for free energy calculations in molecular systems which works together with some of the most popular molecular dynamics engines.} + +proc ModulesHelp { } { + puts stderr {Name : plumed} + puts stderr {Version: 2.8.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {PLUMED is an open source library for free energy calculations in} + puts stderr {molecular systems which works together with some of the most popular} + puts stderr {molecular dynamics engines. Free energy calculations can be performed as} + puts stderr {a function of many order parameters with a particular focus on} + puts stderr {biological problems, using state of the art methods such as} + puts stderr {metadynamics, umbrella sampling and Jarzynski-equation based steered MD.} + puts stderr {The software, written in C++, can be easily interfaced with both fortran} + puts stderr {and C/C++ codes.} +} + +conflict plumed + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/plumed-2.8.2/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/plumed-2.8.2/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/plumed-2.8.2/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/plumed-2.8.2/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/plumed-2.8.2/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/plumed-2.8.2/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/plumed-2.8.2/.} +setenv PLUMED_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/plumed-2.8.2-s6qtylbtu3t3jgrvgldd6gj2rmvtcwky} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pmix/4.2.9 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pmix/4.2.9 new file mode 100644 index 00000000..78d1e481 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pmix/4.2.9 @@ -0,0 +1,87 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.780554 +## +## pmix@4.2.9%gcc@13.2.0~munge~python~restful build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/f223o55 +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {The Process Management Interface (PMI) has been used for quite some time as a means of exchanging wireup information needed for interprocess communication. However, meeting the significant orchestration challenges presented by exascale systems requires that the process-to-system interface evolve to permit a tighter integration between the different components of the parallel application and existing and future SMS solutions.} + +proc ModulesHelp { } { + puts stderr {Name : pmix} + puts stderr {Version: 4.2.9} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The Process Management Interface (PMI) has been used for quite some time} + puts stderr {as a means of exchanging wireup information needed for interprocess} + puts stderr {communication. However, meeting the significant orchestration challenges} + puts stderr {presented by exascale systems requires that the process-to-system} + puts stderr {interface evolve to permit a tighter integration between the different} + puts stderr {components of the parallel application and existing and future SMS} + puts stderr {solutions. PMI Exascale (PMIx) addresses these needs by providing an} + puts stderr {extended version of the PMI definitions specifically designed to support} + puts stderr {exascale and beyond environments by: (a) adding flexibility to the} + puts stderr {functionality expressed in the existing APIs, (b) augmenting the} + puts stderr {interfaces with new APIs that provide extended capabilities, (c) forging} + puts stderr {a collaboration between subsystem providers including resource manager,} + puts stderr {fabric, file system, and programming library developers, (d)} + puts stderr {establishing a standards-like body for maintaining the definitions, and} + puts stderr {(e) providing a reference implementation of the PMIx standard that} + puts stderr {demonstrates the desired level of scalability while maintaining strict} + puts stderr {separation between it and the standard itself.} +} + +conflict pmix + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/pmix-4.2.9/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/pmix-4.2.9/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/pmix-4.2.9/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/pmix-4.2.9/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/pmix-4.2.9/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/pmix-4.2.9/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/pmix-4.2.9/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/pmix-4.2.9/.} +setenv PMIX_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/pmix-4.2.9} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pmix/5.0.3 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pmix/5.0.3 new file mode 100644 index 00000000..867b003c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pmix/5.0.3 @@ -0,0 +1,87 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.837654 +## +## pmix@5.0.3%gcc@13.2.0~munge~python~restful build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/qo7mjhu +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {The Process Management Interface (PMI) has been used for quite some time as a means of exchanging wireup information needed for interprocess communication. However, meeting the significant orchestration challenges presented by exascale systems requires that the process-to-system interface evolve to permit a tighter integration between the different components of the parallel application and existing and future SMS solutions.} + +proc ModulesHelp { } { + puts stderr {Name : pmix} + puts stderr {Version: 5.0.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The Process Management Interface (PMI) has been used for quite some time} + puts stderr {as a means of exchanging wireup information needed for interprocess} + puts stderr {communication. However, meeting the significant orchestration challenges} + puts stderr {presented by exascale systems requires that the process-to-system} + puts stderr {interface evolve to permit a tighter integration between the different} + puts stderr {components of the parallel application and existing and future SMS} + puts stderr {solutions. PMI Exascale (PMIx) addresses these needs by providing an} + puts stderr {extended version of the PMI definitions specifically designed to support} + puts stderr {exascale and beyond environments by: (a) adding flexibility to the} + puts stderr {functionality expressed in the existing APIs, (b) augmenting the} + puts stderr {interfaces with new APIs that provide extended capabilities, (c) forging} + puts stderr {a collaboration between subsystem providers including resource manager,} + puts stderr {fabric, file system, and programming library developers, (d)} + puts stderr {establishing a standards-like body for maintaining the definitions, and} + puts stderr {(e) providing a reference implementation of the PMIx standard that} + puts stderr {demonstrates the desired level of scalability while maintaining strict} + puts stderr {separation between it and the standard itself.} +} + +conflict pmix + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/pmix-5.0.3/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/pmix-5.0.3/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/pmix-5.0.3/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/pmix-5.0.3/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/pmix-5.0.3/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/pmix-5.0.3/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/pmix-5.0.3/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/pmix-5.0.3/.} +setenv PMIX_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/pmix-5.0.3} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/popt/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/popt/.modulerc new file mode 100644 index 00000000..de3adacd --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/popt/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded popt/1.19-xdevdff diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/popt/1.19-xdevdff b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/popt/1.19-xdevdff new file mode 100644 index 00000000..eb5c5abc --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/popt/1.19-xdevdff @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.894281 +## +## popt@1.19%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/xdevdff +## + + +module-whatis {The popt library parses command line options.} + +proc ModulesHelp { } { + puts stderr {Name : popt} + puts stderr {Version: 1.19} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The popt library parses command line options.} +} + +conflict popt + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/popt-1.19-xdevdffkjriz6yaq3jusnd3bj6z264zc/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/popt-1.19-xdevdffkjriz6yaq3jusnd3bj6z264zc/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/popt-1.19-xdevdffkjriz6yaq3jusnd3bj6z264zc/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/popt-1.19-xdevdffkjriz6yaq3jusnd3bj6z264zc/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/popt-1.19-xdevdffkjriz6yaq3jusnd3bj6z264zc/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/popt-1.19-xdevdffkjriz6yaq3jusnd3bj6z264zc/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/popt-1.19-xdevdffkjriz6yaq3jusnd3bj6z264zc/.} +setenv POPT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/popt-1.19-xdevdffkjriz6yaq3jusnd3bj6z264zc} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/postgresql/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/postgresql/.modulerc new file mode 100644 index 00000000..083f9bd7 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/postgresql/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded postgresql/16.4-dupgdrs +module-hide --soft --hidden-loaded postgresql/16.4-s66txka diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/postgresql/16.4-dupgdrs b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/postgresql/16.4-dupgdrs new file mode 100644 index 00000000..f39147a2 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/postgresql/16.4-dupgdrs @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.902780 +## +## postgresql@16.4%gcc@13.2.0~client_only~gssapi+icu~perl~python~tcl~threadsafe~xml build_system=autotools lineedit=readline arch=linux-ubuntu22.04-x86_64_v3/dupgdrs +## +## Configure options: --with-openssl --disable-thread-safety +## + + +module-whatis {PostgreSQL is a powerful, open source object-relational database system. It has more than 15 years of active development and a proven architecture that has earned it a strong reputation for reliability, data integrity, and correctness.} + +proc ModulesHelp { } { + puts stderr {Name : postgresql} + puts stderr {Version: 16.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {PostgreSQL is a powerful, open source object-relational database system.} + puts stderr {It has more than 15 years of active development and a proven} + puts stderr {architecture that has earned it a strong reputation for reliability,} + puts stderr {data integrity, and correctness.} +} + +conflict postgresql + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/postgresql-16.4-dupgdrso3frap3ftb64kffemykg5ps2y/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/postgresql-16.4-dupgdrso3frap3ftb64kffemykg5ps2y/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/postgresql-16.4-dupgdrso3frap3ftb64kffemykg5ps2y/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/postgresql-16.4-dupgdrso3frap3ftb64kffemykg5ps2y/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/postgresql-16.4-dupgdrso3frap3ftb64kffemykg5ps2y/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/postgresql-16.4-dupgdrso3frap3ftb64kffemykg5ps2y/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/postgresql-16.4-dupgdrso3frap3ftb64kffemykg5ps2y/.} +setenv POSTGRESQL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/postgresql-16.4-dupgdrso3frap3ftb64kffemykg5ps2y} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/postgresql/16.4-s66txka b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/postgresql/16.4-s66txka new file mode 100644 index 00000000..fb8f6bd8 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/postgresql/16.4-s66txka @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.912213 +## +## postgresql@16.4%gcc@13.2.0+client_only~gssapi+icu~perl~python~tcl~threadsafe~xml build_system=autotools lineedit=readline arch=linux-ubuntu22.04-x86_64_v3/s66txka +## +## Configure options: --with-openssl --disable-thread-safety +## + + +module-whatis {PostgreSQL is a powerful, open source object-relational database system. It has more than 15 years of active development and a proven architecture that has earned it a strong reputation for reliability, data integrity, and correctness.} + +proc ModulesHelp { } { + puts stderr {Name : postgresql} + puts stderr {Version: 16.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {PostgreSQL is a powerful, open source object-relational database system.} + puts stderr {It has more than 15 years of active development and a proven} + puts stderr {architecture that has earned it a strong reputation for reliability,} + puts stderr {data integrity, and correctness.} +} + +conflict postgresql + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/postgresql-16.4-s66txka3sutpy2dahehixcbjevu6h57s/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/postgresql-16.4-s66txka3sutpy2dahehixcbjevu6h57s/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/postgresql-16.4-s66txka3sutpy2dahehixcbjevu6h57s/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/postgresql-16.4-s66txka3sutpy2dahehixcbjevu6h57s/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/postgresql-16.4-s66txka3sutpy2dahehixcbjevu6h57s/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/postgresql-16.4-s66txka3sutpy2dahehixcbjevu6h57s/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/postgresql-16.4-s66txka3sutpy2dahehixcbjevu6h57s/.} +setenv POSTGRESQL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/postgresql-16.4-s66txka3sutpy2dahehixcbjevu6h57s} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pplacer/1.1.alpha19 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pplacer/1.1.alpha19 new file mode 100644 index 00000000..538fbd2a --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pplacer/1.1.alpha19 @@ -0,0 +1,66 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.934529 +## +## pplacer@1.1.alpha19%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/jn7deex +## + + +module-whatis {Pplacer places query sequences on a fixed reference phylogenetic tree to maximize phylogenetic likelihood or posterior probability according to a reference alignment. Pplacer is designed to be fast, to give useful information about uncertainty, and to offer advanced visualization and downstream analysis. } + +proc ModulesHelp { } { + puts stderr {Name : pplacer} + puts stderr {Version: 1.1.alpha19} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Pplacer places query sequences on a fixed reference phylogenetic tree to} + puts stderr {maximize phylogenetic likelihood or posterior probability according to a} + puts stderr {reference alignment. Pplacer is designed to be fast, to give useful} + puts stderr {information about uncertainty, and to offer advanced visualization and} + puts stderr {downstream analysis.} +} + +conflict pplacer + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/pplacer-1.1.alpha19/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/pplacer-1.1.alpha19/.} +setenv PPLACER_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pplacer-1.1.alpha19-jn7deexjckv3obqphemlf2r3c6rb6pzh} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/prodigal/2.6.3 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/prodigal/2.6.3 new file mode 100644 index 00000000..c1806d85 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/prodigal/2.6.3 @@ -0,0 +1,62 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.956321 +## +## prodigal@2.6.3%gcc@13.2.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/x6fxn3s +## + + +module-whatis {Fast, reliable protein-coding gene prediction for prokaryotic genomes.} + +proc ModulesHelp { } { + puts stderr {Name : prodigal} + puts stderr {Version: 2.6.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Fast, reliable protein-coding gene prediction for prokaryotic genomes.} +} + +conflict prodigal + +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/prodigal-2.6.3/.} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/prodigal-2.6.3} +setenv PRODIGAL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/prodigal-2.6.3-x6fxn3scyjg76z7br7uwrnm3or4vt5yw} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/proj/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/proj/.modulerc new file mode 100644 index 00000000..7d22d5d2 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/proj/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded proj/8.1.0-znsubt7 +module-hide --soft --hidden-loaded proj/9.4.1-uhgpe4f diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/proj/8.1.0-znsubt7 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/proj/8.1.0-znsubt7 new file mode 100644 index 00000000..1032d724 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/proj/8.1.0-znsubt7 @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.977446 +## +## proj@8.1.0%gcc@11.4.0+curl~ipo~pic+shared+tiff build_system=cmake build_type=Release generator=make patches=8d85a64,dc620ff arch=linux-ubuntu22.04-x86_64_v3/znsubt7 +## + + +module-whatis {PROJ is a generic coordinate transformation software, that transforms geospatial coordinates from one coordinate reference system (CRS) to another. This includes cartographic projections as well as geodetic transformations.} + +proc ModulesHelp { } { + puts stderr {Name : proj} + puts stderr {Version: 8.1.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {PROJ is a generic coordinate transformation software, that transforms} + puts stderr {geospatial coordinates from one coordinate reference system (CRS) to} + puts stderr {another. This includes cartographic projections as well as geodetic} + puts stderr {transformations.} +} + +conflict proj + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/proj-8.1.0-znsubt733ain6ahlqsvibdcjp4ygfddg/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/proj-8.1.0-znsubt733ain6ahlqsvibdcjp4ygfddg/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/proj-8.1.0-znsubt733ain6ahlqsvibdcjp4ygfddg/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/proj-8.1.0-znsubt733ain6ahlqsvibdcjp4ygfddg/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/proj-8.1.0-znsubt733ain6ahlqsvibdcjp4ygfddg/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/proj-8.1.0-znsubt733ain6ahlqsvibdcjp4ygfddg/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/proj-8.1.0-znsubt733ain6ahlqsvibdcjp4ygfddg/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/proj-8.1.0-znsubt733ain6ahlqsvibdcjp4ygfddg/.} +setenv PROJ_LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/proj-8.1.0-znsubt733ain6ahlqsvibdcjp4ygfddg/share/proj} +setenv PROJ_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/proj-8.1.0-znsubt733ain6ahlqsvibdcjp4ygfddg} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/proj/9.4.1-uhgpe4f b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/proj/9.4.1-uhgpe4f new file mode 100644 index 00000000..e3668310 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/proj/9.4.1-uhgpe4f @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.987383 +## +## proj@9.4.1%gcc@13.2.0+curl~ipo~pic+shared+tiff build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/uhgpe4f +## + + +module-whatis {PROJ is a generic coordinate transformation software, that transforms geospatial coordinates from one coordinate reference system (CRS) to another. This includes cartographic projections as well as geodetic transformations.} + +proc ModulesHelp { } { + puts stderr {Name : proj} + puts stderr {Version: 9.4.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {PROJ is a generic coordinate transformation software, that transforms} + puts stderr {geospatial coordinates from one coordinate reference system (CRS) to} + puts stderr {another. This includes cartographic projections as well as geodetic} + puts stderr {transformations.} +} + +conflict proj + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/proj-9.4.1-uhgpe4fgawqsu36gynqmpwnuogt674l3/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/proj-9.4.1-uhgpe4fgawqsu36gynqmpwnuogt674l3/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/proj-9.4.1-uhgpe4fgawqsu36gynqmpwnuogt674l3/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/proj-9.4.1-uhgpe4fgawqsu36gynqmpwnuogt674l3/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/proj-9.4.1-uhgpe4fgawqsu36gynqmpwnuogt674l3/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/proj-9.4.1-uhgpe4fgawqsu36gynqmpwnuogt674l3/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/proj-9.4.1-uhgpe4fgawqsu36gynqmpwnuogt674l3/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/proj-9.4.1-uhgpe4fgawqsu36gynqmpwnuogt674l3/.} +setenv PROJ_LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/proj-9.4.1-uhgpe4fgawqsu36gynqmpwnuogt674l3/share/proj} +setenv PROJ_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/proj-9.4.1-uhgpe4fgawqsu36gynqmpwnuogt674l3} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/prokka/1.14.6 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/prokka/1.14.6 new file mode 100644 index 00000000..8ee424d8 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/prokka/1.14.6 @@ -0,0 +1,82 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.999372 +## +## prokka@1.14.6%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/nie4em2 +## + + +module-whatis {Prokka is a software tool to annotate bacterial, archaeal and viral genomes quickly and produce standards-compliant output files.} + +proc ModulesHelp { } { + puts stderr {Name : prokka} + puts stderr {Version: 1.14.6} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Prokka is a software tool to annotate bacterial, archaeal and viral} + puts stderr {genomes quickly and produce standards-compliant output files.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load blast-plus/2.16.0 + module load hmmer/3.4 + module load perl/5.40.0-lzbctij + module load perl-bio-searchio-hmmer/1.7.3-h63mwqk + module load perl-bioperl/1.7.8-t2wyx73 + module load perl-xml-simple/2.25-bcuc24x + module load prodigal/2.6.3 + module load tbl2asn/2022-04-26-fbwwvux +} else { + depends-on blast-plus/2.16.0 + depends-on hmmer/3.4 + depends-on perl/5.40.0-lzbctij + depends-on perl-bio-searchio-hmmer/1.7.3-h63mwqk + depends-on perl-bioperl/1.7.8-t2wyx73 + depends-on perl-xml-simple/2.25-bcuc24x + depends-on prodigal/2.6.3 + depends-on tbl2asn/2022-04-26-fbwwvux +} +conflict prokka + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/prokka-1.14.6/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/prokka-1.14.6/.} +setenv PROKKA_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/prokka-1.14.6-nie4em27vfvzzmp6tf44fj772lxaeef7} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/protobuf/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/protobuf/.modulerc new file mode 100644 index 00000000..14cb8fa5 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/protobuf/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded protobuf/3.21.12-ouxt6gp +module-hide --soft --hidden-loaded protobuf/3.25.3-mfjxr4a diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/protobuf/3.21.12-ouxt6gp b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/protobuf/3.21.12-ouxt6gp new file mode 100644 index 00000000..4babee33 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/protobuf/3.21.12-ouxt6gp @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:55.247287 +## +## protobuf@3.21.12%gcc@11.4.0~ipo+shared build_system=cmake build_type=Release generator=make patches=9b6dcfa arch=linux-ubuntu22.04-x86_64_v3/ouxt6gp +## +## Configure options: -DBUILD_SHARED_LIBS:BOOL=ON -Dprotobuf_BUILD_TESTS:BOOL=OFF -DCMAKE_POSITION_INDEPENDENT_CODE:BOOL=ON +## + + +module-whatis {Google's data interchange format.} + +proc ModulesHelp { } { + puts stderr {Name : protobuf} + puts stderr {Version: 3.21.12} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Google's data interchange format.} +} + +conflict protobuf + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/protobuf-3.21.12-ouxt6gpwqs2f2rb2ftdcbsvfghg36uty/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/protobuf-3.21.12-ouxt6gpwqs2f2rb2ftdcbsvfghg36uty/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/protobuf-3.21.12-ouxt6gpwqs2f2rb2ftdcbsvfghg36uty/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/protobuf-3.21.12-ouxt6gpwqs2f2rb2ftdcbsvfghg36uty/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/protobuf-3.21.12-ouxt6gpwqs2f2rb2ftdcbsvfghg36uty/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/protobuf-3.21.12-ouxt6gpwqs2f2rb2ftdcbsvfghg36uty/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/protobuf-3.21.12-ouxt6gpwqs2f2rb2ftdcbsvfghg36uty/.} +setenv PROTOBUF_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/protobuf-3.21.12-ouxt6gpwqs2f2rb2ftdcbsvfghg36uty} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/protobuf/3.25.3-mfjxr4a b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/protobuf/3.25.3-mfjxr4a new file mode 100644 index 00000000..dc91017b --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/protobuf/3.25.3-mfjxr4a @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:55.255059 +## +## protobuf@3.25.3%gcc@13.2.0~ipo+shared build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/mfjxr4a +## +## Configure options: -DBUILD_SHARED_LIBS:BOOL=ON -Dprotobuf_BUILD_TESTS:BOOL=OFF -DCMAKE_POSITION_INDEPENDENT_CODE:BOOL=ON -Dprotobuf_ABSL_PROVIDER:STRING=package -DCMAKE_CXX_STANDARD:STRING=14 +## + + +module-whatis {Google's data interchange format.} + +proc ModulesHelp { } { + puts stderr {Name : protobuf} + puts stderr {Version: 3.25.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Google's data interchange format.} +} + +conflict protobuf + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/protobuf-3.25.3-mfjxr4agh2b2y5ymobg37u2ugfzrzfsa/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/protobuf-3.25.3-mfjxr4agh2b2y5ymobg37u2ugfzrzfsa/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/protobuf-3.25.3-mfjxr4agh2b2y5ymobg37u2ugfzrzfsa/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/protobuf-3.25.3-mfjxr4agh2b2y5ymobg37u2ugfzrzfsa/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/protobuf-3.25.3-mfjxr4agh2b2y5ymobg37u2ugfzrzfsa/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/protobuf-3.25.3-mfjxr4agh2b2y5ymobg37u2ugfzrzfsa/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/protobuf-3.25.3-mfjxr4agh2b2y5ymobg37u2ugfzrzfsa/.} +setenv PROTOBUF_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/protobuf-3.25.3-mfjxr4agh2b2y5ymobg37u2ugfzrzfsa} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pugixml/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pugixml/.modulerc new file mode 100644 index 00000000..0c8f4895 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pugixml/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded pugixml/1.14-iwngoxf diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pugixml/1.14-iwngoxf b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pugixml/1.14-iwngoxf new file mode 100644 index 00000000..53c94aad --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pugixml/1.14-iwngoxf @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:55.277055 +## +## pugixml@1.14%gcc@11.4.0~ipo+pic+shared build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/iwngoxf +## +## Configure options: -DBUILD_SHARED_AND_STATIC_LIBS:BOOL=OFF -DBUILD_SHARED_LIBS:BOOL=ON -DCMAKE_POSITION_INDEPENDENT_CODE:BOOL=ON +## + + +module-whatis {Light-weight, simple, and fast XML parser for C++ with XPath support} + +proc ModulesHelp { } { + puts stderr {Name : pugixml} + puts stderr {Version: 1.14} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Light-weight, simple, and fast XML parser for C++ with XPath support} +} + +conflict pugixml + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/pugixml-1.14-iwngoxfppvg6eiydsidkqa24twedq6ru/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/pugixml-1.14-iwngoxfppvg6eiydsidkqa24twedq6ru/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/pugixml-1.14-iwngoxfppvg6eiydsidkqa24twedq6ru/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/pugixml-1.14-iwngoxfppvg6eiydsidkqa24twedq6ru/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/pugixml-1.14-iwngoxfppvg6eiydsidkqa24twedq6ru/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/pugixml-1.14-iwngoxfppvg6eiydsidkqa24twedq6ru/.} +setenv PUGIXML_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/pugixml-1.14-iwngoxfppvg6eiydsidkqa24twedq6ru} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-absl-py/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-absl-py/.modulerc new file mode 100644 index 00000000..5c504e7f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-absl-py/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-absl-py/1.4.0-ojr3fkl diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-absl-py/1.4.0-ojr3fkl b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-absl-py/1.4.0-ojr3fkl new file mode 100644 index 00000000..5c1334b5 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-absl-py/1.4.0-ojr3fkl @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:55.285763 +## +## py-absl-py@1.4.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/ojr3fkl +## + + +module-whatis { This repository is a collection of Python library code for building Python applications.} + +proc ModulesHelp { } { + puts stderr {Name : py-absl-py} + puts stderr {Version: 1.4.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr { This repository is a collection of Python library code for building} + puts stderr {Python applications. The code is collected from Google's own Python code} + puts stderr {base, and has been extensively tested and used in production.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-absl-py + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-absl-py-1.4.0-ojr3fkl3s54hxa65g6kpm2tjazuukusl/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-absl-py-1.4.0-ojr3fkl3s54hxa65g6kpm2tjazuukusl/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-absl-py-1.4.0-ojr3fkl3s54hxa65g6kpm2tjazuukusl/lib/python3.11/site-packages} +setenv PY_ABSL_PY_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-absl-py-1.4.0-ojr3fkl3s54hxa65g6kpm2tjazuukusl} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-alabaster/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-alabaster/.modulerc new file mode 100644 index 00000000..9433982c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-alabaster/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-alabaster/0.7.16-54j5d53 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-alabaster/0.7.16-54j5d53 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-alabaster/0.7.16-54j5d53 new file mode 100644 index 00000000..d82d16d3 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-alabaster/0.7.16-54j5d53 @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:55.418587 +## +## py-alabaster@0.7.16%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/54j5d53 +## + + +module-whatis {Alabaster is a visually (c)lean, responsive, configurable theme for the Sphinx documentation system.} + +proc ModulesHelp { } { + puts stderr {Name : py-alabaster} + puts stderr {Version: 0.7.16} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Alabaster is a visually (c)lean, responsive, configurable theme for the} + puts stderr {Sphinx documentation system.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-alabaster + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-alabaster-0.7.16-54j5d532ghnbqejksruzwwoey3qachvr/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-alabaster-0.7.16-54j5d532ghnbqejksruzwwoey3qachvr/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-alabaster-0.7.16-54j5d532ghnbqejksruzwwoey3qachvr/lib/python3.11/site-packages} +setenv PY_ALABASTER_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-alabaster-0.7.16-54j5d532ghnbqejksruzwwoey3qachvr} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-anndata/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-anndata/.modulerc new file mode 100644 index 00000000..3caf0275 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-anndata/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-anndata/0.8.0-cn7pr6r diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-anndata/0.8.0-cn7pr6r b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-anndata/0.8.0-cn7pr6r new file mode 100644 index 00000000..d06bbaf9 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-anndata/0.8.0-cn7pr6r @@ -0,0 +1,83 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:00.090463 +## +## py-anndata@0.8.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/cn7pr6r +## + + +module-whatis {anndata is a Python package for handling annotated data matrices in memory and on disk, positioned between pandas and xarray.} + +proc ModulesHelp { } { + puts stderr {Name : py-anndata} + puts stderr {Version: 0.8.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {anndata is a Python package for handling annotated data matrices in} + puts stderr {memory and on disk, positioned between pandas and xarray.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-h5py/3.12.1-73asaag + module load py-natsort/8.4.0-6dhkqjr + module load py-numpy/1.25.2-4avjy5d + module load py-packaging/24.1-a36mhum + module load py-pandas/2.2.3-c3jc7mo + module load py-scipy/1.14.1-3q4c4eg + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-h5py/3.12.1-73asaag + depends-on py-natsort/8.4.0-6dhkqjr + depends-on py-numpy/1.25.2-4avjy5d + depends-on py-packaging/24.1-a36mhum + depends-on py-pandas/2.2.3-c3jc7mo + depends-on py-scipy/1.14.1-3q4c4eg + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-anndata + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-anndata-0.8.0-cn7pr6rrc36i273io5runv6jnkwbfo5n/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-anndata-0.8.0-cn7pr6rrc36i273io5runv6jnkwbfo5n/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-anndata-0.8.0-cn7pr6rrc36i273io5runv6jnkwbfo5n/lib/python3.11/site-packages} +setenv PY_ANNDATA_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-anndata-0.8.0-cn7pr6rrc36i273io5runv6jnkwbfo5n} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-annotated-types/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-annotated-types/.modulerc new file mode 100644 index 00000000..4d7c99de --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-annotated-types/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-annotated-types/0.7.0-osnujng diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-annotated-types/0.7.0-osnujng b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-annotated-types/0.7.0-osnujng new file mode 100644 index 00000000..97562ea1 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-annotated-types/0.7.0-osnujng @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:01.063252 +## +## py-annotated-types@0.7.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/osnujng +## + + +module-whatis {Reusable constraint types to use with typing.Annotated.} + +proc ModulesHelp { } { + puts stderr {Name : py-annotated-types} + puts stderr {Version: 0.7.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Reusable constraint types to use with typing.Annotated.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-annotated-types + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-annotated-types-0.7.0-osnujngo2lcybibmsabrs7nscf3xfwwc/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-annotated-types-0.7.0-osnujngo2lcybibmsabrs7nscf3xfwwc/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-annotated-types-0.7.0-osnujngo2lcybibmsabrs7nscf3xfwwc/lib/python3.11/site-packages} +setenv PY_ANNOTATED_TYPES_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-annotated-types-0.7.0-osnujngo2lcybibmsabrs7nscf3xfwwc} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-argcomplete/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-argcomplete/.modulerc new file mode 100644 index 00000000..5e427fc8 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-argcomplete/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-argcomplete/3.5.0-svtxcmo diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-argcomplete/3.5.0-svtxcmo b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-argcomplete/3.5.0-svtxcmo new file mode 100644 index 00000000..f5e825f0 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-argcomplete/3.5.0-svtxcmo @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:01.206368 +## +## py-argcomplete@3.5.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/svtxcmo +## + + +module-whatis {Bash tab completion for argparse.} + +proc ModulesHelp { } { + puts stderr {Name : py-argcomplete} + puts stderr {Version: 3.5.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Bash tab completion for argparse.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-argcomplete + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-argcomplete-3.5.0-svtxcmomu5d7p66dc6hvp7bj6d7figci/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-argcomplete-3.5.0-svtxcmomu5d7p66dc6hvp7bj6d7figci/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-argcomplete-3.5.0-svtxcmomu5d7p66dc6hvp7bj6d7figci/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-argcomplete-3.5.0-svtxcmomu5d7p66dc6hvp7bj6d7figci/lib/python3.11/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-argcomplete-3.5.0-svtxcmomu5d7p66dc6hvp7bj6d7figci/bin} +setenv PY_ARGCOMPLETE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-argcomplete-3.5.0-svtxcmomu5d7p66dc6hvp7bj6d7figci} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-argh/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-argh/.modulerc new file mode 100644 index 00000000..4746e6f6 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-argh/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-argh/0.26.2-tt6qweh diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-argh/0.26.2-tt6qweh b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-argh/0.26.2-tt6qweh new file mode 100644 index 00000000..cd8efd36 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-argh/0.26.2-tt6qweh @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:01.332622 +## +## py-argh@0.26.2%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/tt6qweh +## + + +module-whatis {An argparse wrapper that doesn't make you say 'argh' each time you deal with it.} + +proc ModulesHelp { } { + puts stderr {Name : py-argh} + puts stderr {Version: 0.26.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {An argparse wrapper that doesn't make you say "argh" each time you deal} + puts stderr {with it. Building a command-line interface? Found yourself uttering} + puts stderr {"argh!" while struggling with the API of argparse? Don't like the} + puts stderr {complexity but need the power? Argh is a smart wrapper for argparse.} + puts stderr {Argparse is a very powerful tool; Argh just makes it easy to use.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-argh + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-argh-0.26.2-tt6qwehi72vkkjocvfzlceogrht6z2uk/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-argh-0.26.2-tt6qwehi72vkkjocvfzlceogrht6z2uk/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-argh-0.26.2-tt6qwehi72vkkjocvfzlceogrht6z2uk/lib/python3.11/site-packages} +setenv PY_ARGH_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-argh-0.26.2-tt6qwehi72vkkjocvfzlceogrht6z2uk} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-asttokens/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-asttokens/.modulerc new file mode 100644 index 00000000..26fa31a7 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-asttokens/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-asttokens/2.4.0-xt7m5an diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-asttokens/2.4.0-xt7m5an b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-asttokens/2.4.0-xt7m5an new file mode 100644 index 00000000..08fbe4c2 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-asttokens/2.4.0-xt7m5an @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:01.455612 +## +## py-asttokens@2.4.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/xt7m5an +## + + +module-whatis {Annotate AST trees with source code positions.} + +proc ModulesHelp { } { + puts stderr {Name : py-asttokens} + puts stderr {Version: 2.4.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Annotate AST trees with source code positions.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-six/1.16.0-2bnsnfx + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-six/1.16.0-2bnsnfx + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-asttokens + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-asttokens-2.4.0-xt7m5anlg3r6lnvhd2e5y6xxyc4oe4qm/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-asttokens-2.4.0-xt7m5anlg3r6lnvhd2e5y6xxyc4oe4qm/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-asttokens-2.4.0-xt7m5anlg3r6lnvhd2e5y6xxyc4oe4qm/lib/python3.11/site-packages} +setenv PY_ASTTOKENS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-asttokens-2.4.0-xt7m5anlg3r6lnvhd2e5y6xxyc4oe4qm} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-astunparse/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-astunparse/.modulerc new file mode 100644 index 00000000..09742d2f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-astunparse/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-astunparse/1.6.3-yz5vtol diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-astunparse/1.6.3-yz5vtol b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-astunparse/1.6.3-yz5vtol new file mode 100644 index 00000000..f96ae193 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-astunparse/1.6.3-yz5vtol @@ -0,0 +1,76 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:01.647157 +## +## py-astunparse@1.6.3%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/yz5vtol +## + + +module-whatis {An AST unparser for Python.} + +proc ModulesHelp { } { + puts stderr {Name : py-astunparse} + puts stderr {Version: 1.6.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {An AST unparser for Python. This is a factored out version of unparse} + puts stderr {found in the Python source distribution; under Demo/parser in Python 2} + puts stderr {and under Tools/parser in Python 3.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-six/1.16.0-i34z4g2 + module load py-wheel/0.41.2-c5gnlxv + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-six/1.16.0-i34z4g2 + depends-on py-wheel/0.41.2-c5gnlxv + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-astunparse + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-astunparse-1.6.3-yz5vtol225yydbkuyz4aotstrlsxqesh/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-astunparse-1.6.3-yz5vtol225yydbkuyz4aotstrlsxqesh/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-astunparse-1.6.3-yz5vtol225yydbkuyz4aotstrlsxqesh/lib/python3.11/site-packages} +setenv PY_ASTUNPARSE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-astunparse-1.6.3-yz5vtol225yydbkuyz4aotstrlsxqesh} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-awscrt/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-awscrt/.modulerc new file mode 100644 index 00000000..6a07611f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-awscrt/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-awscrt/0.19.19-e5k6pl5 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-awscrt/0.19.19-e5k6pl5 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-awscrt/0.19.19-e5k6pl5 new file mode 100644 index 00000000..fe15ff68 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-awscrt/0.19.19-e5k6pl5 @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:01.842483 +## +## py-awscrt@0.19.19%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/e5k6pl5 +## + + +module-whatis {Python 3 bindings for the AWS Common Runtime.} + +proc ModulesHelp { } { + puts stderr {Name : py-awscrt} + puts stderr {Version: 0.19.19} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Python 3 bindings for the AWS Common Runtime.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9-itykk2n + module load python-venv/1.0-okrhcwx +} else { + depends-on python/3.11.9-itykk2n + depends-on python-venv/1.0-okrhcwx +} +conflict py-awscrt + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-awscrt-0.19.19-e5k6pl5qxmkysaazvzvftrx6rbikwdd4/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-awscrt-0.19.19-e5k6pl5qxmkysaazvzvftrx6rbikwdd4/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-awscrt-0.19.19-e5k6pl5qxmkysaazvzvftrx6rbikwdd4/lib/python3.11/site-packages} +setenv PY_AWSCRT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-awscrt-0.19.19-e5k6pl5qxmkysaazvzvftrx6rbikwdd4} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-babel/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-babel/.modulerc new file mode 100644 index 00000000..b844cb13 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-babel/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-babel/2.15.0-clka33t diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-babel/2.15.0-clka33t b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-babel/2.15.0-clka33t new file mode 100644 index 00000000..1d121372 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-babel/2.15.0-clka33t @@ -0,0 +1,76 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:01.971025 +## +## py-babel@2.15.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/clka33t +## + + +module-whatis {Babel is an integrated collection of utilities that assist in internationalizing and localizing Python applications, with an emphasis on web-based applications.} + +proc ModulesHelp { } { + puts stderr {Name : py-babel} + puts stderr {Version: 2.15.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Babel is an integrated collection of utilities that assist in} + puts stderr {internationalizing and localizing Python applications, with an emphasis} + puts stderr {on web-based applications.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-setuptools/69.2.0-rhq2cbb + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-setuptools/69.2.0-rhq2cbb + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-babel + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-babel-2.15.0-clka33t5gh32o6izeuhacnmmb52ongh6/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-babel-2.15.0-clka33t5gh32o6izeuhacnmmb52ongh6/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-babel-2.15.0-clka33t5gh32o6izeuhacnmmb52ongh6/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-babel-2.15.0-clka33t5gh32o6izeuhacnmmb52ongh6/lib/python3.11/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-babel-2.15.0-clka33t5gh32o6izeuhacnmmb52ongh6/bin} +setenv PY_BABEL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-babel-2.15.0-clka33t5gh32o6izeuhacnmmb52ongh6} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-backcall/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-backcall/.modulerc new file mode 100644 index 00000000..1ea88b83 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-backcall/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-backcall/0.2.0-5minh2g diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-backcall/0.2.0-5minh2g b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-backcall/0.2.0-5minh2g new file mode 100644 index 00000000..7329b996 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-backcall/0.2.0-5minh2g @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:02.174677 +## +## py-backcall@0.2.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/5minh2g +## + + +module-whatis {Specifications for callback functions passed in to an API} + +proc ModulesHelp { } { + puts stderr {Name : py-backcall} + puts stderr {Version: 0.2.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Specifications for callback functions passed in to an API} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-backcall + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-backcall-0.2.0-5minh2gqwrubxfwhl62wsv7qzws6j6y4/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-backcall-0.2.0-5minh2gqwrubxfwhl62wsv7qzws6j6y4/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-backcall-0.2.0-5minh2gqwrubxfwhl62wsv7qzws6j6y4/lib/python3.11/site-packages} +setenv PY_BACKCALL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-backcall-0.2.0-5minh2gqwrubxfwhl62wsv7qzws6j6y4} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-beniget/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-beniget/.modulerc new file mode 100644 index 00000000..beaf9f3e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-beniget/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-beniget/0.4.1-ikcn73o diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-beniget/0.4.1-ikcn73o b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-beniget/0.4.1-ikcn73o new file mode 100644 index 00000000..d2377fcd --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-beniget/0.4.1-ikcn73o @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:02.307183 +## +## py-beniget@0.4.1%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/ikcn73o +## + + +module-whatis {Extract semantic information about static Python code.} + +proc ModulesHelp { } { + puts stderr {Name : py-beniget} + puts stderr {Version: 0.4.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Extract semantic information about static Python code.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-gast/0.5.4-myvhqk6 + module load python/3.8.19-dxx3zxu + module load python-venv/1.0-l4mqvrb +} else { + depends-on py-gast/0.5.4-myvhqk6 + depends-on python/3.8.19-dxx3zxu + depends-on python-venv/1.0-l4mqvrb +} +conflict py-beniget + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-beniget-0.4.1-ikcn73op4b4yxpcz2d62oonkppg5cxab/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-beniget-0.4.1-ikcn73op4b4yxpcz2d62oonkppg5cxab/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-beniget-0.4.1-ikcn73op4b4yxpcz2d62oonkppg5cxab/lib/python3.8/site-packages} +setenv PY_BENIGET_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-beniget-0.4.1-ikcn73op4b4yxpcz2d62oonkppg5cxab} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-biopython/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-biopython/.modulerc new file mode 100644 index 00000000..f1828104 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-biopython/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-biopython/1.81-agjkphq diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-biopython/1.81 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-biopython/1.81 new file mode 100644 index 00000000..71ea5fc0 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-biopython/1.81 @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:02.799579 +## +## py-biopython@1.81%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/cgwzsuv +## + + +module-whatis {A distributed collaborative effort to develop Python libraries and applications which address the needs of current and future work in bioinformatics. } + +proc ModulesHelp { } { + puts stderr {Name : py-biopython} + puts stderr {Version: 1.81} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A distributed collaborative effort to develop Python libraries and} + puts stderr {applications which address the needs of current and future work in} + puts stderr {bioinformatics.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-numpy/1.26.4-pzeanm2 + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-numpy/1.26.4-pzeanm2 + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-biopython + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/lib/python3.11/site-packages} +setenv PY_BIOPYTHON_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-biopython-1.81-cgwzsuvusmyadwbkn33tqsw3r7hosh2h} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-biopython/1.81-agjkphq b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-biopython/1.81-agjkphq new file mode 100644 index 00000000..94be9ccb --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-biopython/1.81-agjkphq @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:02.586599 +## +## py-biopython@1.81%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/agjkphq +## + + +module-whatis {A distributed collaborative effort to develop Python libraries and applications which address the needs of current and future work in bioinformatics. } + +proc ModulesHelp { } { + puts stderr {Name : py-biopython} + puts stderr {Version: 1.81} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A distributed collaborative effort to develop Python libraries and} + puts stderr {applications which address the needs of current and future work in} + puts stderr {bioinformatics.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-numpy/1.25.2-2wshlgs + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-numpy/1.25.2-2wshlgs + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-biopython + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-biopython-1.81-agjkphqd2lvciokf6nttkjv57usmt5ic/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-biopython-1.81-agjkphqd2lvciokf6nttkjv57usmt5ic/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-biopython-1.81-agjkphqd2lvciokf6nttkjv57usmt5ic/lib/python3.11/site-packages} +setenv PY_BIOPYTHON_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-biopython-1.81-agjkphqd2lvciokf6nttkjv57usmt5ic} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-botocore/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-botocore/.modulerc new file mode 100644 index 00000000..6b8a5739 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-botocore/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-botocore/1.31.41-fk2gdrm diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-botocore/1.31.41-fk2gdrm b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-botocore/1.31.41-fk2gdrm new file mode 100644 index 00000000..fbc60c35 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-botocore/1.31.41-fk2gdrm @@ -0,0 +1,76 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:03.022323 +## +## py-botocore@1.31.41%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/fk2gdrm +## + + +module-whatis {Low-level, data-driven core of boto 3.} + +proc ModulesHelp { } { + puts stderr {Name : py-botocore} + puts stderr {Version: 1.31.41} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Low-level, data-driven core of boto 3.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-jmespath/1.0.1-ddbshed + module load py-python-dateutil/2.8.2-kisczcp + module load py-urllib3/1.26.20-lpg4spj + module load python/3.13.0-xf4zxxe + module load python-venv/1.0-6mlwnfu +} else { + depends-on py-jmespath/1.0.1-ddbshed + depends-on py-python-dateutil/2.8.2-kisczcp + depends-on py-urllib3/1.26.20-lpg4spj + depends-on python/3.13.0-xf4zxxe + depends-on python-venv/1.0-6mlwnfu +} +conflict py-botocore + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-botocore-1.31.41-fk2gdrmtxam4hk4cfgudpjb4cswyt6bq/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-botocore-1.31.41-fk2gdrmtxam4hk4cfgudpjb4cswyt6bq/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-botocore-1.31.41-fk2gdrmtxam4hk4cfgudpjb4cswyt6bq/lib/python3.13/site-packages} +setenv PY_BOTOCORE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-botocore-1.31.41-fk2gdrmtxam4hk4cfgudpjb4cswyt6bq} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-bottleneck/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-bottleneck/.modulerc new file mode 100644 index 00000000..1ecf423b --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-bottleneck/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-bottleneck/1.3.7-7zxc2ik +module-hide --soft --hidden-loaded py-bottleneck/1.3.7-xnwbv5k diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-bottleneck/1.3.7-7zxc2ik b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-bottleneck/1.3.7-7zxc2ik new file mode 100644 index 00000000..f266b047 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-bottleneck/1.3.7-7zxc2ik @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:03.376839 +## +## py-bottleneck@1.3.7%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/7zxc2ik +## + + +module-whatis {A collection of fast NumPy array functions written in Cython.} + +proc ModulesHelp { } { + puts stderr {Name : py-bottleneck} + puts stderr {Version: 1.3.7} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A collection of fast NumPy array functions written in Cython.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-numpy/1.25.2-4avjy5d + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-numpy/1.25.2-4avjy5d + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-bottleneck + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-bottleneck-1.3.7-7zxc2ikbzhqwxchmt6wnioeo2mq55ck7/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-bottleneck-1.3.7-7zxc2ikbzhqwxchmt6wnioeo2mq55ck7/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-bottleneck-1.3.7-7zxc2ikbzhqwxchmt6wnioeo2mq55ck7/lib/python3.11/site-packages} +setenv PY_BOTTLENECK_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-bottleneck-1.3.7-7zxc2ikbzhqwxchmt6wnioeo2mq55ck7} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-bottleneck/1.3.7-xnwbv5k b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-bottleneck/1.3.7-xnwbv5k new file mode 100644 index 00000000..40b46a3c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-bottleneck/1.3.7-xnwbv5k @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:03.594665 +## +## py-bottleneck@1.3.7%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/xnwbv5k +## + + +module-whatis {A collection of fast NumPy array functions written in Cython.} + +proc ModulesHelp { } { + puts stderr {Name : py-bottleneck} + puts stderr {Version: 1.3.7} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A collection of fast NumPy array functions written in Cython.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-numpy/1.25.2-2wshlgs + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-numpy/1.25.2-2wshlgs + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-bottleneck + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-bottleneck-1.3.7-xnwbv5krzm7qayj2hclf7pgl5omybmp6/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-bottleneck-1.3.7-xnwbv5krzm7qayj2hclf7pgl5omybmp6/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-bottleneck-1.3.7-xnwbv5krzm7qayj2hclf7pgl5omybmp6/lib/python3.11/site-packages} +setenv PY_BOTTLENECK_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-bottleneck-1.3.7-xnwbv5krzm7qayj2hclf7pgl5omybmp6} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-certifi/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-certifi/.modulerc new file mode 100644 index 00000000..672105cf --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-certifi/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-certifi/2023.7.22-ttvy2hk +module-hide --soft --hidden-loaded py-certifi/2023.7.22-7kovaf6 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-certifi/2023.7.22-7kovaf6 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-certifi/2023.7.22-7kovaf6 new file mode 100644 index 00000000..0cb5a61d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-certifi/2023.7.22-7kovaf6 @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:03.937654 +## +## py-certifi@2023.7.22%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/7kovaf6 +## + + +module-whatis {Certifi: A carefully curated collection of Root Certificates for validating the trustworthiness of SSL certificates while verifying the identity of TLS hosts.} + +proc ModulesHelp { } { + puts stderr {Name : py-certifi} + puts stderr {Version: 2023.7.22} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Certifi: A carefully curated collection of Root Certificates for} + puts stderr {validating the trustworthiness of SSL certificates while verifying the} + puts stderr {identity of TLS hosts.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-certifi + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-certifi-2023.7.22-7kovaf6v6r6rog77bafw6oa3gzdostwj/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-certifi-2023.7.22-7kovaf6v6r6rog77bafw6oa3gzdostwj/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-certifi-2023.7.22-7kovaf6v6r6rog77bafw6oa3gzdostwj/lib/python3.11/site-packages} +setenv PY_CERTIFI_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-certifi-2023.7.22-7kovaf6v6r6rog77bafw6oa3gzdostwj} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-certifi/2023.7.22-ttvy2hk b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-certifi/2023.7.22-ttvy2hk new file mode 100644 index 00000000..ea621a4a --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-certifi/2023.7.22-ttvy2hk @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:03.787538 +## +## py-certifi@2023.7.22%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/ttvy2hk +## + + +module-whatis {Certifi: A carefully curated collection of Root Certificates for validating the trustworthiness of SSL certificates while verifying the identity of TLS hosts.} + +proc ModulesHelp { } { + puts stderr {Name : py-certifi} + puts stderr {Version: 2023.7.22} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Certifi: A carefully curated collection of Root Certificates for} + puts stderr {validating the trustworthiness of SSL certificates while verifying the} + puts stderr {identity of TLS hosts.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-certifi + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-certifi-2023.7.22-ttvy2hkvkxhf7ttrfd6kerga3hznqcwm/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-certifi-2023.7.22-ttvy2hkvkxhf7ttrfd6kerga3hznqcwm/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-certifi-2023.7.22-ttvy2hkvkxhf7ttrfd6kerga3hznqcwm/lib/python3.11/site-packages} +setenv PY_CERTIFI_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-certifi-2023.7.22-ttvy2hkvkxhf7ttrfd6kerga3hznqcwm} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-cffi/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-cffi/.modulerc new file mode 100644 index 00000000..682bc654 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-cffi/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-cffi/1.17.1-wcl64k7 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-cffi/1.17.1-wcl64k7 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-cffi/1.17.1-wcl64k7 new file mode 100644 index 00000000..4fb106ca --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-cffi/1.17.1-wcl64k7 @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:04.063769 +## +## py-cffi@1.17.1%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/wcl64k7 +## + + +module-whatis {Foreign Function Interface for Python calling C code} + +proc ModulesHelp { } { + puts stderr {Name : py-cffi} + puts stderr {Version: 1.17.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Foreign Function Interface for Python calling C code} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-pycparser/2.21-rgyvvgv + module load python/3.11.9-itykk2n + module load python-venv/1.0-okrhcwx +} else { + depends-on py-pycparser/2.21-rgyvvgv + depends-on python/3.11.9-itykk2n + depends-on python-venv/1.0-okrhcwx +} +conflict py-cffi + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-cffi-1.17.1-wcl64k7p5kx45wnitfqpyqqxnt7p5szf/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-cffi-1.17.1-wcl64k7p5kx45wnitfqpyqqxnt7p5szf/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-cffi-1.17.1-wcl64k7p5kx45wnitfqpyqqxnt7p5szf/lib/python3.11/site-packages} +setenv PY_CFFI_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-cffi-1.17.1-wcl64k7p5kx45wnitfqpyqqxnt7p5szf} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-charset-normalizer/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-charset-normalizer/.modulerc new file mode 100644 index 00000000..2ba0dfff --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-charset-normalizer/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-charset-normalizer/3.3.0-uuqklzi +module-hide --soft --hidden-loaded py-charset-normalizer/3.3.0-gdaypjv diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-charset-normalizer/3.3.0-gdaypjv b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-charset-normalizer/3.3.0-gdaypjv new file mode 100644 index 00000000..61be0dbf --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-charset-normalizer/3.3.0-gdaypjv @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:04.358812 +## +## py-charset-normalizer@3.3.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/gdaypjv +## + + +module-whatis {The Real First Universal Charset Detector. Open, modern and actively maintained alternative to Chardet.} + +proc ModulesHelp { } { + puts stderr {Name : py-charset-normalizer} + puts stderr {Version: 3.3.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The Real First Universal Charset Detector. Open, modern and actively} + puts stderr {maintained alternative to Chardet.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-charset-normalizer + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-charset-normalizer-3.3.0-gdaypjvowt6fcttbanrmx3qhkpndncyo/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-charset-normalizer-3.3.0-gdaypjvowt6fcttbanrmx3qhkpndncyo/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-charset-normalizer-3.3.0-gdaypjvowt6fcttbanrmx3qhkpndncyo/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-charset-normalizer-3.3.0-gdaypjvowt6fcttbanrmx3qhkpndncyo/lib/python3.11/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-charset-normalizer-3.3.0-gdaypjvowt6fcttbanrmx3qhkpndncyo/bin} +setenv PY_CHARSET_NORMALIZER_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-charset-normalizer-3.3.0-gdaypjvowt6fcttbanrmx3qhkpndncyo} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-charset-normalizer/3.3.0-uuqklzi b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-charset-normalizer/3.3.0-uuqklzi new file mode 100644 index 00000000..ec4b47ba --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-charset-normalizer/3.3.0-uuqklzi @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:04.236544 +## +## py-charset-normalizer@3.3.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/uuqklzi +## + + +module-whatis {The Real First Universal Charset Detector. Open, modern and actively maintained alternative to Chardet.} + +proc ModulesHelp { } { + puts stderr {Name : py-charset-normalizer} + puts stderr {Version: 3.3.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The Real First Universal Charset Detector. Open, modern and actively} + puts stderr {maintained alternative to Chardet.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-charset-normalizer + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-charset-normalizer-3.3.0-uuqklzisxuyh46obbuql5u54jg2nzawx/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-charset-normalizer-3.3.0-uuqklzisxuyh46obbuql5u54jg2nzawx/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-charset-normalizer-3.3.0-uuqklzisxuyh46obbuql5u54jg2nzawx/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-charset-normalizer-3.3.0-uuqklzisxuyh46obbuql5u54jg2nzawx/lib/python3.11/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-charset-normalizer-3.3.0-uuqklzisxuyh46obbuql5u54jg2nzawx/bin} +setenv PY_CHARSET_NORMALIZER_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-charset-normalizer-3.3.0-uuqklzisxuyh46obbuql5u54jg2nzawx} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-checkm-genome/1.2.1 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-checkm-genome/1.2.1 new file mode 100644 index 00000000..83545ef8 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-checkm-genome/1.2.1 @@ -0,0 +1,91 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:04.502115 +## +## py-checkm-genome@1.2.1%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/efi7bfo +## + + +module-whatis {Assess the quality of microbial genomes recovered from isolates, single cells, and metagenomes} + +proc ModulesHelp { } { + puts stderr {Name : py-checkm-genome} + puts stderr {Version: 1.2.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Assess the quality of microbial genomes recovered from isolates, single} + puts stderr {cells, and metagenomes} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load hmmer/3.4 + module load pplacer/1.1.alpha19 + module load prodigal/2.6.3 + module load py-dendropy/4.5.2-fqewg7j + module load py-matplotlib/3.9.2-bsuux3u + module load py-numpy/2.1.2-rif434b + module load py-pysam/0.19.1-qyscevj + module load py-scipy/1.14.1-u5pel67 + module load py-setuptools/69.2.0-rhq2cbb + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on hmmer/3.4 + depends-on pplacer/1.1.alpha19 + depends-on prodigal/2.6.3 + depends-on py-dendropy/4.5.2-fqewg7j + depends-on py-matplotlib/3.9.2-bsuux3u + depends-on py-numpy/2.1.2-rif434b + depends-on py-pysam/0.19.1-qyscevj + depends-on py-scipy/1.14.1-u5pel67 + depends-on py-setuptools/69.2.0-rhq2cbb + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-checkm-genome + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/lib/python3.11/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/bin} +setenv PY_CHECKM_GENOME_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-checkm-genome-1.2.1-efi7bfog5bpyexlegohgcm337pfwruqh} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-chex/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-chex/.modulerc new file mode 100644 index 00000000..6ea1e15e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-chex/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-chex/0.1.86-vkb7ywd diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-chex/0.1.86-vkb7ywd b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-chex/0.1.86-vkb7ywd new file mode 100644 index 00000000..ceffccda --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-chex/0.1.86-vkb7ywd @@ -0,0 +1,82 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:05.477152 +## +## py-chex@0.1.86%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/vkb7ywd +## + + +module-whatis {Chex is a library of utilities for helping to write reliable JAX code.} + +proc ModulesHelp { } { + puts stderr {Name : py-chex} + puts stderr {Version: 0.1.86} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Chex is a library of utilities for helping to write reliable JAX code.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-absl-py/1.4.0-ojr3fkl + module load py-jax/0.4.30-5beunl7 + module load py-jaxlib/0.4.28-kfjqjvj + module load py-numpy/1.25.2-2wshlgs + module load py-toolz/0.12.0-xxsyher + module load py-typing-extensions/4.12.2-h4iey52 + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-absl-py/1.4.0-ojr3fkl + depends-on py-jax/0.4.30-5beunl7 + depends-on py-jaxlib/0.4.28-kfjqjvj + depends-on py-numpy/1.25.2-2wshlgs + depends-on py-toolz/0.12.0-xxsyher + depends-on py-typing-extensions/4.12.2-h4iey52 + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-chex + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-chex-0.1.86-vkb7ywdg2idhjjpjgrkqvywoxbhgcuyy/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-chex-0.1.86-vkb7ywdg2idhjjpjgrkqvywoxbhgcuyy/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-chex-0.1.86-vkb7ywdg2idhjjpjgrkqvywoxbhgcuyy/lib/python3.11/site-packages} +setenv PY_CHEX_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-chex-0.1.86-vkb7ywdg2idhjjpjgrkqvywoxbhgcuyy} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-click/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-click/.modulerc new file mode 100644 index 00000000..86a4a253 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-click/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-click/8.1.7-kjrzl6j diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-click/8.1.7-kjrzl6j b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-click/8.1.7-kjrzl6j new file mode 100644 index 00000000..be590447 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-click/8.1.7-kjrzl6j @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:06.053713 +## +## py-click@8.1.7%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/kjrzl6j +## + + +module-whatis {Python composable command line interface toolkit.} + +proc ModulesHelp { } { + puts stderr {Name : py-click} + puts stderr {Version: 8.1.7} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Python composable command line interface toolkit.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-click + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-click-8.1.7-kjrzl6jepbhufjt7i3dn35i3eozx5acb/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-click-8.1.7-kjrzl6jepbhufjt7i3dn35i3eozx5acb/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-click-8.1.7-kjrzl6jepbhufjt7i3dn35i3eozx5acb/lib/python3.11/site-packages} +setenv PY_CLICK_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-click-8.1.7-kjrzl6jepbhufjt7i3dn35i3eozx5acb} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-colorama/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-colorama/.modulerc new file mode 100644 index 00000000..72e002b0 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-colorama/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-colorama/0.4.4-7tbuwqr +module-hide --soft --hidden-loaded py-colorama/0.4.6-jwgijtj diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-colorama/0.4.4-7tbuwqr b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-colorama/0.4.4-7tbuwqr new file mode 100644 index 00000000..8acaa737 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-colorama/0.4.4-7tbuwqr @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:06.194852 +## +## py-colorama@0.4.4%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/7tbuwqr +## + + +module-whatis {Cross-platform colored terminal text.} + +proc ModulesHelp { } { + puts stderr {Name : py-colorama} + puts stderr {Version: 0.4.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Cross-platform colored terminal text.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.13.0-xf4zxxe + module load python-venv/1.0-6mlwnfu +} else { + depends-on python/3.13.0-xf4zxxe + depends-on python-venv/1.0-6mlwnfu +} +conflict py-colorama + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-colorama-0.4.4-7tbuwqriv4bzgeefsx3pt37qltgsohzc/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-colorama-0.4.4-7tbuwqriv4bzgeefsx3pt37qltgsohzc/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-colorama-0.4.4-7tbuwqriv4bzgeefsx3pt37qltgsohzc/lib/python3.13/site-packages} +setenv PY_COLORAMA_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-colorama-0.4.4-7tbuwqriv4bzgeefsx3pt37qltgsohzc} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-colorama/0.4.6-jwgijtj b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-colorama/0.4.6-jwgijtj new file mode 100644 index 00000000..9bcb7afd --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-colorama/0.4.6-jwgijtj @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:06.322413 +## +## py-colorama@0.4.6%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/jwgijtj +## + + +module-whatis {Cross-platform colored terminal text.} + +proc ModulesHelp { } { + puts stderr {Name : py-colorama} + puts stderr {Version: 0.4.6} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Cross-platform colored terminal text.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9-itykk2n + module load python-venv/1.0-okrhcwx +} else { + depends-on python/3.11.9-itykk2n + depends-on python-venv/1.0-okrhcwx +} +conflict py-colorama + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-colorama-0.4.6-jwgijtjgntey5qufilp5qxzqkijykwdi/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-colorama-0.4.6-jwgijtjgntey5qufilp5qxzqkijykwdi/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-colorama-0.4.6-jwgijtjgntey5qufilp5qxzqkijykwdi/lib/python3.11/site-packages} +setenv PY_COLORAMA_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-colorama-0.4.6-jwgijtjgntey5qufilp5qxzqkijykwdi} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-coloredlogs/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-coloredlogs/.modulerc new file mode 100644 index 00000000..bb609716 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-coloredlogs/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-coloredlogs/15.0.1-koguzbh diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-coloredlogs/15.0.1-koguzbh b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-coloredlogs/15.0.1-koguzbh new file mode 100644 index 00000000..f01f2c8c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-coloredlogs/15.0.1-koguzbh @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:06.429892 +## +## py-coloredlogs@15.0.1%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/koguzbh +## + + +module-whatis {Colored terminal output for Python's logging module} + +proc ModulesHelp { } { + puts stderr {Name : py-coloredlogs} + puts stderr {Version: 15.0.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Colored terminal output for Python's logging module} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-humanfriendly/10.0-jfg4djo + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-humanfriendly/10.0-jfg4djo + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-coloredlogs + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-coloredlogs-15.0.1-koguzbh4qmbra4fo5o2jeyv575vhcyzc/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-coloredlogs-15.0.1-koguzbh4qmbra4fo5o2jeyv575vhcyzc/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-coloredlogs-15.0.1-koguzbh4qmbra4fo5o2jeyv575vhcyzc/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-coloredlogs-15.0.1-koguzbh4qmbra4fo5o2jeyv575vhcyzc/lib/python3.11/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-coloredlogs-15.0.1-koguzbh4qmbra4fo5o2jeyv575vhcyzc/bin} +setenv PY_COLOREDLOGS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-coloredlogs-15.0.1-koguzbh4qmbra4fo5o2jeyv575vhcyzc} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-colormath/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-colormath/.modulerc new file mode 100644 index 00000000..0ad1730a --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-colormath/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-colormath/3.0.0-e5et5ic diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-colormath/3.0.0-e5et5ic b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-colormath/3.0.0-e5et5ic new file mode 100644 index 00000000..4111cf05 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-colormath/3.0.0-e5et5ic @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:06.621028 +## +## py-colormath@3.0.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/e5et5ic +## + + +module-whatis {Color math and conversion library.} + +proc ModulesHelp { } { + puts stderr {Name : py-colormath} + puts stderr {Version: 3.0.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Color math and conversion library.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-networkx/2.7.1-odxz2bd + module load py-numpy/1.26.4-pzeanm2 + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-networkx/2.7.1-odxz2bd + depends-on py-numpy/1.26.4-pzeanm2 + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-colormath + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-colormath-3.0.0-e5et5icbxag5b6eht7zk2g2ajgtmoyg4/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-colormath-3.0.0-e5et5icbxag5b6eht7zk2g2ajgtmoyg4/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-colormath-3.0.0-e5et5icbxag5b6eht7zk2g2ajgtmoyg4/lib/python3.11/site-packages} +setenv PY_COLORMATH_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-colormath-3.0.0-e5et5icbxag5b6eht7zk2g2ajgtmoyg4} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-contextlib2/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-contextlib2/.modulerc new file mode 100644 index 00000000..41672375 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-contextlib2/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-contextlib2/21.6.0-x6zbswk diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-contextlib2/21.6.0-x6zbswk b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-contextlib2/21.6.0-x6zbswk new file mode 100644 index 00000000..68c7926b --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-contextlib2/21.6.0-x6zbswk @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:06.871278 +## +## py-contextlib2@21.6.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/x6zbswk +## + + +module-whatis {contextlib2 is a backport of the standard library's contextlib module to earlier Python versions.} + +proc ModulesHelp { } { + puts stderr {Name : py-contextlib2} + puts stderr {Version: 21.6.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {contextlib2 is a backport of the standard library's contextlib module to} + puts stderr {earlier Python versions.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-contextlib2 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-contextlib2-21.6.0-x6zbswkqrknn2wdrtmupkunzdsojru2j/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-contextlib2-21.6.0-x6zbswkqrknn2wdrtmupkunzdsojru2j/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-contextlib2-21.6.0-x6zbswkqrknn2wdrtmupkunzdsojru2j/lib/python3.11/site-packages} +setenv PY_CONTEXTLIB2_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-contextlib2-21.6.0-x6zbswkqrknn2wdrtmupkunzdsojru2j} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-contourpy/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-contourpy/.modulerc new file mode 100644 index 00000000..d61aa75c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-contourpy/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-contourpy/1.3.0-flg2pfi +module-hide --soft --hidden-loaded py-contourpy/1.3.0-2gakdvo diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-contourpy/1.3.0-2gakdvo b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-contourpy/1.3.0-2gakdvo new file mode 100644 index 00000000..45b7ebaa --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-contourpy/1.3.0-2gakdvo @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:07.151565 +## +## py-contourpy@1.3.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/2gakdvo +## + + +module-whatis {Python library for calculating contours of 2D quadrilateral grids.} + +proc ModulesHelp { } { + puts stderr {Name : py-contourpy} + puts stderr {Version: 1.3.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Python library for calculating contours of 2D quadrilateral grids.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-numpy/1.25.2-4avjy5d + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-numpy/1.25.2-4avjy5d + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-contourpy + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-contourpy-1.3.0-2gakdvoezl37oc2qddnh7nayrlibfskh/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-contourpy-1.3.0-2gakdvoezl37oc2qddnh7nayrlibfskh/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-contourpy-1.3.0-2gakdvoezl37oc2qddnh7nayrlibfskh/lib/python3.11/site-packages} +setenv PY_CONTOURPY_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-contourpy-1.3.0-2gakdvoezl37oc2qddnh7nayrlibfskh} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-contourpy/1.3.0-flg2pfi b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-contourpy/1.3.0-flg2pfi new file mode 100644 index 00000000..0e8ff733 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-contourpy/1.3.0-flg2pfi @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:06.970012 +## +## py-contourpy@1.3.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/flg2pfi +## + + +module-whatis {Python library for calculating contours of 2D quadrilateral grids.} + +proc ModulesHelp { } { + puts stderr {Name : py-contourpy} + puts stderr {Version: 1.3.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Python library for calculating contours of 2D quadrilateral grids.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-numpy/2.1.2-rif434b + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-numpy/2.1.2-rif434b + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-contourpy + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-contourpy-1.3.0-flg2pfivaqje6nieckgoxajdpjvghncf/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-contourpy-1.3.0-flg2pfivaqje6nieckgoxajdpjvghncf/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-contourpy-1.3.0-flg2pfivaqje6nieckgoxajdpjvghncf/lib/python3.11/site-packages} +setenv PY_CONTOURPY_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-contourpy-1.3.0-flg2pfivaqje6nieckgoxajdpjvghncf} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-coverage/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-coverage/.modulerc new file mode 100644 index 00000000..d858fff1 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-coverage/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-coverage/7.2.6-buobiri diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-coverage/7.2.6-buobiri b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-coverage/7.2.6-buobiri new file mode 100644 index 00000000..cf7d7f57 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-coverage/7.2.6-buobiri @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:07.403384 +## +## py-coverage@7.2.6%gcc@13.2.0~toml build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/buobiri +## + + +module-whatis {Testing coverage checker for python} + +proc ModulesHelp { } { + puts stderr {Name : py-coverage} + puts stderr {Version: 7.2.6} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Testing coverage checker for python} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-coverage + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-coverage-7.2.6-buobiriqopg7o55q7vd3dbhyvlmkavyc/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-coverage-7.2.6-buobiriqopg7o55q7vd3dbhyvlmkavyc/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-coverage-7.2.6-buobiriqopg7o55q7vd3dbhyvlmkavyc/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-coverage-7.2.6-buobiriqopg7o55q7vd3dbhyvlmkavyc/lib/python3.11/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-coverage-7.2.6-buobiriqopg7o55q7vd3dbhyvlmkavyc/bin} +setenv PY_COVERAGE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-coverage-7.2.6-buobiriqopg7o55q7vd3dbhyvlmkavyc} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-cryptography/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-cryptography/.modulerc new file mode 100644 index 00000000..34b48a76 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-cryptography/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-cryptography/43.0.3-bvkm3yk diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-cryptography/43.0.3-bvkm3yk b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-cryptography/43.0.3-bvkm3yk new file mode 100644 index 00000000..26a58a13 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-cryptography/43.0.3-bvkm3yk @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:07.517458 +## +## py-cryptography@43.0.3%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/bvkm3yk +## + + +module-whatis {cryptography is a package which provides cryptographic recipes and primitives to Python developers} + +proc ModulesHelp { } { + puts stderr {Name : py-cryptography} + puts stderr {Version: 43.0.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {cryptography is a package which provides cryptographic recipes and} + puts stderr {primitives to Python developers} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-cffi/1.17.1-wcl64k7 + module load python/3.11.9-itykk2n + module load python-venv/1.0-okrhcwx +} else { + depends-on py-cffi/1.17.1-wcl64k7 + depends-on python/3.11.9-itykk2n + depends-on python-venv/1.0-okrhcwx +} +conflict py-cryptography + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-cryptography-43.0.3-bvkm3ykblhlpajjh4jrmgpfonlod25iq/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-cryptography-43.0.3-bvkm3ykblhlpajjh4jrmgpfonlod25iq/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-cryptography-43.0.3-bvkm3ykblhlpajjh4jrmgpfonlod25iq/lib/python3.11/site-packages} +setenv PY_CRYPTOGRAPHY_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-cryptography-43.0.3-bvkm3ykblhlpajjh4jrmgpfonlod25iq} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-cutadapt/4.7 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-cutadapt/4.7 new file mode 100644 index 00000000..663f9e49 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-cutadapt/4.7 @@ -0,0 +1,78 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:07.725932 +## +## py-cutadapt@4.7%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/sruataj +## + + +module-whatis {Cutadapt finds and removes adapter sequences, primers, poly-A tails and other types of unwanted sequence from your high-throughput sequencing reads.} + +proc ModulesHelp { } { + puts stderr {Name : py-cutadapt} + puts stderr {Version: 4.7} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Cutadapt finds and removes adapter sequences, primers, poly-A tails and} + puts stderr {other types of unwanted sequence from your high-throughput sequencing} + puts stderr {reads.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-dnaio/1.2.0-b57igoy + module load py-xopen/1.6.0-bn276mo + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-dnaio/1.2.0-b57igoy + depends-on py-xopen/1.6.0-bn276mo + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-cutadapt + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/lib/python3.11/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/bin} +setenv PY_CUTADAPT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-cutadapt-4.7-sruataj5fkp4lkuj3axsj7yduoc6527n} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-cycler/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-cycler/.modulerc new file mode 100644 index 00000000..7e5587a1 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-cycler/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-cycler/0.11.0-aoucpqf diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-cycler/0.11.0-aoucpqf b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-cycler/0.11.0-aoucpqf new file mode 100644 index 00000000..68f83c6b --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-cycler/0.11.0-aoucpqf @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:08.105088 +## +## py-cycler@0.11.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/aoucpqf +## + + +module-whatis {Composable style cycles.} + +proc ModulesHelp { } { + puts stderr {Name : py-cycler} + puts stderr {Version: 0.11.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Composable style cycles.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-cycler + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-cycler-0.11.0-aoucpqf565bx3erpmkgj7zr7vtu376ki/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-cycler-0.11.0-aoucpqf565bx3erpmkgj7zr7vtu376ki/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-cycler-0.11.0-aoucpqf565bx3erpmkgj7zr7vtu376ki/lib/python3.11/site-packages} +setenv PY_CYCLER_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-cycler-0.11.0-aoucpqf565bx3erpmkgj7zr7vtu376ki} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-cython/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-cython/.modulerc new file mode 100644 index 00000000..92a6400f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-cython/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-cython/0.29.36-butfiqv +module-hide --soft --hidden-loaded py-cython/0.29.36-bcbmjdf diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-cython/0.29.36-bcbmjdf b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-cython/0.29.36-bcbmjdf new file mode 100644 index 00000000..16ff76f2 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-cython/0.29.36-bcbmjdf @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:08.355808 +## +## py-cython@0.29.36%gcc@13.2.0 build_system=python_pip patches=c4369ad arch=linux-ubuntu22.04-x86_64_v3/bcbmjdf +## + + +module-whatis {The Cython compiler for writing C extensions for the Python language.} + +proc ModulesHelp { } { + puts stderr {Name : py-cython} + puts stderr {Version: 0.29.36} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The Cython compiler for writing C extensions for the Python language.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-setuptools/63.4.3-63ta5ci + module load python/3.8.19-dxx3zxu + module load python-venv/1.0-l4mqvrb +} else { + depends-on py-setuptools/63.4.3-63ta5ci + depends-on python/3.8.19-dxx3zxu + depends-on python-venv/1.0-l4mqvrb +} +conflict py-cython + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-cython-0.29.36-bcbmjdfivs3iyq4vmwclf3oeca4tt65p/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-cython-0.29.36-bcbmjdfivs3iyq4vmwclf3oeca4tt65p/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-cython-0.29.36-bcbmjdfivs3iyq4vmwclf3oeca4tt65p/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-cython-0.29.36-bcbmjdfivs3iyq4vmwclf3oeca4tt65p/lib/python3.8/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-cython-0.29.36-bcbmjdfivs3iyq4vmwclf3oeca4tt65p/bin} +setenv PY_CYTHON_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-cython-0.29.36-bcbmjdfivs3iyq4vmwclf3oeca4tt65p} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-cython/0.29.36-butfiqv b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-cython/0.29.36-butfiqv new file mode 100644 index 00000000..b496528b --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-cython/0.29.36-butfiqv @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:08.208811 +## +## py-cython@0.29.36%gcc@13.2.0 build_system=python_pip patches=c4369ad arch=linux-ubuntu22.04-x86_64_v3/butfiqv +## + + +module-whatis {The Cython compiler for writing C extensions for the Python language.} + +proc ModulesHelp { } { + puts stderr {Name : py-cython} + puts stderr {Version: 0.29.36} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The Cython compiler for writing C extensions for the Python language.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-setuptools/63.4.3-dk3apgd + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-setuptools/63.4.3-dk3apgd + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-cython + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-cython-0.29.36-butfiqv7o6rhs5fni5eflc7vrvw6n3ce/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-cython-0.29.36-butfiqv7o6rhs5fni5eflc7vrvw6n3ce/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-cython-0.29.36-butfiqv7o6rhs5fni5eflc7vrvw6n3ce/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-cython-0.29.36-butfiqv7o6rhs5fni5eflc7vrvw6n3ce/lib/python3.11/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-cython-0.29.36-butfiqv7o6rhs5fni5eflc7vrvw6n3ce/bin} +setenv PY_CYTHON_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-cython-0.29.36-butfiqv7o6rhs5fni5eflc7vrvw6n3ce} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-decorator/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-decorator/.modulerc new file mode 100644 index 00000000..566330e6 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-decorator/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-decorator/5.1.1-morwsis diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-decorator/5.1.1-morwsis b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-decorator/5.1.1-morwsis new file mode 100644 index 00000000..7b11cb3d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-decorator/5.1.1-morwsis @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:08.562703 +## +## py-decorator@5.1.1%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/morwsis +## + + +module-whatis {The aim of the decorator module it to simplify the usage of decorators for the average programmer, and to popularize decorators by showing various non-trivial examples.} + +proc ModulesHelp { } { + puts stderr {Name : py-decorator} + puts stderr {Version: 5.1.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The aim of the decorator module it to simplify the usage of decorators} + puts stderr {for the average programmer, and to popularize decorators by showing} + puts stderr {various non-trivial examples.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-decorator + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-decorator-5.1.1-morwsisvmgqhqs5jnwuc4c6zndukqvru/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-decorator-5.1.1-morwsisvmgqhqs5jnwuc4c6zndukqvru/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-decorator-5.1.1-morwsisvmgqhqs5jnwuc4c6zndukqvru/lib/python3.11/site-packages} +setenv PY_DECORATOR_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-decorator-5.1.1-morwsisvmgqhqs5jnwuc4c6zndukqvru} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-deeptools/3.5.3 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-deeptools/3.5.3 new file mode 100644 index 00000000..5e488d2f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-deeptools/3.5.3 @@ -0,0 +1,93 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:08.685529 +## +## py-deeptools@3.5.3%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/5omo476 +## + + +module-whatis {deepTools addresses the challenge of handling the large amounts of data that are now routinely generated from DNA sequencing centers.} + +proc ModulesHelp { } { + puts stderr {Name : py-deeptools} + puts stderr {Version: 3.5.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {deepTools addresses the challenge of handling the large amounts of data} + puts stderr {that are now routinely generated from DNA sequencing centers.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-deeptoolsintervals/0.1.9-uuuduiy + module load py-importlib-metadata/7.0.1-zicbpxt + module load py-matplotlib/3.9.2-bsuux3u + module load py-numpy/2.1.2-rif434b + module load py-numpydoc/1.5.0-hv47yf4 + module load py-plotly/5.20.0-er524ij + module load py-py2bit/0.2.1-j4ouaee + module load py-pybigwig/0.3.12-btzmazx + module load py-pysam/0.19.1-qyscevj + module load py-scipy/1.14.1-u5pel67 + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-deeptoolsintervals/0.1.9-uuuduiy + depends-on py-importlib-metadata/7.0.1-zicbpxt + depends-on py-matplotlib/3.9.2-bsuux3u + depends-on py-numpy/2.1.2-rif434b + depends-on py-numpydoc/1.5.0-hv47yf4 + depends-on py-plotly/5.20.0-er524ij + depends-on py-py2bit/0.2.1-j4ouaee + depends-on py-pybigwig/0.3.12-btzmazx + depends-on py-pysam/0.19.1-qyscevj + depends-on py-scipy/1.14.1-u5pel67 + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-deeptools + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/lib/python3.11/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/bin} +setenv PY_DEEPTOOLS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-deeptools-3.5.3-5omo476xgsiylbt5c6r2fe36ayvw6et7} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-deeptoolsintervals/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-deeptoolsintervals/.modulerc new file mode 100644 index 00000000..f3df572b --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-deeptoolsintervals/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-deeptoolsintervals/0.1.9-uuuduiy diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-deeptoolsintervals/0.1.9-uuuduiy b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-deeptoolsintervals/0.1.9-uuuduiy new file mode 100644 index 00000000..a52bc273 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-deeptoolsintervals/0.1.9-uuuduiy @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:11.292838 +## +## py-deeptoolsintervals@0.1.9%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/uuuduiy +## + + +module-whatis {A python module creating/accessing GTF-based interval trees with associated meta-data.} + +proc ModulesHelp { } { + puts stderr {Name : py-deeptoolsintervals} + puts stderr {Version: 0.1.9} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A python module creating/accessing GTF-based interval trees with} + puts stderr {associated meta-data.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-deeptoolsintervals + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-deeptoolsintervals-0.1.9-uuuduiy6dgzndcmfnbaw5roubbtibs6q/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-deeptoolsintervals-0.1.9-uuuduiy6dgzndcmfnbaw5roubbtibs6q/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-deeptoolsintervals-0.1.9-uuuduiy6dgzndcmfnbaw5roubbtibs6q/lib/python3.11/site-packages} +setenv PY_DEEPTOOLSINTERVALS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-deeptoolsintervals-0.1.9-uuuduiy6dgzndcmfnbaw5roubbtibs6q} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-dendropy/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-dendropy/.modulerc new file mode 100644 index 00000000..5c9112c2 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-dendropy/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-dendropy/4.5.2-fqewg7j diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-dendropy/4.5.2-fqewg7j b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-dendropy/4.5.2-fqewg7j new file mode 100644 index 00000000..6f77faba --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-dendropy/4.5.2-fqewg7j @@ -0,0 +1,78 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:11.395450 +## +## py-dendropy@4.5.2%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/fqewg7j +## + + +module-whatis {DendroPy is a Python library for phylogenetic computing. It provides classes and functions for the simulation, processing, and manipulation of phylogenetic trees and character matrices, and supports the reading and writing of phylogenetic data in a range of formats, such as NEXUS, NEWICK, NeXML, Phylip, FASTA, etc.} + +proc ModulesHelp { } { + puts stderr {Name : py-dendropy} + puts stderr {Version: 4.5.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {DendroPy is a Python library for phylogenetic computing. It provides} + puts stderr {classes and functions for the simulation, processing, and manipulation} + puts stderr {of phylogenetic trees and character matrices, and supports the reading} + puts stderr {and writing of phylogenetic data in a range of formats, such as NEXUS,} + puts stderr {NEWICK, NeXML, Phylip, FASTA, etc.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-setuptools/69.2.0-rhq2cbb + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-setuptools/69.2.0-rhq2cbb + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-dendropy + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-dendropy-4.5.2-fqewg7jsv7qyzvpru3oz6d4ub3hlaukz/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-dendropy-4.5.2-fqewg7jsv7qyzvpru3oz6d4ub3hlaukz/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-dendropy-4.5.2-fqewg7jsv7qyzvpru3oz6d4ub3hlaukz/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-dendropy-4.5.2-fqewg7jsv7qyzvpru3oz6d4ub3hlaukz/lib/python3.11/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-dendropy-4.5.2-fqewg7jsv7qyzvpru3oz6d4ub3hlaukz/bin} +setenv PY_DENDROPY_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-dendropy-4.5.2-fqewg7jsv7qyzvpru3oz6d4ub3hlaukz} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-distro/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-distro/.modulerc new file mode 100644 index 00000000..4f2825dd --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-distro/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-distro/1.8.0-4i72hrr diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-distro/1.8.0-4i72hrr b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-distro/1.8.0-4i72hrr new file mode 100644 index 00000000..7d184b3d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-distro/1.8.0-4i72hrr @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:11.558069 +## +## py-distro@1.8.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/4i72hrr +## + + +module-whatis {Distro - an OS platform information API.} + +proc ModulesHelp { } { + puts stderr {Name : py-distro} + puts stderr {Version: 1.8.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Distro - an OS platform information API.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9-itykk2n + module load python-venv/1.0-okrhcwx +} else { + depends-on python/3.11.9-itykk2n + depends-on python-venv/1.0-okrhcwx +} +conflict py-distro + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-distro-1.8.0-4i72hrrsj5ltfhhqnocedlvyuipx4alr/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-distro-1.8.0-4i72hrrsj5ltfhhqnocedlvyuipx4alr/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-distro-1.8.0-4i72hrrsj5ltfhhqnocedlvyuipx4alr/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-distro-1.8.0-4i72hrrsj5ltfhhqnocedlvyuipx4alr/lib/python3.11/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-distro-1.8.0-4i72hrrsj5ltfhhqnocedlvyuipx4alr/bin} +setenv PY_DISTRO_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-distro-1.8.0-4i72hrrsj5ltfhhqnocedlvyuipx4alr} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-dm-haiku/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-dm-haiku/.modulerc new file mode 100644 index 00000000..9e8ae58d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-dm-haiku/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-dm-haiku/0.0.10-yadpk4i diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-dm-haiku/0.0.10-yadpk4i b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-dm-haiku/0.0.10-yadpk4i new file mode 100644 index 00000000..e95a46e2 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-dm-haiku/0.0.10-yadpk4i @@ -0,0 +1,80 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:11.675018 +## +## py-dm-haiku@0.0.10%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/yadpk4i +## + + +module-whatis {JAX-based neural network library} + +proc ModulesHelp { } { + puts stderr {Name : py-dm-haiku} + puts stderr {Version: 0.0.10} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {JAX-based neural network library} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-absl-py/1.4.0-ojr3fkl + module load py-jax/0.4.30-5beunl7 + module load py-jmp/0.0.2-4hbfkk7 + module load py-numpy/1.25.2-2wshlgs + module load py-tabulate/0.9.0-opjm7kk + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-absl-py/1.4.0-ojr3fkl + depends-on py-jax/0.4.30-5beunl7 + depends-on py-jmp/0.0.2-4hbfkk7 + depends-on py-numpy/1.25.2-2wshlgs + depends-on py-tabulate/0.9.0-opjm7kk + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-dm-haiku + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-dm-haiku-0.0.10-yadpk4ihjbdyfjbfliivyyvrbzgivbbb/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-dm-haiku-0.0.10-yadpk4ihjbdyfjbfliivyyvrbzgivbbb/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-dm-haiku-0.0.10-yadpk4ihjbdyfjbfliivyyvrbzgivbbb/lib/python3.11/site-packages} +setenv PY_DM_HAIKU_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-dm-haiku-0.0.10-yadpk4ihjbdyfjbfliivyyvrbzgivbbb} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-dm-tree/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-dm-tree/.modulerc new file mode 100644 index 00000000..dcdfdf31 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-dm-tree/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-dm-tree/0.1.8-dvzcwcl diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-dm-tree/0.1.8-dvzcwcl b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-dm-tree/0.1.8-dvzcwcl new file mode 100644 index 00000000..f9fcd6d4 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-dm-tree/0.1.8-dvzcwcl @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:12.273923 +## +## py-dm-tree@0.1.8%gcc@13.2.0 build_system=python_pip patches=77dbd89 arch=linux-ubuntu22.04-x86_64_v3/dvzcwcl +## + + +module-whatis {tree is a library for working with nested data structures. In a way, tree generalizes the builtin map() function which only supports flat sequences, and allows to apply a function to each leaf preserving the overall structure.} + +proc ModulesHelp { } { + puts stderr {Name : py-dm-tree} + puts stderr {Version: 0.1.8} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {tree is a library for working with nested data structures. In a way,} + puts stderr {tree generalizes the builtin map() function which only supports flat} + puts stderr {sequences, and allows to apply a function to each leaf preserving the} + puts stderr {overall structure.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-dm-tree + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-dm-tree-0.1.8-dvzcwcl5q42pfezio6maaoxqmep7rkq5/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-dm-tree-0.1.8-dvzcwcl5q42pfezio6maaoxqmep7rkq5/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-dm-tree-0.1.8-dvzcwcl5q42pfezio6maaoxqmep7rkq5/lib/python3.11/site-packages} +setenv PY_DM_TREE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-dm-tree-0.1.8-dvzcwcl5q42pfezio6maaoxqmep7rkq5} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-dnaio/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-dnaio/.modulerc new file mode 100644 index 00000000..5ec4a3b2 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-dnaio/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-dnaio/1.2.0-b57igoy diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-dnaio/1.2.0-b57igoy b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-dnaio/1.2.0-b57igoy new file mode 100644 index 00000000..36c3f1ab --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-dnaio/1.2.0-b57igoy @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:12.442335 +## +## py-dnaio@1.2.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/b57igoy +## + + +module-whatis {Read and write FASTQ and FASTA} + +proc ModulesHelp { } { + puts stderr {Name : py-dnaio} + puts stderr {Version: 1.2.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Read and write FASTQ and FASTA} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-xopen/1.6.0-bn276mo + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-xopen/1.6.0-bn276mo + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-dnaio + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-dnaio-1.2.0-b57igoy2opcfijfx2xs7qqxdouth2aqj/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-dnaio-1.2.0-b57igoy2opcfijfx2xs7qqxdouth2aqj/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-dnaio-1.2.0-b57igoy2opcfijfx2xs7qqxdouth2aqj/lib/python3.11/site-packages} +setenv PY_DNAIO_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-dnaio-1.2.0-b57igoy2opcfijfx2xs7qqxdouth2aqj} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-docker/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-docker/.modulerc new file mode 100644 index 00000000..4373970e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-docker/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-docker/6.0.1-lxf5ruf diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-docker/6.0.1-lxf5ruf b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-docker/6.0.1-lxf5ruf new file mode 100644 index 00000000..ded54f45 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-docker/6.0.1-lxf5ruf @@ -0,0 +1,78 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:12.651217 +## +## py-docker@6.0.1%gcc@13.2.0~ssh build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/lxf5ruf +## + + +module-whatis {A Python library for the Docker Engine API.} + +proc ModulesHelp { } { + puts stderr {Name : py-docker} + puts stderr {Version: 6.0.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A Python library for the Docker Engine API.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-packaging/24.1-a36mhum + module load py-requests/2.32.3-2wr6uxx + module load py-urllib3/2.1.0-2lr244r + module load py-websocket-client/1.8.0-ofzwyw2 + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-packaging/24.1-a36mhum + depends-on py-requests/2.32.3-2wr6uxx + depends-on py-urllib3/2.1.0-2lr244r + depends-on py-websocket-client/1.8.0-ofzwyw2 + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-docker + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-docker-6.0.1-lxf5rufkk764r22gtvpgmsaijbyt2nov/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-docker-6.0.1-lxf5rufkk764r22gtvpgmsaijbyt2nov/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-docker-6.0.1-lxf5rufkk764r22gtvpgmsaijbyt2nov/lib/python3.11/site-packages} +setenv PY_DOCKER_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-docker-6.0.1-lxf5rufkk764r22gtvpgmsaijbyt2nov} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-docutils/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-docutils/.modulerc new file mode 100644 index 00000000..7e063128 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-docutils/.modulerc @@ -0,0 +1,4 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-docutils/0.16-jtimvy7 +module-hide --soft --hidden-loaded py-docutils/0.19-n5n7m3v +module-hide --soft --hidden-loaded py-docutils/0.20.1-y6wljfy diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-docutils/0.16-jtimvy7 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-docutils/0.16-jtimvy7 new file mode 100644 index 00000000..71bf4ab3 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-docutils/0.16-jtimvy7 @@ -0,0 +1,76 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:13.059469 +## +## py-docutils@0.16%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/jtimvy7 +## + + +module-whatis {Docutils is an open-source text processing system for processing plaintext documentation into useful formats, such as HTML, LaTeX, man-pages, open-document or XML. It includes reStructuredText, the easy to read, easy to use, what-you-see-is-what-you-get plaintext markup language.} + +proc ModulesHelp { } { + puts stderr {Name : py-docutils} + puts stderr {Version: 0.16} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Docutils is an open-source text processing system for processing} + puts stderr {plaintext documentation into useful formats, such as HTML, LaTeX, man-} + puts stderr {pages, open-document or XML. It includes reStructuredText, the easy to} + puts stderr {read, easy to use, what-you-see-is-what-you-get plaintext markup} + puts stderr {language.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.13.0-xf4zxxe + module load python-venv/1.0-6mlwnfu +} else { + depends-on python/3.13.0-xf4zxxe + depends-on python-venv/1.0-6mlwnfu +} +conflict py-docutils + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-docutils-0.16-jtimvy73bflrzbgd7d5yxbnq5ph2ldoj/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-docutils-0.16-jtimvy73bflrzbgd7d5yxbnq5ph2ldoj/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-docutils-0.16-jtimvy73bflrzbgd7d5yxbnq5ph2ldoj/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-docutils-0.16-jtimvy73bflrzbgd7d5yxbnq5ph2ldoj/lib/python3.13/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-docutils-0.16-jtimvy73bflrzbgd7d5yxbnq5ph2ldoj/bin} +setenv PY_DOCUTILS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-docutils-0.16-jtimvy73bflrzbgd7d5yxbnq5ph2ldoj} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-docutils/0.19-n5n7m3v b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-docutils/0.19-n5n7m3v new file mode 100644 index 00000000..f0135d7c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-docutils/0.19-n5n7m3v @@ -0,0 +1,76 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:13.185123 +## +## py-docutils@0.19%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/n5n7m3v +## + + +module-whatis {Docutils is an open-source text processing system for processing plaintext documentation into useful formats, such as HTML, LaTeX, man-pages, open-document or XML. It includes reStructuredText, the easy to read, easy to use, what-you-see-is-what-you-get plaintext markup language.} + +proc ModulesHelp { } { + puts stderr {Name : py-docutils} + puts stderr {Version: 0.19} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Docutils is an open-source text processing system for processing} + puts stderr {plaintext documentation into useful formats, such as HTML, LaTeX, man-} + puts stderr {pages, open-document or XML. It includes reStructuredText, the easy to} + puts stderr {read, easy to use, what-you-see-is-what-you-get plaintext markup} + puts stderr {language.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9-itykk2n + module load python-venv/1.0-okrhcwx +} else { + depends-on python/3.11.9-itykk2n + depends-on python-venv/1.0-okrhcwx +} +conflict py-docutils + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-docutils-0.19-n5n7m3v2y2au5ax37fp2pgubbfidw4hp/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-docutils-0.19-n5n7m3v2y2au5ax37fp2pgubbfidw4hp/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-docutils-0.19-n5n7m3v2y2au5ax37fp2pgubbfidw4hp/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-docutils-0.19-n5n7m3v2y2au5ax37fp2pgubbfidw4hp/lib/python3.11/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-docutils-0.19-n5n7m3v2y2au5ax37fp2pgubbfidw4hp/bin} +setenv PY_DOCUTILS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-docutils-0.19-n5n7m3v2y2au5ax37fp2pgubbfidw4hp} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-docutils/0.20.1-y6wljfy b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-docutils/0.20.1-y6wljfy new file mode 100644 index 00000000..c9893a5b --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-docutils/0.20.1-y6wljfy @@ -0,0 +1,76 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:13.311689 +## +## py-docutils@0.20.1%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/y6wljfy +## + + +module-whatis {Docutils is an open-source text processing system for processing plaintext documentation into useful formats, such as HTML, LaTeX, man-pages, open-document or XML. It includes reStructuredText, the easy to read, easy to use, what-you-see-is-what-you-get plaintext markup language.} + +proc ModulesHelp { } { + puts stderr {Name : py-docutils} + puts stderr {Version: 0.20.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Docutils is an open-source text processing system for processing} + puts stderr {plaintext documentation into useful formats, such as HTML, LaTeX, man-} + puts stderr {pages, open-document or XML. It includes reStructuredText, the easy to} + puts stderr {read, easy to use, what-you-see-is-what-you-get plaintext markup} + puts stderr {language.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-docutils + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-docutils-0.20.1-y6wljfyj4rypqsuiyuba75nxhwnby4c7/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-docutils-0.20.1-y6wljfyj4rypqsuiyuba75nxhwnby4c7/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-docutils-0.20.1-y6wljfyj4rypqsuiyuba75nxhwnby4c7/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-docutils-0.20.1-y6wljfyj4rypqsuiyuba75nxhwnby4c7/lib/python3.11/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-docutils-0.20.1-y6wljfyj4rypqsuiyuba75nxhwnby4c7/bin} +setenv PY_DOCUTILS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-docutils-0.20.1-y6wljfyj4rypqsuiyuba75nxhwnby4c7} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-editables/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-editables/.modulerc new file mode 100644 index 00000000..6f695c6d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-editables/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-editables/0.5-hxeclrh diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-editables/0.5-hxeclrh b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-editables/0.5-hxeclrh new file mode 100644 index 00000000..d5966d98 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-editables/0.5-hxeclrh @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:13.436687 +## +## py-editables@0.5%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/hxeclrh +## + + +module-whatis {A Python library for creating 'editable wheels'.} + +proc ModulesHelp { } { + puts stderr {Name : py-editables} + puts stderr {Version: 0.5} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A Python library for creating "editable wheels".} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-editables + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-editables-0.5-hxeclrhqpgmbty7txovhzj7nbfdpumo4/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-editables-0.5-hxeclrhqpgmbty7txovhzj7nbfdpumo4/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-editables-0.5-hxeclrhqpgmbty7txovhzj7nbfdpumo4/lib/python3.11/site-packages} +setenv PY_EDITABLES_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-editables-0.5-hxeclrhqpgmbty7txovhzj7nbfdpumo4} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-executing/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-executing/.modulerc new file mode 100644 index 00000000..3d2347cf --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-executing/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-executing/1.2.0-k62qakq diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-executing/1.2.0-k62qakq b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-executing/1.2.0-k62qakq new file mode 100644 index 00000000..1e5873e9 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-executing/1.2.0-k62qakq @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:13.557249 +## +## py-executing@1.2.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/k62qakq +## + + +module-whatis {Get the currently executing AST node of a frame, and other information.} + +proc ModulesHelp { } { + puts stderr {Name : py-executing} + puts stderr {Version: 1.2.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Get the currently executing AST node of a frame, and other information.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-executing + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-executing-1.2.0-k62qakqnr6wa2ok6ozqxk4e4avs34nyl/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-executing-1.2.0-k62qakqnr6wa2ok6ozqxk4e4avs34nyl/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-executing-1.2.0-k62qakqnr6wa2ok6ozqxk4e4avs34nyl/lib/python3.11/site-packages} +setenv PY_EXECUTING_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-executing-1.2.0-k62qakqnr6wa2ok6ozqxk4e4avs34nyl} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-flatbuffers/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-flatbuffers/.modulerc new file mode 100644 index 00000000..cda92162 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-flatbuffers/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-flatbuffers/24.3.25-iwol2mw diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-flatbuffers/24.3.25-iwol2mw b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-flatbuffers/24.3.25-iwol2mw new file mode 100644 index 00000000..526e6047 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-flatbuffers/24.3.25-iwol2mw @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:13.681009 +## +## py-flatbuffers@24.3.25%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/iwol2mw +## + + +module-whatis { The FlatBuffers serialization format implemented in Python. For a faster and feature-complete version check out the C++ implementation in `flatbuffers` package. } + +proc ModulesHelp { } { + puts stderr {Name : py-flatbuffers} + puts stderr {Version: 24.3.25} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr { The FlatBuffers serialization format implemented in Python. For a} + puts stderr {faster and feature-complete version check out the C++ implementation in} + puts stderr {`flatbuffers` package.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-flatbuffers + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-flatbuffers-24.3.25-iwol2mw4p6iakrkob4fxwdafb3zmcd4e/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-flatbuffers-24.3.25-iwol2mw4p6iakrkob4fxwdafb3zmcd4e/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-flatbuffers-24.3.25-iwol2mw4p6iakrkob4fxwdafb3zmcd4e/lib/python3.11/site-packages} +setenv PY_FLATBUFFERS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-flatbuffers-24.3.25-iwol2mw4p6iakrkob4fxwdafb3zmcd4e} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-flit-core/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-flit-core/.modulerc new file mode 100644 index 00000000..2342a424 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-flit-core/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-flit-core/3.8.0-7voksar +module-hide --soft --hidden-loaded py-flit-core/3.9.0-fpxtbw3 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-flit-core/3.8.0-7voksar b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-flit-core/3.8.0-7voksar new file mode 100644 index 00000000..14049739 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-flit-core/3.8.0-7voksar @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:13.799586 +## +## py-flit-core@3.8.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/7voksar +## + + +module-whatis {Distribution-building parts of Flit.} + +proc ModulesHelp { } { + puts stderr {Name : py-flit-core} + puts stderr {Version: 3.8.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Distribution-building parts of Flit.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9-itykk2n + module load python-venv/1.0-okrhcwx +} else { + depends-on python/3.11.9-itykk2n + depends-on python-venv/1.0-okrhcwx +} +conflict py-flit-core + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-flit-core-3.8.0-7voksarghmngl7lljulne5oj7x37irlu/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-flit-core-3.8.0-7voksarghmngl7lljulne5oj7x37irlu/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-flit-core-3.8.0-7voksarghmngl7lljulne5oj7x37irlu/lib/python3.11/site-packages} +setenv PY_FLIT_CORE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-flit-core-3.8.0-7voksarghmngl7lljulne5oj7x37irlu} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-flit-core/3.9.0-fpxtbw3 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-flit-core/3.9.0-fpxtbw3 new file mode 100644 index 00000000..ee795e81 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-flit-core/3.9.0-fpxtbw3 @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:13.931616 +## +## py-flit-core@3.9.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/fpxtbw3 +## + + +module-whatis {Distribution-building parts of Flit.} + +proc ModulesHelp { } { + puts stderr {Name : py-flit-core} + puts stderr {Version: 3.9.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Distribution-building parts of Flit.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.8.19-dxx3zxu + module load python-venv/1.0-l4mqvrb +} else { + depends-on python/3.8.19-dxx3zxu + depends-on python-venv/1.0-l4mqvrb +} +conflict py-flit-core + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-flit-core-3.9.0-fpxtbw3tixp4mc4n2ttkihu6w3kxnswf/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-flit-core-3.9.0-fpxtbw3tixp4mc4n2ttkihu6w3kxnswf/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-flit-core-3.9.0-fpxtbw3tixp4mc4n2ttkihu6w3kxnswf/lib/python3.8/site-packages} +setenv PY_FLIT_CORE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-flit-core-3.9.0-fpxtbw3tixp4mc4n2ttkihu6w3kxnswf} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-fonttools/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-fonttools/.modulerc new file mode 100644 index 00000000..9be17268 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-fonttools/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-fonttools/4.39.4-kzlzaif diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-fonttools/4.39.4-kzlzaif b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-fonttools/4.39.4-kzlzaif new file mode 100644 index 00000000..37f3fec9 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-fonttools/4.39.4-kzlzaif @@ -0,0 +1,78 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:14.092015 +## +## py-fonttools@4.39.4%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/kzlzaif +## + + +module-whatis {fontTools is a library for manipulating fonts, written in Python.} + +proc ModulesHelp { } { + puts stderr {Name : py-fonttools} + puts stderr {Version: 4.39.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {fontTools is a library for manipulating fonts, written in Python. The} + puts stderr {project includes the TTX tool, that can convert TrueType and OpenType} + puts stderr {fonts to and from an XML text format, which is also called TTX. It} + puts stderr {supports TrueType, OpenType, AFM and to an extent Type 1 and some Mac-} + puts stderr {specific formats.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-fonttools + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-fonttools-4.39.4-kzlzaifi2l6bfauafezmzczpysc4mm6j/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-fonttools-4.39.4-kzlzaifi2l6bfauafezmzczpysc4mm6j/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-fonttools-4.39.4-kzlzaifi2l6bfauafezmzczpysc4mm6j/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-fonttools-4.39.4-kzlzaifi2l6bfauafezmzczpysc4mm6j/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-fonttools-4.39.4-kzlzaifi2l6bfauafezmzczpysc4mm6j/lib/python3.11/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-fonttools-4.39.4-kzlzaifi2l6bfauafezmzczpysc4mm6j/bin} +setenv PY_FONTTOOLS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-fonttools-4.39.4-kzlzaifi2l6bfauafezmzczpysc4mm6j} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-fypp/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-fypp/.modulerc new file mode 100644 index 00000000..57e72f26 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-fypp/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-fypp/3.1-fksobpf diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-fypp/3.1-fksobpf b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-fypp/3.1-fksobpf new file mode 100644 index 00000000..ac89f6ea --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-fypp/3.1-fksobpf @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:14.221126 +## +## py-fypp@3.1%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/fksobpf +## + + +module-whatis {Python powered Fortran preprocessor.} + +proc ModulesHelp { } { + puts stderr {Name : py-fypp} + puts stderr {Version: 3.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Python powered Fortran preprocessor.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-fypp + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-fypp-3.1-fksobpfjdb6r7x5u2f4a5gjutikvchrb/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-fypp-3.1-fksobpfjdb6r7x5u2f4a5gjutikvchrb/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-fypp-3.1-fksobpfjdb6r7x5u2f4a5gjutikvchrb/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-fypp-3.1-fksobpfjdb6r7x5u2f4a5gjutikvchrb/lib/python3.11/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-fypp-3.1-fksobpfjdb6r7x5u2f4a5gjutikvchrb/bin} +setenv PY_FYPP_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-fypp-3.1-fksobpfjdb6r7x5u2f4a5gjutikvchrb} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-gast/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-gast/.modulerc new file mode 100644 index 00000000..81bf5b4c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-gast/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-gast/0.5.4-an2z5sm +module-hide --soft --hidden-loaded py-gast/0.5.4-myvhqk6 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-gast/0.5.4-an2z5sm b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-gast/0.5.4-an2z5sm new file mode 100644 index 00000000..02a39022 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-gast/0.5.4-an2z5sm @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:14.463090 +## +## py-gast@0.5.4%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/an2z5sm +## + + +module-whatis {Python AST that abstracts the underlying Python version} + +proc ModulesHelp { } { + puts stderr {Name : py-gast} + puts stderr {Version: 0.5.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Python AST that abstracts the underlying Python version} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-gast + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-gast-0.5.4-an2z5smi3djfnmtyyxxi4xgzrc3plevr/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-gast-0.5.4-an2z5smi3djfnmtyyxxi4xgzrc3plevr/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-gast-0.5.4-an2z5smi3djfnmtyyxxi4xgzrc3plevr/lib/python3.11/site-packages} +setenv PY_GAST_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-gast-0.5.4-an2z5smi3djfnmtyyxxi4xgzrc3plevr} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-gast/0.5.4-myvhqk6 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-gast/0.5.4-myvhqk6 new file mode 100644 index 00000000..83cd65f3 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-gast/0.5.4-myvhqk6 @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:14.345822 +## +## py-gast@0.5.4%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/myvhqk6 +## + + +module-whatis {Python AST that abstracts the underlying Python version} + +proc ModulesHelp { } { + puts stderr {Name : py-gast} + puts stderr {Version: 0.5.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Python AST that abstracts the underlying Python version} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.8.19-dxx3zxu + module load python-venv/1.0-l4mqvrb +} else { + depends-on python/3.8.19-dxx3zxu + depends-on python-venv/1.0-l4mqvrb +} +conflict py-gast + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-gast-0.5.4-myvhqk6fiswqul6yrbcv4f7u532wyodi/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-gast-0.5.4-myvhqk6fiswqul6yrbcv4f7u532wyodi/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-gast-0.5.4-myvhqk6fiswqul6yrbcv4f7u532wyodi/lib/python3.8/site-packages} +setenv PY_GAST_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-gast-0.5.4-myvhqk6fiswqul6yrbcv4f7u532wyodi} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-gffutils/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-gffutils/.modulerc new file mode 100644 index 00000000..6d73d8e3 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-gffutils/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-gffutils/0.10.1-y65zfcx diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-gffutils/0.10.1-y65zfcx b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-gffutils/0.10.1-y65zfcx new file mode 100644 index 00000000..816b7fb8 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-gffutils/0.10.1-y65zfcx @@ -0,0 +1,87 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:14.575133 +## +## py-gffutils@0.10.1%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/y65zfcx +## + + +module-whatis {GFF and GTF file manipulation and interconversion} + +proc ModulesHelp { } { + puts stderr {Name : py-gffutils} + puts stderr {Version: 0.10.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {GFF and GTF file manipulation and interconversion gffutils is a Python} + puts stderr {package for working with and manipulating the GFF and GTF format files} + puts stderr {typically used for genomic annotations. Files are loaded into a sqlite3} + puts stderr {database, allowing much more complex manipulation of hierarchical} + puts stderr {features (e.g., genes, transcripts, and exons) than is possible with} + puts stderr {plain-text methods alone.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-argcomplete/3.5.0-svtxcmo + module load py-argh/0.26.2-tt6qweh + module load py-pyfaidx/0.8.1.2-zciedjl + module load py-simplejson/3.19.1-umvh6lv + module load py-six/1.16.0-2bnsnfx + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-argcomplete/3.5.0-svtxcmo + depends-on py-argh/0.26.2-tt6qweh + depends-on py-pyfaidx/0.8.1.2-zciedjl + depends-on py-simplejson/3.19.1-umvh6lv + depends-on py-six/1.16.0-2bnsnfx + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-gffutils + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-gffutils-0.10.1-y65zfcxmjzmvtoleubvgr24orbt2jywu/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-gffutils-0.10.1-y65zfcxmjzmvtoleubvgr24orbt2jywu/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-gffutils-0.10.1-y65zfcxmjzmvtoleubvgr24orbt2jywu/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-gffutils-0.10.1-y65zfcxmjzmvtoleubvgr24orbt2jywu/lib/python3.11/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-gffutils-0.10.1-y65zfcxmjzmvtoleubvgr24orbt2jywu/bin} +setenv PY_GFFUTILS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-gffutils-0.10.1-y65zfcxmjzmvtoleubvgr24orbt2jywu} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-google-pasta/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-google-pasta/.modulerc new file mode 100644 index 00000000..836eb459 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-google-pasta/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-google-pasta/0.2.0-jebqzhc diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-google-pasta/0.2.0-jebqzhc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-google-pasta/0.2.0-jebqzhc new file mode 100644 index 00000000..8203df8b --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-google-pasta/0.2.0-jebqzhc @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:14.953409 +## +## py-google-pasta@0.2.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/jebqzhc +## + + +module-whatis {pasta is an AST-based Python refactoring library.} + +proc ModulesHelp { } { + puts stderr {Name : py-google-pasta} + puts stderr {Version: 0.2.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {pasta is an AST-based Python refactoring library.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-six/1.16.0-i34z4g2 + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-six/1.16.0-i34z4g2 + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-google-pasta + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-google-pasta-0.2.0-jebqzhco5v7xbfz4d6zx5hczspi4jmui/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-google-pasta-0.2.0-jebqzhco5v7xbfz4d6zx5hczspi4jmui/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-google-pasta-0.2.0-jebqzhco5v7xbfz4d6zx5hczspi4jmui/lib/python3.11/site-packages} +setenv PY_GOOGLE_PASTA_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-google-pasta-0.2.0-jebqzhco5v7xbfz4d6zx5hczspi4jmui} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-grpcio/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-grpcio/.modulerc new file mode 100644 index 00000000..1abd61a4 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-grpcio/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-grpcio/1.62.2-y57t6pm diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-grpcio/1.62.2-y57t6pm b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-grpcio/1.62.2-y57t6pm new file mode 100644 index 00000000..55d7004a --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-grpcio/1.62.2-y57t6pm @@ -0,0 +1,78 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:15.113697 +## +## py-grpcio@1.62.2%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/y57t6pm +## + + +module-whatis {HTTP/2-based RPC framework.} + +proc ModulesHelp { } { + puts stderr {Name : py-grpcio} + puts stderr {Version: 1.62.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {HTTP/2-based RPC framework.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-coverage/7.2.6-buobiri + module load py-cython/0.29.36-butfiqv + module load py-protobuf/4.25.3-b4ekuzd + module load py-wheel/0.41.2-c5gnlxv + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-coverage/7.2.6-buobiri + depends-on py-cython/0.29.36-butfiqv + depends-on py-protobuf/4.25.3-b4ekuzd + depends-on py-wheel/0.41.2-c5gnlxv + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-grpcio + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-grpcio-1.62.2-y57t6pmexthpedphmgfml2ml7mzxs2pg/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-grpcio-1.62.2-y57t6pmexthpedphmgfml2ml7mzxs2pg/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-grpcio-1.62.2-y57t6pmexthpedphmgfml2ml7mzxs2pg/lib/python3.11/site-packages} +setenv PY_GRPCIO_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-grpcio-1.62.2-y57t6pmexthpedphmgfml2ml7mzxs2pg} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-h5py/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-h5py/.modulerc new file mode 100644 index 00000000..3759e367 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-h5py/.modulerc @@ -0,0 +1,4 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-h5py/3.12.1-m5d33ci +module-hide --soft --hidden-loaded py-h5py/3.12.1-uq2r7s6 +module-hide --soft --hidden-loaded py-h5py/3.12.1-73asaag diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-h5py/3.12.1-73asaag b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-h5py/3.12.1-73asaag new file mode 100644 index 00000000..7fc183a6 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-h5py/3.12.1-73asaag @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:15.825761 +## +## py-h5py@3.12.1%gcc@13.2.0~mpi build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/73asaag +## + + +module-whatis {The h5py package provides both a high- and low-level interface to the HDF5 library from Python.} + +proc ModulesHelp { } { + puts stderr {Name : py-h5py} + puts stderr {Version: 3.12.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The h5py package provides both a high- and low-level interface to the} + puts stderr {HDF5 library from Python.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-numpy/1.25.2-4avjy5d + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-numpy/1.25.2-4avjy5d + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-h5py + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-h5py-3.12.1-73asaagj7t62tg6642ijhuc4qqct2j3j/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-h5py-3.12.1-73asaagj7t62tg6642ijhuc4qqct2j3j/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-h5py-3.12.1-73asaagj7t62tg6642ijhuc4qqct2j3j/lib/python3.11/site-packages} +setenv PY_H5PY_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-h5py-3.12.1-73asaagj7t62tg6642ijhuc4qqct2j3j} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-h5py/3.12.1-m5d33ci b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-h5py/3.12.1-m5d33ci new file mode 100644 index 00000000..73574c41 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-h5py/3.12.1-m5d33ci @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:15.442687 +## +## py-h5py@3.12.1%gcc@13.2.0~mpi build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/m5d33ci +## + + +module-whatis {The h5py package provides both a high- and low-level interface to the HDF5 library from Python.} + +proc ModulesHelp { } { + puts stderr {Name : py-h5py} + puts stderr {Version: 3.12.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The h5py package provides both a high- and low-level interface to the} + puts stderr {HDF5 library from Python.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-numpy/2.1.2-rif434b + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-numpy/2.1.2-rif434b + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-h5py + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-h5py-3.12.1-m5d33civenxexh2u6yk56ghmcxpz344i/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-h5py-3.12.1-m5d33civenxexh2u6yk56ghmcxpz344i/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-h5py-3.12.1-m5d33civenxexh2u6yk56ghmcxpz344i/lib/python3.11/site-packages} +setenv PY_H5PY_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-h5py-3.12.1-m5d33civenxexh2u6yk56ghmcxpz344i} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-h5py/3.12.1-uq2r7s6 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-h5py/3.12.1-uq2r7s6 new file mode 100644 index 00000000..ef13e9b5 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-h5py/3.12.1-uq2r7s6 @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:15.616036 +## +## py-h5py@3.12.1%gcc@13.2.0~mpi build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/uq2r7s6 +## + + +module-whatis {The h5py package provides both a high- and low-level interface to the HDF5 library from Python.} + +proc ModulesHelp { } { + puts stderr {Name : py-h5py} + puts stderr {Version: 3.12.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The h5py package provides both a high- and low-level interface to the} + puts stderr {HDF5 library from Python.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-numpy/1.25.2-2wshlgs + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-numpy/1.25.2-2wshlgs + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-h5py + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-h5py-3.12.1-uq2r7s64vri4yhhiaytw5ztctja3oeja/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-h5py-3.12.1-uq2r7s64vri4yhhiaytw5ztctja3oeja/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-h5py-3.12.1-uq2r7s64vri4yhhiaytw5ztctja3oeja/lib/python3.11/site-packages} +setenv PY_H5PY_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-h5py-3.12.1-uq2r7s64vri4yhhiaytw5ztctja3oeja} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-hatch-fancy-pypi-readme/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-hatch-fancy-pypi-readme/.modulerc new file mode 100644 index 00000000..3c446428 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-hatch-fancy-pypi-readme/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-hatch-fancy-pypi-readme/23.1.0-sgpq36s diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-hatch-fancy-pypi-readme/23.1.0-sgpq36s b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-hatch-fancy-pypi-readme/23.1.0-sgpq36s new file mode 100644 index 00000000..413ff5a8 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-hatch-fancy-pypi-readme/23.1.0-sgpq36s @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:16.042490 +## +## py-hatch-fancy-pypi-readme@23.1.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/sgpq36s +## + + +module-whatis {Fancy PyPI READMEs with Hatch.} + +proc ModulesHelp { } { + puts stderr {Name : py-hatch-fancy-pypi-readme} + puts stderr {Version: 23.1.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Fancy PyPI READMEs with Hatch.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-hatchling/1.25.0-ktn6g2k + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-hatchling/1.25.0-ktn6g2k + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-hatch-fancy-pypi-readme + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-hatch-fancy-pypi-readme-23.1.0-sgpq36szd4ofu6qieb53qrdsb3aexfrb/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-hatch-fancy-pypi-readme-23.1.0-sgpq36szd4ofu6qieb53qrdsb3aexfrb/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-hatch-fancy-pypi-readme-23.1.0-sgpq36szd4ofu6qieb53qrdsb3aexfrb/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-hatch-fancy-pypi-readme-23.1.0-sgpq36szd4ofu6qieb53qrdsb3aexfrb/lib/python3.11/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-hatch-fancy-pypi-readme-23.1.0-sgpq36szd4ofu6qieb53qrdsb3aexfrb/bin} +setenv PY_HATCH_FANCY_PYPI_README_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-hatch-fancy-pypi-readme-23.1.0-sgpq36szd4ofu6qieb53qrdsb3aexfrb} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-hatch-vcs/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-hatch-vcs/.modulerc new file mode 100644 index 00000000..9b6adf59 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-hatch-vcs/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-hatch-vcs/0.4.0-6lkgu7i diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-hatch-vcs/0.4.0-6lkgu7i b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-hatch-vcs/0.4.0-6lkgu7i new file mode 100644 index 00000000..38dd080b --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-hatch-vcs/0.4.0-6lkgu7i @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:16.478028 +## +## py-hatch-vcs@0.4.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/6lkgu7i +## + + +module-whatis {Hatch plugin for versioning with your preferred VCS} + +proc ModulesHelp { } { + puts stderr {Name : py-hatch-vcs} + puts stderr {Version: 0.4.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Hatch plugin for versioning with your preferred VCS} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-hatchling/1.25.0-ktn6g2k + module load py-setuptools-scm/8.0.4-bej4vfd + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-hatchling/1.25.0-ktn6g2k + depends-on py-setuptools-scm/8.0.4-bej4vfd + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-hatch-vcs + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-hatch-vcs-0.4.0-6lkgu7iuwc2pdyvy3ekt4sb3ypyfwtiw/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-hatch-vcs-0.4.0-6lkgu7iuwc2pdyvy3ekt4sb3ypyfwtiw/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-hatch-vcs-0.4.0-6lkgu7iuwc2pdyvy3ekt4sb3ypyfwtiw/lib/python3.11/site-packages} +setenv PY_HATCH_VCS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-hatch-vcs-0.4.0-6lkgu7iuwc2pdyvy3ekt4sb3ypyfwtiw} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-hatchling/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-hatchling/.modulerc new file mode 100644 index 00000000..75f490de --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-hatchling/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-hatchling/1.25.0-ktn6g2k diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-hatchling/1.25.0-ktn6g2k b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-hatchling/1.25.0-ktn6g2k new file mode 100644 index 00000000..c887f4c3 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-hatchling/1.25.0-ktn6g2k @@ -0,0 +1,82 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:17.056430 +## +## py-hatchling@1.25.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/ktn6g2k +## + + +module-whatis {Modern, extensible Python build backend.} + +proc ModulesHelp { } { + puts stderr {Name : py-hatchling} + puts stderr {Version: 1.25.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Modern, extensible Python build backend.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-editables/0.5-hxeclrh + module load py-packaging/24.1-a36mhum + module load py-pathspec/0.11.1-sn5h6i5 + module load py-pluggy/1.5.0-7wnsu7l + module load py-trove-classifiers/2023.8.7-5aaxcgp + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-editables/0.5-hxeclrh + depends-on py-packaging/24.1-a36mhum + depends-on py-pathspec/0.11.1-sn5h6i5 + depends-on py-pluggy/1.5.0-7wnsu7l + depends-on py-trove-classifiers/2023.8.7-5aaxcgp + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-hatchling + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-hatchling-1.25.0-ktn6g2kbxtywfkeugzyuelkgakboy236/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-hatchling-1.25.0-ktn6g2kbxtywfkeugzyuelkgakboy236/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-hatchling-1.25.0-ktn6g2kbxtywfkeugzyuelkgakboy236/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-hatchling-1.25.0-ktn6g2kbxtywfkeugzyuelkgakboy236/lib/python3.11/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-hatchling-1.25.0-ktn6g2kbxtywfkeugzyuelkgakboy236/bin} +setenv PY_HATCHLING_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-hatchling-1.25.0-ktn6g2kbxtywfkeugzyuelkgakboy236} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-humanfriendly/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-humanfriendly/.modulerc new file mode 100644 index 00000000..d8ca8e95 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-humanfriendly/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-humanfriendly/10.0-jfg4djo diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-humanfriendly/10.0-jfg4djo b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-humanfriendly/10.0-jfg4djo new file mode 100644 index 00000000..4572ff4d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-humanfriendly/10.0-jfg4djo @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:18.955832 +## +## py-humanfriendly@10.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/jfg4djo +## + + +module-whatis {Human friendly output for text interfaces using Python} + +proc ModulesHelp { } { + puts stderr {Name : py-humanfriendly} + puts stderr {Version: 10.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Human friendly output for text interfaces using Python} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-humanfriendly + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-humanfriendly-10.0-jfg4djo2b5vfdaolpolqwntrenwwcf53/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-humanfriendly-10.0-jfg4djo2b5vfdaolpolqwntrenwwcf53/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-humanfriendly-10.0-jfg4djo2b5vfdaolpolqwntrenwwcf53/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-humanfriendly-10.0-jfg4djo2b5vfdaolpolqwntrenwwcf53/lib/python3.11/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-humanfriendly-10.0-jfg4djo2b5vfdaolpolqwntrenwwcf53/bin} +setenv PY_HUMANFRIENDLY_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-humanfriendly-10.0-jfg4djo2b5vfdaolpolqwntrenwwcf53} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-humanize/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-humanize/.modulerc new file mode 100644 index 00000000..09cd36ad --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-humanize/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-humanize/4.9.0-aaozfuc diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-humanize/4.9.0-aaozfuc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-humanize/4.9.0-aaozfuc new file mode 100644 index 00000000..c0144c84 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-humanize/4.9.0-aaozfuc @@ -0,0 +1,77 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:19.062512 +## +## py-humanize@4.9.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/aaozfuc +## + + +module-whatis {This modest package contains various common humanization utilities, like turning a number into a fuzzy human readable duration ('3 minutes ago') or into a human readable size or throughput. It works with python 2.7 and 3.3 and is localized to Russian, French, Korean and Slovak. } + +proc ModulesHelp { } { + puts stderr {Name : py-humanize} + puts stderr {Version: 4.9.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {This modest package contains various common humanization utilities, like} + puts stderr {turning a number into a fuzzy human readable duration ('3 minutes ago')} + puts stderr {or into a human readable size or throughput. It works with python 2.7} + puts stderr {and 3.3 and is localized to Russian, French, Korean and Slovak.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-hatch-vcs/0.4.0-6lkgu7i + module load py-hatchling/1.25.0-ktn6g2k + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-hatch-vcs/0.4.0-6lkgu7i + depends-on py-hatchling/1.25.0-ktn6g2k + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-humanize + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-humanize-4.9.0-aaozfucydo4wf7xe4yrsj2dt4ldlhboo/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-humanize-4.9.0-aaozfucydo4wf7xe4yrsj2dt4ldlhboo/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-humanize-4.9.0-aaozfucydo4wf7xe4yrsj2dt4ldlhboo/lib/python3.11/site-packages} +setenv PY_HUMANIZE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-humanize-4.9.0-aaozfucydo4wf7xe4yrsj2dt4ldlhboo} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-idna/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-idna/.modulerc new file mode 100644 index 00000000..6bf90499 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-idna/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-idna/3.4-x3xerti diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-idna/3.4-x3xerti b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-idna/3.4-x3xerti new file mode 100644 index 00000000..e26038b5 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-idna/3.4-x3xerti @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:19.677752 +## +## py-idna@3.4%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/x3xerti +## + + +module-whatis {Internationalized Domain Names for Python (IDNA 2008 and UTS #46)} + +proc ModulesHelp { } { + puts stderr {Name : py-idna} + puts stderr {Version: 3.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Internationalized Domain Names for Python (IDNA 2008 and UTS #46)} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-idna + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-idna-3.4-x3xertinqstfbbqw7xd2enhkzdyyziuh/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-idna-3.4-x3xertinqstfbbqw7xd2enhkzdyyziuh/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-idna-3.4-x3xertinqstfbbqw7xd2enhkzdyyziuh/lib/python3.11/site-packages} +setenv PY_IDNA_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-idna-3.4-x3xertinqstfbbqw7xd2enhkzdyyziuh} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-imagesize/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-imagesize/.modulerc new file mode 100644 index 00000000..3919b9c2 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-imagesize/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-imagesize/1.4.1-tsc7bhd diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-imagesize/1.4.1-tsc7bhd b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-imagesize/1.4.1-tsc7bhd new file mode 100644 index 00000000..488fff1a --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-imagesize/1.4.1-tsc7bhd @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:19.798113 +## +## py-imagesize@1.4.1%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/tsc7bhd +## + + +module-whatis {Parses image file headers and returns image size. Supports PNG, JPEG, JPEG2000, and GIF image file formats.} + +proc ModulesHelp { } { + puts stderr {Name : py-imagesize} + puts stderr {Version: 1.4.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Parses image file headers and returns image size. Supports PNG, JPEG,} + puts stderr {JPEG2000, and GIF image file formats.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-imagesize + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-imagesize-1.4.1-tsc7bhdgrjf335nufvfizp4zmn2wpmno/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-imagesize-1.4.1-tsc7bhdgrjf335nufvfizp4zmn2wpmno/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-imagesize-1.4.1-tsc7bhdgrjf335nufvfizp4zmn2wpmno/lib/python3.11/site-packages} +setenv PY_IMAGESIZE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-imagesize-1.4.1-tsc7bhdgrjf335nufvfizp4zmn2wpmno} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-immutabledict/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-immutabledict/.modulerc new file mode 100644 index 00000000..2fa8a223 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-immutabledict/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-immutabledict/2.2.1-ztqbrjz diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-immutabledict/2.2.1-ztqbrjz b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-immutabledict/2.2.1-ztqbrjz new file mode 100644 index 00000000..4b0bf712 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-immutabledict/2.2.1-ztqbrjz @@ -0,0 +1,78 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:19.888832 +## +## py-immutabledict@2.2.1%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/ztqbrjz +## + + +module-whatis {A fork of frozendict, an immutable wrapper around dictionaries. It implements the complete mapping interface and can be used as a drop-in replacement for dictionaries where immutability is desired. The immutabledict constructor mimics dict, and all of the expected interfaces (iter, len, repr, hash, getitem) are provided. Note that an immutabledict does not guarantee the immutability of its values, so the utility of hash method is restricted by usage. The only difference is that the copy() method of immutable takes variable keyword arguments, which will be present as key/value pairs in the new, immutable copy.} + +proc ModulesHelp { } { + puts stderr {Name : py-immutabledict} + puts stderr {Version: 2.2.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A fork of frozendict, an immutable wrapper around dictionaries. It} + puts stderr {implements the complete mapping interface and can be used as a drop-in} + puts stderr {replacement for dictionaries where immutability is desired. The} + puts stderr {immutabledict constructor mimics dict, and all of the expected} + puts stderr {interfaces (iter, len, repr, hash, getitem) are provided. Note that an} + puts stderr {immutabledict does not guarantee the immutability of its values, so the} + puts stderr {utility of hash method is restricted by usage. The only difference is} + puts stderr {that the copy() method of immutable takes variable keyword arguments,} + puts stderr {which will be present as key/value pairs in the new, immutable copy.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-immutabledict + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-immutabledict-2.2.1-ztqbrjza2doelizbexv2anagp2vdcufs/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-immutabledict-2.2.1-ztqbrjza2doelizbexv2anagp2vdcufs/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-immutabledict-2.2.1-ztqbrjza2doelizbexv2anagp2vdcufs/lib/python3.11/site-packages} +setenv PY_IMMUTABLEDICT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-immutabledict-2.2.1-ztqbrjza2doelizbexv2anagp2vdcufs} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-importlib-metadata/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-importlib-metadata/.modulerc new file mode 100644 index 00000000..44b52e5e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-importlib-metadata/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-importlib-metadata/7.0.1-zicbpxt diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-importlib-metadata/7.0.1-zicbpxt b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-importlib-metadata/7.0.1-zicbpxt new file mode 100644 index 00000000..bc4160db --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-importlib-metadata/7.0.1-zicbpxt @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:20.002925 +## +## py-importlib-metadata@7.0.1%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/zicbpxt +## + + +module-whatis {Read metadata from Python packages.} + +proc ModulesHelp { } { + puts stderr {Name : py-importlib-metadata} + puts stderr {Version: 7.0.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Read metadata from Python packages.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-zipp/3.17.0-ej7x67s + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-zipp/3.17.0-ej7x67s + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-importlib-metadata + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-importlib-metadata-7.0.1-zicbpxt4ssnk5ukibzulx3h7rr6y5cjp/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-importlib-metadata-7.0.1-zicbpxt4ssnk5ukibzulx3h7rr6y5cjp/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-importlib-metadata-7.0.1-zicbpxt4ssnk5ukibzulx3h7rr6y5cjp/lib/python3.11/site-packages} +setenv PY_IMPORTLIB_METADATA_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-importlib-metadata-7.0.1-zicbpxt4ssnk5ukibzulx3h7rr6y5cjp} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-ipython/8.14.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-ipython/8.14.0 new file mode 100644 index 00000000..9358c847 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-ipython/8.14.0 @@ -0,0 +1,95 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:20.193863 +## +## py-ipython@8.14.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/uwbnv7d +## + + +module-whatis {IPython provides a rich toolkit to help you make the most out of using Python interactively.} + +proc ModulesHelp { } { + puts stderr {Name : py-ipython} + puts stderr {Version: 8.14.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {IPython provides a rich toolkit to help you make the most out of using} + puts stderr {Python interactively.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-backcall/0.2.0-5minh2g + module load py-decorator/5.1.1-morwsis + module load py-jedi/0.18.2-3cq7rgn + module load py-matplotlib-inline/0.1.6-5ma56ml + module load py-pexpect/4.9.0-rvw66yj + module load py-pickleshare/0.7.5-ic4ib6j + module load py-prompt-toolkit/3.0.43-fuj3cjt + module load py-pygments/2.18.0-xfh2ndk + module load py-stack-data/0.6.2-x7svjdg + module load py-traitlets/5.14.3-k67pwzn + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-backcall/0.2.0-5minh2g + depends-on py-decorator/5.1.1-morwsis + depends-on py-jedi/0.18.2-3cq7rgn + depends-on py-matplotlib-inline/0.1.6-5ma56ml + depends-on py-pexpect/4.9.0-rvw66yj + depends-on py-pickleshare/0.7.5-ic4ib6j + depends-on py-prompt-toolkit/3.0.43-fuj3cjt + depends-on py-pygments/2.18.0-xfh2ndk + depends-on py-stack-data/0.6.2-x7svjdg + depends-on py-traitlets/5.14.3-k67pwzn + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-ipython + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/lib/python3.11/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/bin} +setenv PY_IPYTHON_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-ipython-8.14.0-uwbnv7dvzmkvkm2ai2bciv4r2oivduon} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-isal/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-isal/.modulerc new file mode 100644 index 00000000..a746cd49 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-isal/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-isal/1.1.0-yawdljx diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-isal/1.1.0-yawdljx b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-isal/1.1.0-yawdljx new file mode 100644 index 00000000..03f07c3d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-isal/1.1.0-yawdljx @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:21.917767 +## +## py-isal@1.1.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/yawdljx +## + + +module-whatis {Faster zlib and gzip compatible compression and decompression by providing Python bindings for the ISA-L library.} + +proc ModulesHelp { } { + puts stderr {Name : py-isal} + puts stderr {Version: 1.1.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Faster zlib and gzip compatible compression and decompression by} + puts stderr {providing Python bindings for the ISA-L library.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-isal + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-isal-1.1.0-yawdljxiupm6d6fvkoknl63hsjtwbhdy/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-isal-1.1.0-yawdljxiupm6d6fvkoknl63hsjtwbhdy/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-isal-1.1.0-yawdljxiupm6d6fvkoknl63hsjtwbhdy/lib/python3.11/site-packages} +setenv PY_ISAL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-isal-1.1.0-yawdljxiupm6d6fvkoknl63hsjtwbhdy} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-jax/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-jax/.modulerc new file mode 100644 index 00000000..def8f4b3 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-jax/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-jax/0.4.30-5beunl7 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-jax/0.4.30-5beunl7 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-jax/0.4.30-5beunl7 new file mode 100644 index 00000000..068f4f98 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-jax/0.4.30-5beunl7 @@ -0,0 +1,87 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:22.034185 +## +## py-jax@0.4.30%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/5beunl7 +## + + +module-whatis {JAX is Autograd and XLA, brought together for high-performance machine learning research. With its updated version of Autograd, JAX can automatically differentiate native Python and NumPy functions. It can differentiate through loops, branches, recursion, and closures, and it can take derivatives of derivatives of derivatives. It supports reverse-mode differentiation (a.k.a. backpropagation) via grad as well as forward-mode differentiation, and the two can be composed arbitrarily to any order.} + +proc ModulesHelp { } { + puts stderr {Name : py-jax} + puts stderr {Version: 0.4.30} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {JAX is Autograd and XLA, brought together for high-performance machine} + puts stderr {learning research. With its updated version of Autograd, JAX can} + puts stderr {automatically differentiate native Python and NumPy functions. It can} + puts stderr {differentiate through loops, branches, recursion, and closures, and it} + puts stderr {can take derivatives of derivatives of derivatives. It supports reverse-} + puts stderr {mode differentiation (a.k.a. backpropagation) via grad as well as} + puts stderr {forward-mode differentiation, and the two can be composed arbitrarily to} + puts stderr {any order.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-jaxlib/0.4.28-kfjqjvj + module load py-ml-dtypes/0.4.0-qnl5eqq + module load py-numpy/1.25.2-2wshlgs + module load py-opt-einsum/3.3.0-anjao2l + module load py-scipy/1.14.1-3aemdsc + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-jaxlib/0.4.28-kfjqjvj + depends-on py-ml-dtypes/0.4.0-qnl5eqq + depends-on py-numpy/1.25.2-2wshlgs + depends-on py-opt-einsum/3.3.0-anjao2l + depends-on py-scipy/1.14.1-3aemdsc + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-jax + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-jax-0.4.30-5beunl7753utzwx6lcmm437t536wcnqg/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-jax-0.4.30-5beunl7753utzwx6lcmm437t536wcnqg/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-jax-0.4.30-5beunl7753utzwx6lcmm437t536wcnqg/lib/python3.11/site-packages} +setenv PY_JAX_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-jax-0.4.30-5beunl7753utzwx6lcmm437t536wcnqg} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-jaxlib/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-jaxlib/.modulerc new file mode 100644 index 00000000..cf3e00cc --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-jaxlib/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-jaxlib/0.4.28-kfjqjvj diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-jaxlib/0.4.28-kfjqjvj b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-jaxlib/0.4.28-kfjqjvj new file mode 100644 index 00000000..1b065120 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-jaxlib/0.4.28-kfjqjvj @@ -0,0 +1,76 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:22.478629 +## +## py-jaxlib@0.4.28%gcc@13.2.0+cuda+nccl~rocm build_system=python_pip cuda_arch=75 arch=linux-ubuntu22.04-x86_64_v3/kfjqjvj +## + + +module-whatis {XLA library for Jax} + +proc ModulesHelp { } { + puts stderr {Name : py-jaxlib} + puts stderr {Version: 0.4.28} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {XLA library for Jax} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-ml-dtypes/0.4.0-qnl5eqq + module load py-numpy/1.25.2-2wshlgs + module load py-scipy/1.14.1-3aemdsc + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-ml-dtypes/0.4.0-qnl5eqq + depends-on py-numpy/1.25.2-2wshlgs + depends-on py-scipy/1.14.1-3aemdsc + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-jaxlib + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-jaxlib-0.4.28-kfjqjvjkdxb6mxjpqjcnsvi4345jr4my/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-jaxlib-0.4.28-kfjqjvjkdxb6mxjpqjcnsvi4345jr4my/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-jaxlib-0.4.28-kfjqjvjkdxb6mxjpqjcnsvi4345jr4my/lib/python3.11/site-packages} +setenv PY_JAXLIB_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-jaxlib-0.4.28-kfjqjvjkdxb6mxjpqjcnsvi4345jr4my} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-jedi/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-jedi/.modulerc new file mode 100644 index 00000000..f3af604c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-jedi/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-jedi/0.18.2-3cq7rgn diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-jedi/0.18.2-3cq7rgn b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-jedi/0.18.2-3cq7rgn new file mode 100644 index 00000000..8cec7f1c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-jedi/0.18.2-3cq7rgn @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:22.837722 +## +## py-jedi@0.18.2%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/3cq7rgn +## + + +module-whatis {An autocompletion tool for Python that can be used for text editors.} + +proc ModulesHelp { } { + puts stderr {Name : py-jedi} + puts stderr {Version: 0.18.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {An autocompletion tool for Python that can be used for text editors.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-parso/0.8.4-uqoddj3 + module load py-setuptools/69.2.0-rhq2cbb + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-parso/0.8.4-uqoddj3 + depends-on py-setuptools/69.2.0-rhq2cbb + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-jedi + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-jedi-0.18.2-3cq7rgn7ivuz4yt2tw5cv3dvahjkmhll/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-jedi-0.18.2-3cq7rgn7ivuz4yt2tw5cv3dvahjkmhll/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-jedi-0.18.2-3cq7rgn7ivuz4yt2tw5cv3dvahjkmhll/lib/python3.11/site-packages} +setenv PY_JEDI_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-jedi-0.18.2-3cq7rgn7ivuz4yt2tw5cv3dvahjkmhll} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-jinja2/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-jinja2/.modulerc new file mode 100644 index 00000000..e71c10f4 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-jinja2/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-jinja2/3.1.4-4gsb36v diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-jinja2/3.1.4-4gsb36v b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-jinja2/3.1.4-4gsb36v new file mode 100644 index 00000000..4c1833c5 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-jinja2/3.1.4-4gsb36v @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:23.052209 +## +## py-jinja2@3.1.4%gcc@13.2.0~i18n build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/4gsb36v +## + + +module-whatis {Jinja2 is a template engine written in pure Python. It provides a Django inspired non-XML syntax but supports inline expressions and an optional sandboxed environment.} + +proc ModulesHelp { } { + puts stderr {Name : py-jinja2} + puts stderr {Version: 3.1.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Jinja2 is a template engine written in pure Python. It provides a Django} + puts stderr {inspired non-XML syntax but supports inline expressions and an optional} + puts stderr {sandboxed environment.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-markupsafe/2.1.3-wbfqjpt + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-markupsafe/2.1.3-wbfqjpt + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-jinja2 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-jinja2-3.1.4-4gsb36vqy4o25hkl666cbmdclbvs7h5s/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-jinja2-3.1.4-4gsb36vqy4o25hkl666cbmdclbvs7h5s/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-jinja2-3.1.4-4gsb36vqy4o25hkl666cbmdclbvs7h5s/lib/python3.11/site-packages} +setenv PY_JINJA2_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-jinja2-3.1.4-4gsb36vqy4o25hkl666cbmdclbvs7h5s} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-jmespath/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-jmespath/.modulerc new file mode 100644 index 00000000..c8f9b861 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-jmespath/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-jmespath/1.0.1-odmh3ja +module-hide --soft --hidden-loaded py-jmespath/1.0.1-ddbshed diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-jmespath/1.0.1-ddbshed b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-jmespath/1.0.1-ddbshed new file mode 100644 index 00000000..69727164 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-jmespath/1.0.1-ddbshed @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:23.350550 +## +## py-jmespath@1.0.1%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/ddbshed +## + + +module-whatis {JSON Matching Expressions.} + +proc ModulesHelp { } { + puts stderr {Name : py-jmespath} + puts stderr {Version: 1.0.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {JSON Matching Expressions.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.13.0-xf4zxxe + module load python-venv/1.0-6mlwnfu +} else { + depends-on python/3.13.0-xf4zxxe + depends-on python-venv/1.0-6mlwnfu +} +conflict py-jmespath + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-jmespath-1.0.1-ddbshedcbw7ftwcarntmwm2yef6ngsm2/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-jmespath-1.0.1-ddbshedcbw7ftwcarntmwm2yef6ngsm2/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-jmespath-1.0.1-ddbshedcbw7ftwcarntmwm2yef6ngsm2/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-jmespath-1.0.1-ddbshedcbw7ftwcarntmwm2yef6ngsm2/lib/python3.13/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-jmespath-1.0.1-ddbshedcbw7ftwcarntmwm2yef6ngsm2/bin} +setenv PY_JMESPATH_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-jmespath-1.0.1-ddbshedcbw7ftwcarntmwm2yef6ngsm2} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-jmespath/1.0.1-odmh3ja b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-jmespath/1.0.1-odmh3ja new file mode 100644 index 00000000..9b8f1768 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-jmespath/1.0.1-odmh3ja @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:23.217019 +## +## py-jmespath@1.0.1%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/odmh3ja +## + + +module-whatis {JSON Matching Expressions.} + +proc ModulesHelp { } { + puts stderr {Name : py-jmespath} + puts stderr {Version: 1.0.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {JSON Matching Expressions.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9-itykk2n + module load python-venv/1.0-okrhcwx +} else { + depends-on python/3.11.9-itykk2n + depends-on python-venv/1.0-okrhcwx +} +conflict py-jmespath + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-jmespath-1.0.1-odmh3jawbqry4wfso5mh4g2dsautuc4a/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-jmespath-1.0.1-odmh3jawbqry4wfso5mh4g2dsautuc4a/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-jmespath-1.0.1-odmh3jawbqry4wfso5mh4g2dsautuc4a/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-jmespath-1.0.1-odmh3jawbqry4wfso5mh4g2dsautuc4a/lib/python3.11/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-jmespath-1.0.1-odmh3jawbqry4wfso5mh4g2dsautuc4a/bin} +setenv PY_JMESPATH_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-jmespath-1.0.1-odmh3jawbqry4wfso5mh4g2dsautuc4a} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-jmp/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-jmp/.modulerc new file mode 100644 index 00000000..8d389874 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-jmp/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-jmp/0.0.2-4hbfkk7 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-jmp/0.0.2-4hbfkk7 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-jmp/0.0.2-4hbfkk7 new file mode 100644 index 00000000..57a8317b --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-jmp/0.0.2-4hbfkk7 @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:23.501219 +## +## py-jmp@0.0.2%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/4hbfkk7 +## + + +module-whatis {JMP is a Mixed Precision library for JAX.} + +proc ModulesHelp { } { + puts stderr {Name : py-jmp} + puts stderr {Version: 0.0.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {JMP is a Mixed Precision library for JAX.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-jax/0.4.30-5beunl7 + module load py-numpy/1.25.2-2wshlgs + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-jax/0.4.30-5beunl7 + depends-on py-numpy/1.25.2-2wshlgs + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-jmp + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-jmp-0.0.2-4hbfkk74srzsosvo4ja42nze3cjpe7lk/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-jmp-0.0.2-4hbfkk74srzsosvo4ja42nze3cjpe7lk/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-jmp-0.0.2-4hbfkk74srzsosvo4ja42nze3cjpe7lk/lib/python3.11/site-packages} +setenv PY_JMP_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-jmp-0.0.2-4hbfkk74srzsosvo4ja42nze3cjpe7lk} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-joblib/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-joblib/.modulerc new file mode 100644 index 00000000..0f050275 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-joblib/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-joblib/1.2.0-ksvfjnz +module-hide --soft --hidden-loaded py-joblib/1.2.0-s572o7b diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-joblib/1.2.0-ksvfjnz b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-joblib/1.2.0-ksvfjnz new file mode 100644 index 00000000..cfb09f4c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-joblib/1.2.0-ksvfjnz @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:24.147906 +## +## py-joblib@1.2.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/ksvfjnz +## + + +module-whatis {Lightweight pipelining with Python functions.} + +proc ModulesHelp { } { + puts stderr {Name : py-joblib} + puts stderr {Version: 1.2.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Lightweight pipelining with Python functions.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-setuptools/69.2.0-rhq2cbb + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-setuptools/69.2.0-rhq2cbb + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-joblib + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-joblib-1.2.0-ksvfjnzho3crt7jzgjxfepbsjegdpgys/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-joblib-1.2.0-ksvfjnzho3crt7jzgjxfepbsjegdpgys/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-joblib-1.2.0-ksvfjnzho3crt7jzgjxfepbsjegdpgys/lib/python3.11/site-packages} +setenv PY_JOBLIB_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-joblib-1.2.0-ksvfjnzho3crt7jzgjxfepbsjegdpgys} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-joblib/1.2.0-s572o7b b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-joblib/1.2.0-s572o7b new file mode 100644 index 00000000..3c9ca3d7 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-joblib/1.2.0-s572o7b @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:23.959500 +## +## py-joblib@1.2.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/s572o7b +## + + +module-whatis {Lightweight pipelining with Python functions.} + +proc ModulesHelp { } { + puts stderr {Name : py-joblib} + puts stderr {Version: 1.2.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Lightweight pipelining with Python functions.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-setuptools/63.4.3-63ta5ci + module load python/3.8.19-dxx3zxu + module load python-venv/1.0-l4mqvrb +} else { + depends-on py-setuptools/63.4.3-63ta5ci + depends-on python/3.8.19-dxx3zxu + depends-on python-venv/1.0-l4mqvrb +} +conflict py-joblib + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-joblib-1.2.0-s572o7bw7cgqq7qei7bsfcjsktfhcigb/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-joblib-1.2.0-s572o7bw7cgqq7qei7bsfcjsktfhcigb/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-joblib-1.2.0-s572o7bw7cgqq7qei7bsfcjsktfhcigb/lib/python3.8/site-packages} +setenv PY_JOBLIB_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-joblib-1.2.0-s572o7bw7cgqq7qei7bsfcjsktfhcigb} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-kaleido/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-kaleido/.modulerc new file mode 100644 index 00000000..e0a9dda5 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-kaleido/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-kaleido/0.2.1-riennrc diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-kaleido/0.2.1-riennrc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-kaleido/0.2.1-riennrc new file mode 100644 index 00000000..c1a1ab10 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-kaleido/0.2.1-riennrc @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:24.334911 +## +## py-kaleido@0.2.1%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/riennrc +## + + +module-whatis {Static image export for web-based visualization libraries with zero dependencies} + +proc ModulesHelp { } { + puts stderr {Name : py-kaleido} + puts stderr {Version: 0.2.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Static image export for web-based visualization libraries with zero} + puts stderr {dependencies} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-kaleido + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-kaleido-0.2.1-riennrcffa2dznjwtgzps2an7vaycrw2/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-kaleido-0.2.1-riennrcffa2dznjwtgzps2an7vaycrw2/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-kaleido-0.2.1-riennrcffa2dznjwtgzps2an7vaycrw2/lib/python3.11/site-packages} +setenv PY_KALEIDO_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-kaleido-0.2.1-riennrcffa2dznjwtgzps2an7vaycrw2} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-kiwisolver/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-kiwisolver/.modulerc new file mode 100644 index 00000000..dc4fe141 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-kiwisolver/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-kiwisolver/1.4.5-t5ljy3k +module-hide --soft --hidden-loaded py-kiwisolver/1.4.5-esl5ya2 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-kiwisolver/1.4.5-esl5ya2 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-kiwisolver/1.4.5-esl5ya2 new file mode 100644 index 00000000..8a0439d3 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-kiwisolver/1.4.5-esl5ya2 @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:24.598062 +## +## py-kiwisolver@1.4.5%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/esl5ya2 +## + + +module-whatis {A fast implementation of the Cassowary constraint solver} + +proc ModulesHelp { } { + puts stderr {Name : py-kiwisolver} + puts stderr {Version: 1.4.5} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A fast implementation of the Cassowary constraint solver} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-kiwisolver + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-kiwisolver-1.4.5-esl5ya2b27y7jopcljmjym4fuk4irkpo/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-kiwisolver-1.4.5-esl5ya2b27y7jopcljmjym4fuk4irkpo/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-kiwisolver-1.4.5-esl5ya2b27y7jopcljmjym4fuk4irkpo/lib/python3.11/site-packages} +setenv PY_KIWISOLVER_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-kiwisolver-1.4.5-esl5ya2b27y7jopcljmjym4fuk4irkpo} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-kiwisolver/1.4.5-t5ljy3k b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-kiwisolver/1.4.5-t5ljy3k new file mode 100644 index 00000000..efaaa24e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-kiwisolver/1.4.5-t5ljy3k @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:24.477822 +## +## py-kiwisolver@1.4.5%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/t5ljy3k +## + + +module-whatis {A fast implementation of the Cassowary constraint solver} + +proc ModulesHelp { } { + puts stderr {Name : py-kiwisolver} + puts stderr {Version: 1.4.5} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A fast implementation of the Cassowary constraint solver} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-kiwisolver + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-kiwisolver-1.4.5-t5ljy3kthcucjqq75mbmfhgdlibolh7g/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-kiwisolver-1.4.5-t5ljy3kthcucjqq75mbmfhgdlibolh7g/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-kiwisolver-1.4.5-t5ljy3kthcucjqq75mbmfhgdlibolh7g/lib/python3.11/site-packages} +setenv PY_KIWISOLVER_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-kiwisolver-1.4.5-t5ljy3kthcucjqq75mbmfhgdlibolh7g} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-libclang/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-libclang/.modulerc new file mode 100644 index 00000000..44510195 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-libclang/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-libclang/14.0.6-mgchhw5 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-libclang/14.0.6-mgchhw5 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-libclang/14.0.6-mgchhw5 new file mode 100644 index 00000000..e4230e5c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-libclang/14.0.6-mgchhw5 @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:24.731545 +## +## py-libclang@14.0.6%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/mgchhw5 +## + + +module-whatis {The repository contains code that taken from the LLVM project, to make it easier to install clang's python bindings.} + +proc ModulesHelp { } { + puts stderr {Name : py-libclang} + puts stderr {Version: 14.0.6} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The repository contains code that taken from the LLVM project, to make} + puts stderr {it easier to install clang's python bindings.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-libclang + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-libclang-14.0.6-mgchhw5g7q2chdkx26krzzvtlmb6myuf/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-libclang-14.0.6-mgchhw5g7q2chdkx26krzzvtlmb6myuf/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-libclang-14.0.6-mgchhw5g7q2chdkx26krzzvtlmb6myuf/lib/python3.11/site-packages} +setenv PY_LIBCLANG_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-libclang-14.0.6-mgchhw5g7q2chdkx26krzzvtlmb6myuf} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-llvmlite/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-llvmlite/.modulerc new file mode 100644 index 00000000..c778da40 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-llvmlite/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-llvmlite/0.41.1-iadse3b +module-hide --soft --hidden-loaded py-llvmlite/0.41.1-6dvddoi diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-llvmlite/0.41.1-6dvddoi b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-llvmlite/0.41.1-6dvddoi new file mode 100644 index 00000000..164d907a --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-llvmlite/0.41.1-6dvddoi @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:24.947323 +## +## py-llvmlite@0.41.1%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/6dvddoi +## + + +module-whatis {A lightweight LLVM python binding for writing JIT compilers} + +proc ModulesHelp { } { + puts stderr {Name : py-llvmlite} + puts stderr {Version: 0.41.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A lightweight LLVM python binding for writing JIT compilers} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-llvmlite + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-llvmlite-0.41.1-6dvddoibzju462sixcwfsvy7mxrccuqt/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-llvmlite-0.41.1-6dvddoibzju462sixcwfsvy7mxrccuqt/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-llvmlite-0.41.1-6dvddoibzju462sixcwfsvy7mxrccuqt/lib/python3.11/site-packages} +setenv PY_LLVMLITE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-llvmlite-0.41.1-6dvddoibzju462sixcwfsvy7mxrccuqt} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-llvmlite/0.41.1-iadse3b b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-llvmlite/0.41.1-iadse3b new file mode 100644 index 00000000..bd0cdd30 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-llvmlite/0.41.1-iadse3b @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:24.847307 +## +## py-llvmlite@0.41.1%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/iadse3b +## + + +module-whatis {A lightweight LLVM python binding for writing JIT compilers} + +proc ModulesHelp { } { + puts stderr {Name : py-llvmlite} + puts stderr {Version: 0.41.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A lightweight LLVM python binding for writing JIT compilers} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-llvmlite + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-llvmlite-0.41.1-iadse3bywx62wnjatvsyvki5hubhhjl7/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-llvmlite-0.41.1-iadse3bywx62wnjatvsyvki5hubhhjl7/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-llvmlite-0.41.1-iadse3bywx62wnjatvsyvki5hubhhjl7/lib/python3.11/site-packages} +setenv PY_LLVMLITE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-llvmlite-0.41.1-iadse3bywx62wnjatvsyvki5hubhhjl7} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-logbook/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-logbook/.modulerc new file mode 100644 index 00000000..c201f9d4 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-logbook/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-logbook/1.7.0.post0-acpdpwp diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-logbook/1.7.0.post0-acpdpwp b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-logbook/1.7.0.post0-acpdpwp new file mode 100644 index 00000000..20dd936a --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-logbook/1.7.0.post0-acpdpwp @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:25.046321 +## +## py-logbook@1.7.0.post0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/acpdpwp +## + + +module-whatis {Logbook is a logging system for Python that replaces the standard library’s logging module. It was designed with both complex and simple applications in mind and the idea to make logging fun.} + +proc ModulesHelp { } { + puts stderr {Name : py-logbook} + puts stderr {Version: 1.7.0.post0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Logbook is a logging system for Python that replaces the standard} + puts stderr {library’s logging module. It was designed with both complex and simple} + puts stderr {applications in mind and the idea to make logging fun.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.8.19-dxx3zxu + module load python-venv/1.0-l4mqvrb +} else { + depends-on python/3.8.19-dxx3zxu + depends-on python-venv/1.0-l4mqvrb +} +conflict py-logbook + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-logbook-1.7.0.post0-acpdpwpi23motyaxmzukgcy5rereib2s/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-logbook-1.7.0.post0-acpdpwpi23motyaxmzukgcy5rereib2s/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-logbook-1.7.0.post0-acpdpwpi23motyaxmzukgcy5rereib2s/lib/python3.8/site-packages} +setenv PY_LOGBOOK_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-logbook-1.7.0.post0-acpdpwpi23motyaxmzukgcy5rereib2s} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-loompy/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-loompy/.modulerc new file mode 100644 index 00000000..08aef2ac --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-loompy/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-loompy/3.0.7-s35c6tp diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-loompy/3.0.7-s35c6tp b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-loompy/3.0.7-s35c6tp new file mode 100644 index 00000000..36180759 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-loompy/3.0.7-s35c6tp @@ -0,0 +1,84 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:25.192019 +## +## py-loompy@3.0.7%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/s35c6tp +## + + +module-whatis {Work with Loom files for single-cell RNA-seq data.} + +proc ModulesHelp { } { + puts stderr {Name : py-loompy} + puts stderr {Version: 3.0.7} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Work with Loom files for single-cell RNA-seq data.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-click/8.1.7-kjrzl6j + module load py-h5py/3.12.1-73asaag + module load py-numba/0.58.1-rzf5lmw + module load py-numpy/1.25.2-4avjy5d + module load py-numpy-groupies/0.9.20-prhgiyq + module load py-scipy/1.14.1-3q4c4eg + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-click/8.1.7-kjrzl6j + depends-on py-h5py/3.12.1-73asaag + depends-on py-numba/0.58.1-rzf5lmw + depends-on py-numpy/1.25.2-4avjy5d + depends-on py-numpy-groupies/0.9.20-prhgiyq + depends-on py-scipy/1.14.1-3q4c4eg + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-loompy + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-loompy-3.0.7-s35c6tphkblr4ub3gs4g5oqrctpk5ii5/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-loompy-3.0.7-s35c6tphkblr4ub3gs4g5oqrctpk5ii5/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-loompy-3.0.7-s35c6tphkblr4ub3gs4g5oqrctpk5ii5/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-loompy-3.0.7-s35c6tphkblr4ub3gs4g5oqrctpk5ii5/lib/python3.11/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-loompy-3.0.7-s35c6tphkblr4ub3gs4g5oqrctpk5ii5/bin} +setenv PY_LOOMPY_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-loompy-3.0.7-s35c6tphkblr4ub3gs4g5oqrctpk5ii5} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-markdown-it-py/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-markdown-it-py/.modulerc new file mode 100644 index 00000000..fcc99dd0 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-markdown-it-py/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-markdown-it-py/3.0.0-4de3mjn diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-markdown-it-py/3.0.0-4de3mjn b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-markdown-it-py/3.0.0-4de3mjn new file mode 100644 index 00000000..2295c0f6 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-markdown-it-py/3.0.0-4de3mjn @@ -0,0 +1,75 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:25.836754 +## +## py-markdown-it-py@3.0.0%gcc@13.2.0~linkify build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/4de3mjn +## + + +module-whatis {Markdown parser, done right. 100% CommonMark support, extensions, syntax plugins & high speed} + +proc ModulesHelp { } { + puts stderr {Name : py-markdown-it-py} + puts stderr {Version: 3.0.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Markdown parser, done right. 100% CommonMark support, extensions, syntax} + puts stderr {plugins & high speed} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-mdurl/0.1.2-otvzykd + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-mdurl/0.1.2-otvzykd + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-markdown-it-py + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-markdown-it-py-3.0.0-4de3mjnpsqt5oqvcbiyjfa2s5o6jl7io/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-markdown-it-py-3.0.0-4de3mjnpsqt5oqvcbiyjfa2s5o6jl7io/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-markdown-it-py-3.0.0-4de3mjnpsqt5oqvcbiyjfa2s5o6jl7io/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-markdown-it-py-3.0.0-4de3mjnpsqt5oqvcbiyjfa2s5o6jl7io/lib/python3.11/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-markdown-it-py-3.0.0-4de3mjnpsqt5oqvcbiyjfa2s5o6jl7io/bin} +setenv PY_MARKDOWN_IT_PY_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-markdown-it-py-3.0.0-4de3mjnpsqt5oqvcbiyjfa2s5o6jl7io} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-markdown/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-markdown/.modulerc new file mode 100644 index 00000000..90188a64 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-markdown/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-markdown/3.4.1-dopjxc4 +module-hide --soft --hidden-loaded py-markdown/3.4.1-tcuvdv4 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-markdown/3.4.1-dopjxc4 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-markdown/3.4.1-dopjxc4 new file mode 100644 index 00000000..b006c01e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-markdown/3.4.1-dopjxc4 @@ -0,0 +1,75 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 13:38:35.407595 +## +## py-markdown@3.4.1%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/dopjxc4 +## + + +module-whatis {This is a Python implementation of John Gruber's Markdown. It is almost completely compliant with the reference implementation, though there are a few very minor differences. See John's Syntax Documentation for the syntax rules. } + +proc ModulesHelp { } { + puts stderr {Name : py-markdown} + puts stderr {Version: 3.4.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {This is a Python implementation of John Gruber's Markdown. It is almost} + puts stderr {completely compliant with the reference implementation, though there are} + puts stderr {a few very minor differences. See John's Syntax Documentation for the} + puts stderr {syntax rules.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9-i64b36b + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9-i64b36b + depends-on python-venv/1.0-ed2nmwx +} +conflict py-markdown + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-markdown-3.4.1-dopjxc43s4j263wtus6dzduvrwtagtmf/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-markdown-3.4.1-dopjxc43s4j263wtus6dzduvrwtagtmf/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-markdown-3.4.1-dopjxc43s4j263wtus6dzduvrwtagtmf/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-markdown-3.4.1-dopjxc43s4j263wtus6dzduvrwtagtmf/lib/python3.11/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-markdown-3.4.1-dopjxc43s4j263wtus6dzduvrwtagtmf/bin} +setenv PY_MARKDOWN_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-markdown-3.4.1-dopjxc43s4j263wtus6dzduvrwtagtmf} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-markdown/3.4.1-tcuvdv4 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-markdown/3.4.1-tcuvdv4 new file mode 100644 index 00000000..90f720bf --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-markdown/3.4.1-tcuvdv4 @@ -0,0 +1,75 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:25.717818 +## +## py-markdown@3.4.1%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/tcuvdv4 +## + + +module-whatis {This is a Python implementation of John Gruber's Markdown. It is almost completely compliant with the reference implementation, though there are a few very minor differences. See John's Syntax Documentation for the syntax rules. } + +proc ModulesHelp { } { + puts stderr {Name : py-markdown} + puts stderr {Version: 3.4.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {This is a Python implementation of John Gruber's Markdown. It is almost} + puts stderr {completely compliant with the reference implementation, though there are} + puts stderr {a few very minor differences. See John's Syntax Documentation for the} + puts stderr {syntax rules.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-markdown + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-markdown-3.4.1-tcuvdv4easu6vlqh7lb6jrkuyzwoegl5/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-markdown-3.4.1-tcuvdv4easu6vlqh7lb6jrkuyzwoegl5/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-markdown-3.4.1-tcuvdv4easu6vlqh7lb6jrkuyzwoegl5/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-markdown-3.4.1-tcuvdv4easu6vlqh7lb6jrkuyzwoegl5/lib/python3.11/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-markdown-3.4.1-tcuvdv4easu6vlqh7lb6jrkuyzwoegl5/bin} +setenv PY_MARKDOWN_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-markdown-3.4.1-tcuvdv4easu6vlqh7lb6jrkuyzwoegl5} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-markupsafe/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-markupsafe/.modulerc new file mode 100644 index 00000000..6647496a --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-markupsafe/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-markupsafe/2.1.3-ve7nwa6 +module-hide --soft --hidden-loaded py-markupsafe/2.1.3-wbfqjpt diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-markupsafe/2.1.3-ve7nwa6 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-markupsafe/2.1.3-ve7nwa6 new file mode 100644 index 00000000..4712c62b --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-markupsafe/2.1.3-ve7nwa6 @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:26.031928 +## +## py-markupsafe@2.1.3%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/ve7nwa6 +## + + +module-whatis {MarkupSafe is a library for Python that implements a unicode string that is aware of HTML escaping rules and can be used to implement automatic string escaping. It is used by Jinja 2, the Mako templating engine, the Pylons web framework and many more.} + +proc ModulesHelp { } { + puts stderr {Name : py-markupsafe} + puts stderr {Version: 2.1.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {MarkupSafe is a library for Python that implements a unicode string that} + puts stderr {is aware of HTML escaping rules and can be used to implement automatic} + puts stderr {string escaping. It is used by Jinja 2, the Mako templating engine, the} + puts stderr {Pylons web framework and many more.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-markupsafe + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-markupsafe-2.1.3-ve7nwa6ml3c5gkkjvyhjtehq2ib73l2z/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-markupsafe-2.1.3-ve7nwa6ml3c5gkkjvyhjtehq2ib73l2z/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-markupsafe-2.1.3-ve7nwa6ml3c5gkkjvyhjtehq2ib73l2z/lib/python3.11/site-packages} +setenv PY_MARKUPSAFE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-markupsafe-2.1.3-ve7nwa6ml3c5gkkjvyhjtehq2ib73l2z} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-markupsafe/2.1.3-wbfqjpt b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-markupsafe/2.1.3-wbfqjpt new file mode 100644 index 00000000..ccd1b074 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-markupsafe/2.1.3-wbfqjpt @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:26.145859 +## +## py-markupsafe@2.1.3%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/wbfqjpt +## + + +module-whatis {MarkupSafe is a library for Python that implements a unicode string that is aware of HTML escaping rules and can be used to implement automatic string escaping. It is used by Jinja 2, the Mako templating engine, the Pylons web framework and many more.} + +proc ModulesHelp { } { + puts stderr {Name : py-markupsafe} + puts stderr {Version: 2.1.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {MarkupSafe is a library for Python that implements a unicode string that} + puts stderr {is aware of HTML escaping rules and can be used to implement automatic} + puts stderr {string escaping. It is used by Jinja 2, the Mako templating engine, the} + puts stderr {Pylons web framework and many more.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-markupsafe + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-markupsafe-2.1.3-wbfqjpt5zoq4blyswldknmd77j643h2c/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-markupsafe-2.1.3-wbfqjpt5zoq4blyswldknmd77j643h2c/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-markupsafe-2.1.3-wbfqjpt5zoq4blyswldknmd77j643h2c/lib/python3.11/site-packages} +setenv PY_MARKUPSAFE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-markupsafe-2.1.3-wbfqjpt5zoq4blyswldknmd77j643h2c} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-matplotlib-inline/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-matplotlib-inline/.modulerc new file mode 100644 index 00000000..9b73b833 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-matplotlib-inline/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-matplotlib-inline/0.1.6-5ma56ml diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-matplotlib-inline/0.1.6-5ma56ml b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-matplotlib-inline/0.1.6-5ma56ml new file mode 100644 index 00000000..5b49bed8 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-matplotlib-inline/0.1.6-5ma56ml @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:27.522186 +## +## py-matplotlib-inline@0.1.6%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/5ma56ml +## + + +module-whatis {Inline Matplotlib backend for Jupyter.} + +proc ModulesHelp { } { + puts stderr {Name : py-matplotlib-inline} + puts stderr {Version: 0.1.6} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Inline Matplotlib backend for Jupyter.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-matplotlib/3.9.2-bsuux3u + module load py-traitlets/5.14.3-k67pwzn + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-matplotlib/3.9.2-bsuux3u + depends-on py-traitlets/5.14.3-k67pwzn + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-matplotlib-inline + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-matplotlib-inline-0.1.6-5ma56mlpysdbs6ftdf7waat2qaokdxwr/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-matplotlib-inline-0.1.6-5ma56mlpysdbs6ftdf7waat2qaokdxwr/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-matplotlib-inline-0.1.6-5ma56mlpysdbs6ftdf7waat2qaokdxwr/lib/python3.11/site-packages} +setenv PY_MATPLOTLIB_INLINE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-matplotlib-inline-0.1.6-5ma56mlpysdbs6ftdf7waat2qaokdxwr} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-matplotlib/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-matplotlib/.modulerc new file mode 100644 index 00000000..4da72cdd --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-matplotlib/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-matplotlib/3.9.2-bsuux3u +module-hide --soft --hidden-loaded py-matplotlib/3.9.2-jpcql5s diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-matplotlib/3.9.2-bsuux3u b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-matplotlib/3.9.2-bsuux3u new file mode 100644 index 00000000..03134659 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-matplotlib/3.9.2-bsuux3u @@ -0,0 +1,89 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:26.277775 +## +## py-matplotlib@3.9.2%gcc@13.2.0~animation~fonts~latex~movies backend=agg build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/bsuux3u +## + + +module-whatis {Matplotlib is a comprehensive library for creating static, animated, and interactive visualizations in Python.} + +proc ModulesHelp { } { + puts stderr {Name : py-matplotlib} + puts stderr {Version: 3.9.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Matplotlib is a comprehensive library for creating static, animated, and} + puts stderr {interactive visualizations in Python.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-contourpy/1.3.0-flg2pfi + module load py-cycler/0.11.0-aoucpqf + module load py-fonttools/4.39.4-kzlzaif + module load py-kiwisolver/1.4.5-t5ljy3k + module load py-numpy/2.1.2-rif434b + module load py-packaging/24.1-a36mhum + module load py-pillow/11.0.0-ofhp5he + module load py-pyparsing/3.1.2-ambuin2 + module load py-python-dateutil/2.8.2-viseoic + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-contourpy/1.3.0-flg2pfi + depends-on py-cycler/0.11.0-aoucpqf + depends-on py-fonttools/4.39.4-kzlzaif + depends-on py-kiwisolver/1.4.5-t5ljy3k + depends-on py-numpy/2.1.2-rif434b + depends-on py-packaging/24.1-a36mhum + depends-on py-pillow/11.0.0-ofhp5he + depends-on py-pyparsing/3.1.2-ambuin2 + depends-on py-python-dateutil/2.8.2-viseoic + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-matplotlib + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-matplotlib-3.9.2-bsuux3uja4mkvhcu5nyvdpncephccsn2/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-matplotlib-3.9.2-bsuux3uja4mkvhcu5nyvdpncephccsn2/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-matplotlib-3.9.2-bsuux3uja4mkvhcu5nyvdpncephccsn2/lib/python3.11/site-packages} +setenv PY_MATPLOTLIB_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-matplotlib-3.9.2-bsuux3uja4mkvhcu5nyvdpncephccsn2} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-matplotlib/3.9.2-jpcql5s b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-matplotlib/3.9.2-jpcql5s new file mode 100644 index 00000000..a4ea9215 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-matplotlib/3.9.2-jpcql5s @@ -0,0 +1,89 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:26.894749 +## +## py-matplotlib@3.9.2%gcc@13.2.0~animation~fonts~latex~movies backend=agg build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/jpcql5s +## + + +module-whatis {Matplotlib is a comprehensive library for creating static, animated, and interactive visualizations in Python.} + +proc ModulesHelp { } { + puts stderr {Name : py-matplotlib} + puts stderr {Version: 3.9.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Matplotlib is a comprehensive library for creating static, animated, and} + puts stderr {interactive visualizations in Python.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-contourpy/1.3.0-2gakdvo + module load py-cycler/0.11.0-aoucpqf + module load py-fonttools/4.39.4-kzlzaif + module load py-kiwisolver/1.4.5-esl5ya2 + module load py-numpy/1.25.2-4avjy5d + module load py-packaging/24.1-a36mhum + module load py-pillow/11.0.0-ofhp5he + module load py-pyparsing/3.1.2-ambuin2 + module load py-python-dateutil/2.8.2-viseoic + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-contourpy/1.3.0-2gakdvo + depends-on py-cycler/0.11.0-aoucpqf + depends-on py-fonttools/4.39.4-kzlzaif + depends-on py-kiwisolver/1.4.5-esl5ya2 + depends-on py-numpy/1.25.2-4avjy5d + depends-on py-packaging/24.1-a36mhum + depends-on py-pillow/11.0.0-ofhp5he + depends-on py-pyparsing/3.1.2-ambuin2 + depends-on py-python-dateutil/2.8.2-viseoic + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-matplotlib + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-matplotlib-3.9.2-jpcql5swcj5fehjluwk7eagdomt4hilj/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-matplotlib-3.9.2-jpcql5swcj5fehjluwk7eagdomt4hilj/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-matplotlib-3.9.2-jpcql5swcj5fehjluwk7eagdomt4hilj/lib/python3.11/site-packages} +setenv PY_MATPLOTLIB_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-matplotlib-3.9.2-jpcql5swcj5fehjluwk7eagdomt4hilj} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-maturin/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-maturin/.modulerc new file mode 100644 index 00000000..1d853450 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-maturin/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-maturin/1.6.0-g2pyjgn diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-maturin/1.6.0-g2pyjgn b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-maturin/1.6.0-g2pyjgn new file mode 100644 index 00000000..e52c5ce5 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-maturin/1.6.0-g2pyjgn @@ -0,0 +1,75 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:28.197723 +## +## py-maturin@1.6.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/g2pyjgn +## + + +module-whatis {Build and publish crates with pyo3, rust-cpython and cffi bindings as well as rust binaries as python packages. } + +proc ModulesHelp { } { + puts stderr {Name : py-maturin} + puts stderr {Version: 1.6.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Build and publish crates with pyo3, rust-cpython and cffi bindings as} + puts stderr {well as rust binaries as python packages.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx + module load rust/1.81.0 +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx + depends-on rust/1.81.0 +} +conflict py-maturin + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-maturin-1.6.0-g2pyjgni23q4c4lczjyuogngngguddab/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-maturin-1.6.0-g2pyjgni23q4c4lczjyuogngngguddab/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-maturin-1.6.0-g2pyjgni23q4c4lczjyuogngngguddab/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-maturin-1.6.0-g2pyjgni23q4c4lczjyuogngngguddab/lib/python3.11/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-maturin-1.6.0-g2pyjgni23q4c4lczjyuogngngguddab/bin} +setenv PY_MATURIN_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-maturin-1.6.0-g2pyjgni23q4c4lczjyuogngngguddab} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-mdurl/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-mdurl/.modulerc new file mode 100644 index 00000000..d1619272 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-mdurl/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-mdurl/0.1.2-otvzykd diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-mdurl/0.1.2-otvzykd b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-mdurl/0.1.2-otvzykd new file mode 100644 index 00000000..9312ae48 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-mdurl/0.1.2-otvzykd @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:28.327686 +## +## py-mdurl@0.1.2%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/otvzykd +## + + +module-whatis {Markdown URL utilities.} + +proc ModulesHelp { } { + puts stderr {Name : py-mdurl} + puts stderr {Version: 0.1.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Markdown URL utilities.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-mdurl + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-mdurl-0.1.2-otvzykdlk2ztuyvm5hpuwfrrc5ydg7hi/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-mdurl-0.1.2-otvzykdlk2ztuyvm5hpuwfrrc5ydg7hi/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-mdurl-0.1.2-otvzykdlk2ztuyvm5hpuwfrrc5ydg7hi/lib/python3.11/site-packages} +setenv PY_MDURL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-mdurl-0.1.2-otvzykdlk2ztuyvm5hpuwfrrc5ydg7hi} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-ml-collections/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-ml-collections/.modulerc new file mode 100644 index 00000000..fc32778d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-ml-collections/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-ml-collections/0.1.1-7gtj4tf diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-ml-collections/0.1.1-7gtj4tf b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-ml-collections/0.1.1-7gtj4tf new file mode 100644 index 00000000..720dc267 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-ml-collections/0.1.1-7gtj4tf @@ -0,0 +1,81 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:29.033021 +## +## py-ml-collections@0.1.1%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/7gtj4tf +## + + +module-whatis {ML Collections is a library of Python collections designed for ML usecases.} + +proc ModulesHelp { } { + puts stderr {Name : py-ml-collections} + puts stderr {Version: 0.1.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {ML Collections is a library of Python collections designed for ML} + puts stderr {usecases.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-absl-py/1.4.0-ojr3fkl + module load py-contextlib2/21.6.0-x6zbswk + module load py-pyyaml/6.0.2-xqwtg5w + module load py-setuptools/63.4.3-dk3apgd + module load py-six/1.16.0-i34z4g2 + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-absl-py/1.4.0-ojr3fkl + depends-on py-contextlib2/21.6.0-x6zbswk + depends-on py-pyyaml/6.0.2-xqwtg5w + depends-on py-setuptools/63.4.3-dk3apgd + depends-on py-six/1.16.0-i34z4g2 + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-ml-collections + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-ml-collections-0.1.1-7gtj4tfgn32b67tunioaoppsgp5ysfhd/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-ml-collections-0.1.1-7gtj4tfgn32b67tunioaoppsgp5ysfhd/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-ml-collections-0.1.1-7gtj4tfgn32b67tunioaoppsgp5ysfhd/lib/python3.11/site-packages} +setenv PY_ML_COLLECTIONS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-ml-collections-0.1.1-7gtj4tfgn32b67tunioaoppsgp5ysfhd} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-ml-dtypes/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-ml-dtypes/.modulerc new file mode 100644 index 00000000..43bb3df9 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-ml-dtypes/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-ml-dtypes/0.4.0-qnl5eqq diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-ml-dtypes/0.4.0-qnl5eqq b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-ml-dtypes/0.4.0-qnl5eqq new file mode 100644 index 00000000..1570523a --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-ml-dtypes/0.4.0-qnl5eqq @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:29.379602 +## +## py-ml-dtypes@0.4.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/qnl5eqq +## + + +module-whatis {A stand-alone implementation of several NumPy dtype extensions used in machine learning libraries.} + +proc ModulesHelp { } { + puts stderr {Name : py-ml-dtypes} + puts stderr {Version: 0.4.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A stand-alone implementation of several NumPy dtype extensions used in} + puts stderr {machine learning libraries.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-numpy/1.25.2-2wshlgs + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-numpy/1.25.2-2wshlgs + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-ml-dtypes + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-ml-dtypes-0.4.0-qnl5eqqrhzvu67t56boxbwhjoa5cm4as/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-ml-dtypes-0.4.0-qnl5eqqrhzvu67t56boxbwhjoa5cm4as/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-ml-dtypes-0.4.0-qnl5eqqrhzvu67t56boxbwhjoa5cm4as/lib/python3.11/site-packages} +setenv PY_ML_DTYPES_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-ml-dtypes-0.4.0-qnl5eqqrhzvu67t56boxbwhjoa5cm4as} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-natsort/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-natsort/.modulerc new file mode 100644 index 00000000..08051642 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-natsort/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-natsort/8.4.0-6dhkqjr diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-natsort/8.4.0-6dhkqjr b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-natsort/8.4.0-6dhkqjr new file mode 100644 index 00000000..9085e4c0 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-natsort/8.4.0-6dhkqjr @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:32.135463 +## +## py-natsort@8.4.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/6dhkqjr +## + + +module-whatis {Simple yet flexible natural sorting in Python.} + +proc ModulesHelp { } { + puts stderr {Name : py-natsort} + puts stderr {Version: 8.4.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Simple yet flexible natural sorting in Python.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-natsort + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-natsort-8.4.0-6dhkqjrcnmm5lstmklobqtxc3izhtqdf/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-natsort-8.4.0-6dhkqjrcnmm5lstmklobqtxc3izhtqdf/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-natsort-8.4.0-6dhkqjrcnmm5lstmklobqtxc3izhtqdf/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-natsort-8.4.0-6dhkqjrcnmm5lstmklobqtxc3izhtqdf/lib/python3.11/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-natsort-8.4.0-6dhkqjrcnmm5lstmklobqtxc3izhtqdf/bin} +setenv PY_NATSORT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-natsort-8.4.0-6dhkqjrcnmm5lstmklobqtxc3izhtqdf} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-networkx/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-networkx/.modulerc new file mode 100644 index 00000000..bd44ae64 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-networkx/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-networkx/2.7.1-odxz2bd diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-networkx/2.7.1-odxz2bd b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-networkx/2.7.1-odxz2bd new file mode 100644 index 00000000..b40b1cae --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-networkx/2.7.1-odxz2bd @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:32.249794 +## +## py-networkx@2.7.1%gcc@13.2.0+default~extra build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/odxz2bd +## + + +module-whatis {NetworkX is a Python package for the creation, manipulation, and study of the structure, dynamics, and functions of complex networks.} + +proc ModulesHelp { } { + puts stderr {Name : py-networkx} + puts stderr {Version: 2.7.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {NetworkX is a Python package for the creation, manipulation, and study} + puts stderr {of the structure, dynamics, and functions of complex networks.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-numpy/1.26.4-pzeanm2 + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-numpy/1.26.4-pzeanm2 + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-networkx + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-networkx-2.7.1-odxz2bdjthkt75ky4dpjb3lkcotpvgpa/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-networkx-2.7.1-odxz2bdjthkt75ky4dpjb3lkcotpvgpa/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-networkx-2.7.1-odxz2bdjthkt75ky4dpjb3lkcotpvgpa/lib/python3.11/site-packages} +setenv PY_NETWORKX_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-networkx-2.7.1-odxz2bdjthkt75ky4dpjb3lkcotpvgpa} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-numba/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-numba/.modulerc new file mode 100644 index 00000000..c73e1389 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-numba/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-numba/0.58.1-edzfe5c +module-hide --soft --hidden-loaded py-numba/0.58.1-rzf5lmw diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-numba/0.58.1-edzfe5c b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-numba/0.58.1-edzfe5c new file mode 100644 index 00000000..79b0825c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-numba/0.58.1-edzfe5c @@ -0,0 +1,78 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:32.420407 +## +## py-numba@0.58.1%gcc@13.2.0~tbb build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/edzfe5c +## + + +module-whatis {NumPy aware dynamic Python compiler using LLVM} + +proc ModulesHelp { } { + puts stderr {Name : py-numba} + puts stderr {Version: 0.58.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {NumPy aware dynamic Python compiler using LLVM} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-llvmlite/0.41.1-6dvddoi + module load py-numpy/1.25.2-2wshlgs + module load py-setuptools/63.4.3-dk3apgd + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-llvmlite/0.41.1-6dvddoi + depends-on py-numpy/1.25.2-2wshlgs + depends-on py-setuptools/63.4.3-dk3apgd + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-numba + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numba-0.58.1-edzfe5czm4ygl3eu3jzpjkynb2fxtdqh/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numba-0.58.1-edzfe5czm4ygl3eu3jzpjkynb2fxtdqh/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numba-0.58.1-edzfe5czm4ygl3eu3jzpjkynb2fxtdqh/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numba-0.58.1-edzfe5czm4ygl3eu3jzpjkynb2fxtdqh/lib/python3.11/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numba-0.58.1-edzfe5czm4ygl3eu3jzpjkynb2fxtdqh/bin} +setenv PY_NUMBA_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numba-0.58.1-edzfe5czm4ygl3eu3jzpjkynb2fxtdqh} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-numba/0.58.1-rzf5lmw b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-numba/0.58.1-rzf5lmw new file mode 100644 index 00000000..ef06d7f7 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-numba/0.58.1-rzf5lmw @@ -0,0 +1,78 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:32.685286 +## +## py-numba@0.58.1%gcc@13.2.0~tbb build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/rzf5lmw +## + + +module-whatis {NumPy aware dynamic Python compiler using LLVM} + +proc ModulesHelp { } { + puts stderr {Name : py-numba} + puts stderr {Version: 0.58.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {NumPy aware dynamic Python compiler using LLVM} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-llvmlite/0.41.1-iadse3b + module load py-numpy/1.25.2-4avjy5d + module load py-setuptools/63.4.3-dk3apgd + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-llvmlite/0.41.1-iadse3b + depends-on py-numpy/1.25.2-4avjy5d + depends-on py-setuptools/63.4.3-dk3apgd + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-numba + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numba-0.58.1-rzf5lmwwiv43d5escymdtda6rmuicajn/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numba-0.58.1-rzf5lmwwiv43d5escymdtda6rmuicajn/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numba-0.58.1-rzf5lmwwiv43d5escymdtda6rmuicajn/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numba-0.58.1-rzf5lmwwiv43d5escymdtda6rmuicajn/lib/python3.11/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numba-0.58.1-rzf5lmwwiv43d5escymdtda6rmuicajn/bin} +setenv PY_NUMBA_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numba-0.58.1-rzf5lmwwiv43d5escymdtda6rmuicajn} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-numexpr/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-numexpr/.modulerc new file mode 100644 index 00000000..ac108267 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-numexpr/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-numexpr/2.9.0-4ddlt52 +module-hide --soft --hidden-loaded py-numexpr/2.9.0-ohvai53 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-numexpr/2.9.0-4ddlt52 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-numexpr/2.9.0-4ddlt52 new file mode 100644 index 00000000..2fadba27 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-numexpr/2.9.0-4ddlt52 @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:32.928299 +## +## py-numexpr@2.9.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/4ddlt52 +## + + +module-whatis {Fast numerical expression evaluator for NumPy} + +proc ModulesHelp { } { + puts stderr {Name : py-numexpr} + puts stderr {Version: 2.9.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Fast numerical expression evaluator for NumPy} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-numpy/1.25.2-4avjy5d + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-numpy/1.25.2-4avjy5d + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-numexpr + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numexpr-2.9.0-4ddlt523p2vjslqkappvzhbpr2u6ueuz/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numexpr-2.9.0-4ddlt523p2vjslqkappvzhbpr2u6ueuz/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numexpr-2.9.0-4ddlt523p2vjslqkappvzhbpr2u6ueuz/lib/python3.11/site-packages} +setenv PY_NUMEXPR_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numexpr-2.9.0-4ddlt523p2vjslqkappvzhbpr2u6ueuz} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-numexpr/2.9.0-ohvai53 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-numexpr/2.9.0-ohvai53 new file mode 100644 index 00000000..5448efcd --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-numexpr/2.9.0-ohvai53 @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:33.124490 +## +## py-numexpr@2.9.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/ohvai53 +## + + +module-whatis {Fast numerical expression evaluator for NumPy} + +proc ModulesHelp { } { + puts stderr {Name : py-numexpr} + puts stderr {Version: 2.9.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Fast numerical expression evaluator for NumPy} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-numpy/1.25.2-2wshlgs + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-numpy/1.25.2-2wshlgs + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-numexpr + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numexpr-2.9.0-ohvai53f7pdsc3ftsnrwzyxflihfnsbh/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numexpr-2.9.0-ohvai53f7pdsc3ftsnrwzyxflihfnsbh/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numexpr-2.9.0-ohvai53f7pdsc3ftsnrwzyxflihfnsbh/lib/python3.11/site-packages} +setenv PY_NUMEXPR_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numexpr-2.9.0-ohvai53f7pdsc3ftsnrwzyxflihfnsbh} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-numpy-groupies/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-numpy-groupies/.modulerc new file mode 100644 index 00000000..b36b0412 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-numpy-groupies/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-numpy-groupies/0.9.20-prhgiyq diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-numpy-groupies/0.9.20-prhgiyq b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-numpy-groupies/0.9.20-prhgiyq new file mode 100644 index 00000000..db75b922 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-numpy-groupies/0.9.20-prhgiyq @@ -0,0 +1,82 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:34.459952 +## +## py-numpy-groupies@0.9.20%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/prhgiyq +## + + +module-whatis {This package consists of a couple of optimised tools for doing things that can roughly be considered 'group-indexing operations'. The most prominent tool is `aggregate`. `aggregate` takes an array of values, and an array giving the group number for each of those values. It then returns the sum (or mean, or std, or any, ...etc.) of the values in each group. You have probably come across this idea before, using `matlab` accumarray, `pandas` groupby, or generally MapReduce algorithms and histograms. There are different implementations of `aggregate` provided, based on plain `numpy`, `numba` and `weave`. Performance is a main concern, and so far we comfortably beat similar implementations in other packages (check the benchmarks).} + +proc ModulesHelp { } { + puts stderr {Name : py-numpy-groupies} + puts stderr {Version: 0.9.20} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {This package consists of a couple of optimised tools for doing things} + puts stderr {that can roughly be considered "group-indexing operations". The most} + puts stderr {prominent tool is `aggregate`. `aggregate` takes an array of values, and} + puts stderr {an array giving the group number for each of those values. It then} + puts stderr {returns the sum (or mean, or std, or any, ...etc.) of the values in each} + puts stderr {group. You have probably come across this idea before, using `matlab`} + puts stderr {accumarray, `pandas` groupby, or generally MapReduce algorithms and} + puts stderr {histograms. There are different implementations of `aggregate` provided,} + puts stderr {based on plain `numpy`, `numba` and `weave`. Performance is a main} + puts stderr {concern, and so far we comfortably beat similar implementations in other} + puts stderr {packages (check the benchmarks).} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-numpy/1.25.2-4avjy5d + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-numpy/1.25.2-4avjy5d + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-numpy-groupies + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numpy-groupies-0.9.20-prhgiyq6nijeres57bn6itcpkjhxos5e/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numpy-groupies-0.9.20-prhgiyq6nijeres57bn6itcpkjhxos5e/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numpy-groupies-0.9.20-prhgiyq6nijeres57bn6itcpkjhxos5e/lib/python3.11/site-packages} +setenv PY_NUMPY_GROUPIES_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numpy-groupies-0.9.20-prhgiyq6nijeres57bn6itcpkjhxos5e} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-numpy/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-numpy/.modulerc new file mode 100644 index 00000000..e88e68d2 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-numpy/.modulerc @@ -0,0 +1,7 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-numpy/1.25.2-2wshlgs +module-hide --soft --hidden-loaded py-numpy/1.25.2-4avjy5d +module-hide --soft --hidden-loaded py-numpy/1.26.4-pzeanm2 +module-hide --soft --hidden-loaded py-numpy/2.1.2-dyrfjl4 +module-hide --soft --hidden-loaded py-numpy/2.1.2-rif434b +module-hide --soft --hidden-loaded py-numpy/1.24.4-bazqgqd diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-numpy/1.24.4-bazqgqd b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-numpy/1.24.4-bazqgqd new file mode 100644 index 00000000..92620ad0 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-numpy/1.24.4-bazqgqd @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:33.327151 +## +## py-numpy@1.24.4%gcc@13.2.0 build_system=python_pip patches=873745d arch=linux-ubuntu22.04-x86_64_v3/bazqgqd +## + + +module-whatis {Fundamental package for array computing in Python.} + +proc ModulesHelp { } { + puts stderr {Name : py-numpy} + puts stderr {Version: 1.24.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Fundamental package for array computing in Python.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-setuptools/63.4.3-63ta5ci + module load python/3.8.19-dxx3zxu + module load python-venv/1.0-l4mqvrb +} else { + depends-on py-setuptools/63.4.3-63ta5ci + depends-on python/3.8.19-dxx3zxu + depends-on python-venv/1.0-l4mqvrb +} +conflict py-numpy + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numpy-1.24.4-bazqgqdanj6fajkbfpevn3v65qg3ytj5/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numpy-1.24.4-bazqgqdanj6fajkbfpevn3v65qg3ytj5/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numpy-1.24.4-bazqgqdanj6fajkbfpevn3v65qg3ytj5/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numpy-1.24.4-bazqgqdanj6fajkbfpevn3v65qg3ytj5/lib/python3.8/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numpy-1.24.4-bazqgqdanj6fajkbfpevn3v65qg3ytj5/bin} +setenv PY_NUMPY_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numpy-1.24.4-bazqgqdanj6fajkbfpevn3v65qg3ytj5} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-numpy/1.25.2-2wshlgs b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-numpy/1.25.2-2wshlgs new file mode 100644 index 00000000..ce360492 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-numpy/1.25.2-2wshlgs @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:33.511041 +## +## py-numpy@1.25.2%gcc@13.2.0 build_system=python_pip patches=873745d arch=linux-ubuntu22.04-x86_64_v3/2wshlgs +## + + +module-whatis {Fundamental package for array computing in Python.} + +proc ModulesHelp { } { + puts stderr {Name : py-numpy} + puts stderr {Version: 1.25.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Fundamental package for array computing in Python.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-setuptools/63.4.3-dk3apgd + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-setuptools/63.4.3-dk3apgd + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-numpy + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numpy-1.25.2-2wshlgso7dauoa2ajw7doz5zj3hvbyhb/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numpy-1.25.2-2wshlgso7dauoa2ajw7doz5zj3hvbyhb/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numpy-1.25.2-2wshlgso7dauoa2ajw7doz5zj3hvbyhb/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numpy-1.25.2-2wshlgso7dauoa2ajw7doz5zj3hvbyhb/lib/python3.11/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numpy-1.25.2-2wshlgso7dauoa2ajw7doz5zj3hvbyhb/bin} +setenv PY_NUMPY_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numpy-1.25.2-2wshlgso7dauoa2ajw7doz5zj3hvbyhb} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-numpy/1.25.2-4avjy5d b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-numpy/1.25.2-4avjy5d new file mode 100644 index 00000000..69b8584e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-numpy/1.25.2-4avjy5d @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:33.675809 +## +## py-numpy@1.25.2%gcc@13.2.0 build_system=python_pip patches=873745d arch=linux-ubuntu22.04-x86_64_v3/4avjy5d +## + + +module-whatis {Fundamental package for array computing in Python.} + +proc ModulesHelp { } { + puts stderr {Name : py-numpy} + puts stderr {Version: 1.25.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Fundamental package for array computing in Python.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-setuptools/63.4.3-dk3apgd + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-setuptools/63.4.3-dk3apgd + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-numpy + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numpy-1.25.2-4avjy5dsctt6kb6xghqfc5avvduwd5jx/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numpy-1.25.2-4avjy5dsctt6kb6xghqfc5avvduwd5jx/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numpy-1.25.2-4avjy5dsctt6kb6xghqfc5avvduwd5jx/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numpy-1.25.2-4avjy5dsctt6kb6xghqfc5avvduwd5jx/lib/python3.11/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numpy-1.25.2-4avjy5dsctt6kb6xghqfc5avvduwd5jx/bin} +setenv PY_NUMPY_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numpy-1.25.2-4avjy5dsctt6kb6xghqfc5avvduwd5jx} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-numpy/1.26.4-pzeanm2 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-numpy/1.26.4-pzeanm2 new file mode 100644 index 00000000..01a53bbb --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-numpy/1.26.4-pzeanm2 @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:33.834846 +## +## py-numpy@1.26.4%gcc@13.2.0 build_system=python_pip patches=873745d arch=linux-ubuntu22.04-x86_64_v3/pzeanm2 +## + + +module-whatis {Fundamental package for array computing in Python.} + +proc ModulesHelp { } { + puts stderr {Name : py-numpy} + puts stderr {Version: 1.26.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Fundamental package for array computing in Python.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-numpy + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numpy-1.26.4-pzeanm23npp7vxnfc4m5ehhtqjadbtse/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numpy-1.26.4-pzeanm23npp7vxnfc4m5ehhtqjadbtse/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numpy-1.26.4-pzeanm23npp7vxnfc4m5ehhtqjadbtse/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numpy-1.26.4-pzeanm23npp7vxnfc4m5ehhtqjadbtse/lib/python3.11/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numpy-1.26.4-pzeanm23npp7vxnfc4m5ehhtqjadbtse/bin} +setenv PY_NUMPY_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numpy-1.26.4-pzeanm23npp7vxnfc4m5ehhtqjadbtse} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-numpy/2.1.2-dyrfjl4 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-numpy/2.1.2-dyrfjl4 new file mode 100644 index 00000000..695bd7d6 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-numpy/2.1.2-dyrfjl4 @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:33.957591 +## +## py-numpy@2.1.2%gcc@13.2.0 build_system=python_pip patches=873745d arch=linux-ubuntu22.04-x86_64_v3/dyrfjl4 +## + + +module-whatis {Fundamental package for array computing in Python.} + +proc ModulesHelp { } { + puts stderr {Name : py-numpy} + puts stderr {Version: 2.1.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Fundamental package for array computing in Python.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-numpy + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numpy-2.1.2-dyrfjl4dbuicmfjkbeaixewco2fi3lil/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numpy-2.1.2-dyrfjl4dbuicmfjkbeaixewco2fi3lil/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numpy-2.1.2-dyrfjl4dbuicmfjkbeaixewco2fi3lil/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numpy-2.1.2-dyrfjl4dbuicmfjkbeaixewco2fi3lil/lib/python3.11/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numpy-2.1.2-dyrfjl4dbuicmfjkbeaixewco2fi3lil/bin} +setenv PY_NUMPY_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numpy-2.1.2-dyrfjl4dbuicmfjkbeaixewco2fi3lil} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-numpy/2.1.2-rif434b b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-numpy/2.1.2-rif434b new file mode 100644 index 00000000..31580352 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-numpy/2.1.2-rif434b @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:34.074520 +## +## py-numpy@2.1.2%gcc@13.2.0 build_system=python_pip patches=873745d arch=linux-ubuntu22.04-x86_64_v3/rif434b +## + + +module-whatis {Fundamental package for array computing in Python.} + +proc ModulesHelp { } { + puts stderr {Name : py-numpy} + puts stderr {Version: 2.1.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Fundamental package for array computing in Python.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-numpy + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numpy-2.1.2-rif434bigzrosfslsolujf4c7wvoqngx/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numpy-2.1.2-rif434bigzrosfslsolujf4c7wvoqngx/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numpy-2.1.2-rif434bigzrosfslsolujf4c7wvoqngx/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numpy-2.1.2-rif434bigzrosfslsolujf4c7wvoqngx/lib/python3.11/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numpy-2.1.2-rif434bigzrosfslsolujf4c7wvoqngx/bin} +setenv PY_NUMPY_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numpy-2.1.2-rif434bigzrosfslsolujf4c7wvoqngx} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-numpydoc/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-numpydoc/.modulerc new file mode 100644 index 00000000..8f892570 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-numpydoc/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-numpydoc/1.5.0-hv47yf4 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-numpydoc/1.5.0-hv47yf4 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-numpydoc/1.5.0-hv47yf4 new file mode 100644 index 00000000..c1830366 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-numpydoc/1.5.0-hv47yf4 @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:34.663608 +## +## py-numpydoc@1.5.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/hv47yf4 +## + + +module-whatis {numpydoc - Numpy's Sphinx extensions} + +proc ModulesHelp { } { + puts stderr {Name : py-numpydoc} + puts stderr {Version: 1.5.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {numpydoc - Numpy's Sphinx extensions} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-jinja2/3.1.4-4gsb36v + module load py-sphinx/8.1.0-h2pf5hd + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-jinja2/3.1.4-4gsb36v + depends-on py-sphinx/8.1.0-h2pf5hd + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-numpydoc + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numpydoc-1.5.0-hv47yf4iuiqbn6mfha7od7tu6s7bz5aj/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numpydoc-1.5.0-hv47yf4iuiqbn6mfha7od7tu6s7bz5aj/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numpydoc-1.5.0-hv47yf4iuiqbn6mfha7od7tu6s7bz5aj/lib/python3.11/site-packages} +setenv PY_NUMPYDOC_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-numpydoc-1.5.0-hv47yf4iuiqbn6mfha7od7tu6s7bz5aj} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-opt-einsum/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-opt-einsum/.modulerc new file mode 100644 index 00000000..6a61becf --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-opt-einsum/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-opt-einsum/3.3.0-anjao2l diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-opt-einsum/3.3.0-anjao2l b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-opt-einsum/3.3.0-anjao2l new file mode 100644 index 00000000..1f6eb36a --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-opt-einsum/3.3.0-anjao2l @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:35.679472 +## +## py-opt-einsum@3.3.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/anjao2l +## + + +module-whatis {Optimized Einsum: A tensor contraction order optimizer.} + +proc ModulesHelp { } { + puts stderr {Name : py-opt-einsum} + puts stderr {Version: 3.3.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Optimized Einsum: A tensor contraction order optimizer.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-numpy/1.25.2-2wshlgs + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-numpy/1.25.2-2wshlgs + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-opt-einsum + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-opt-einsum-3.3.0-anjao2lxii24aqnwyaswthusecf4u5nd/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-opt-einsum-3.3.0-anjao2lxii24aqnwyaswthusecf4u5nd/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-opt-einsum-3.3.0-anjao2lxii24aqnwyaswthusecf4u5nd/lib/python3.11/site-packages} +setenv PY_OPT_EINSUM_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-opt-einsum-3.3.0-anjao2lxii24aqnwyaswthusecf4u5nd} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-packaging/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-packaging/.modulerc new file mode 100644 index 00000000..de3e470c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-packaging/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-packaging/24.1-a36mhum +module-hide --soft --hidden-loaded py-packaging/24.1-wqlsuzx diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-packaging/24.1-a36mhum b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-packaging/24.1-a36mhum new file mode 100644 index 00000000..0d9a4b96 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-packaging/24.1-a36mhum @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:35.876606 +## +## py-packaging@24.1%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/a36mhum +## + + +module-whatis {Core utilities for Python packages.} + +proc ModulesHelp { } { + puts stderr {Name : py-packaging} + puts stderr {Version: 24.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Core utilities for Python packages.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-packaging + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-packaging-24.1-a36mhuml7tcptt2gd3bvu4oeiebctt2p/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-packaging-24.1-a36mhuml7tcptt2gd3bvu4oeiebctt2p/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-packaging-24.1-a36mhuml7tcptt2gd3bvu4oeiebctt2p/lib/python3.11/site-packages} +setenv PY_PACKAGING_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-packaging-24.1-a36mhuml7tcptt2gd3bvu4oeiebctt2p} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-packaging/24.1-wqlsuzx b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-packaging/24.1-wqlsuzx new file mode 100644 index 00000000..78085d09 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-packaging/24.1-wqlsuzx @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:36.002771 +## +## py-packaging@24.1%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/wqlsuzx +## + + +module-whatis {Core utilities for Python packages.} + +proc ModulesHelp { } { + puts stderr {Name : py-packaging} + puts stderr {Version: 24.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Core utilities for Python packages.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.8.19-dxx3zxu + module load python-venv/1.0-l4mqvrb +} else { + depends-on python/3.8.19-dxx3zxu + depends-on python-venv/1.0-l4mqvrb +} +conflict py-packaging + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-packaging-24.1-wqlsuzxw5rdqs6553so2ac5mg25dx7z6/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-packaging-24.1-wqlsuzxw5rdqs6553so2ac5mg25dx7z6/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-packaging-24.1-wqlsuzxw5rdqs6553so2ac5mg25dx7z6/lib/python3.8/site-packages} +setenv PY_PACKAGING_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-packaging-24.1-wqlsuzxw5rdqs6553so2ac5mg25dx7z6} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pandas/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pandas/.modulerc new file mode 100644 index 00000000..0ce29771 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pandas/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-pandas/2.2.3-c3jc7mo +module-hide --soft --hidden-loaded py-pandas/2.2.3-6rnszw5 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pandas/2.2.3-6rnszw5 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pandas/2.2.3-6rnszw5 new file mode 100644 index 00000000..f2e93c96 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pandas/2.2.3-6rnszw5 @@ -0,0 +1,86 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:36.722735 +## +## py-pandas@2.2.3%gcc@13.2.0~excel+performance build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/6rnszw5 +## + + +module-whatis {pandas is a fast, powerful, flexible and easy to use open source data analysis and manipulation tool, built on top of the Python programming language.} + +proc ModulesHelp { } { + puts stderr {Name : py-pandas} + puts stderr {Version: 2.2.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {pandas is a fast, powerful, flexible and easy to use open source data} + puts stderr {analysis and manipulation tool, built on top of the Python programming} + puts stderr {language.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-bottleneck/1.3.7-xnwbv5k + module load py-numba/0.58.1-edzfe5c + module load py-numexpr/2.9.0-ohvai53 + module load py-numpy/1.25.2-2wshlgs + module load py-python-dateutil/2.8.2-jg4xjs2 + module load py-pytz/2023.3-c555fuu + module load py-tzdata/2023.3-otrhf6b + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-bottleneck/1.3.7-xnwbv5k + depends-on py-numba/0.58.1-edzfe5c + depends-on py-numexpr/2.9.0-ohvai53 + depends-on py-numpy/1.25.2-2wshlgs + depends-on py-python-dateutil/2.8.2-jg4xjs2 + depends-on py-pytz/2023.3-c555fuu + depends-on py-tzdata/2023.3-otrhf6b + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-pandas + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pandas-2.2.3-6rnszw5qp6lkl2a3qzuy5dphdd3joay2/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pandas-2.2.3-6rnszw5qp6lkl2a3qzuy5dphdd3joay2/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pandas-2.2.3-6rnszw5qp6lkl2a3qzuy5dphdd3joay2/lib/python3.11/site-packages} +setenv PY_PANDAS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pandas-2.2.3-6rnszw5qp6lkl2a3qzuy5dphdd3joay2} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pandas/2.2.3-c3jc7mo b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pandas/2.2.3-c3jc7mo new file mode 100644 index 00000000..fe251f44 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pandas/2.2.3-c3jc7mo @@ -0,0 +1,86 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:36.150788 +## +## py-pandas@2.2.3%gcc@13.2.0~excel+performance build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/c3jc7mo +## + + +module-whatis {pandas is a fast, powerful, flexible and easy to use open source data analysis and manipulation tool, built on top of the Python programming language.} + +proc ModulesHelp { } { + puts stderr {Name : py-pandas} + puts stderr {Version: 2.2.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {pandas is a fast, powerful, flexible and easy to use open source data} + puts stderr {analysis and manipulation tool, built on top of the Python programming} + puts stderr {language.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-bottleneck/1.3.7-7zxc2ik + module load py-numba/0.58.1-rzf5lmw + module load py-numexpr/2.9.0-4ddlt52 + module load py-numpy/1.25.2-4avjy5d + module load py-python-dateutil/2.8.2-viseoic + module load py-pytz/2023.3-35rkh4p + module load py-tzdata/2023.3-dlicjx2 + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-bottleneck/1.3.7-7zxc2ik + depends-on py-numba/0.58.1-rzf5lmw + depends-on py-numexpr/2.9.0-4ddlt52 + depends-on py-numpy/1.25.2-4avjy5d + depends-on py-python-dateutil/2.8.2-viseoic + depends-on py-pytz/2023.3-35rkh4p + depends-on py-tzdata/2023.3-dlicjx2 + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-pandas + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pandas-2.2.3-c3jc7mobyqasumzqdzemum7yjr4ojfwj/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pandas-2.2.3-c3jc7mobyqasumzqdzemum7yjr4ojfwj/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pandas-2.2.3-c3jc7mobyqasumzqdzemum7yjr4ojfwj/lib/python3.11/site-packages} +setenv PY_PANDAS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pandas-2.2.3-c3jc7mobyqasumzqdzemum7yjr4ojfwj} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-parso/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-parso/.modulerc new file mode 100644 index 00000000..e57df5ba --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-parso/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-parso/0.8.4-uqoddj3 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-parso/0.8.4-uqoddj3 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-parso/0.8.4-uqoddj3 new file mode 100644 index 00000000..cae43088 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-parso/0.8.4-uqoddj3 @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:37.308576 +## +## py-parso@0.8.4%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/uqoddj3 +## + + +module-whatis {Parso is a Python parser that supports error recovery and round-trip parsing for different Python versions (in multiple Python versions). Parso is also able to list multiple syntax errors in your python file.} + +proc ModulesHelp { } { + puts stderr {Name : py-parso} + puts stderr {Version: 0.8.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Parso is a Python parser that supports error recovery and round-trip} + puts stderr {parsing for different Python versions (in multiple Python versions).} + puts stderr {Parso is also able to list multiple syntax errors in your python file.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-parso + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-parso-0.8.4-uqoddj3ixhoun52l23icewzxvzxpuaz6/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-parso-0.8.4-uqoddj3ixhoun52l23icewzxvzxpuaz6/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-parso-0.8.4-uqoddj3ixhoun52l23icewzxvzxpuaz6/lib/python3.11/site-packages} +setenv PY_PARSO_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-parso-0.8.4-uqoddj3ixhoun52l23icewzxvzxpuaz6} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pathspec/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pathspec/.modulerc new file mode 100644 index 00000000..8d2fb7c3 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pathspec/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-pathspec/0.11.1-sn5h6i5 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pathspec/0.11.1-sn5h6i5 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pathspec/0.11.1-sn5h6i5 new file mode 100644 index 00000000..a24857d1 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pathspec/0.11.1-sn5h6i5 @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:37.429889 +## +## py-pathspec@0.11.1%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/sn5h6i5 +## + + +module-whatis {pathspec extends the test loading and running features of unittest, making it easier to write, find and run tests.} + +proc ModulesHelp { } { + puts stderr {Name : py-pathspec} + puts stderr {Version: 0.11.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {pathspec extends the test loading and running features of unittest,} + puts stderr {making it easier to write, find and run tests.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-pathspec + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pathspec-0.11.1-sn5h6i5mqxszgr7az4lgbgpqz7hfxsri/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pathspec-0.11.1-sn5h6i5mqxszgr7az4lgbgpqz7hfxsri/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pathspec-0.11.1-sn5h6i5mqxszgr7az4lgbgpqz7hfxsri/lib/python3.11/site-packages} +setenv PY_PATHSPEC_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pathspec-0.11.1-sn5h6i5mqxszgr7az4lgbgpqz7hfxsri} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pdbfixer/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pdbfixer/.modulerc new file mode 100644 index 00000000..70c9f825 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pdbfixer/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-pdbfixer/1.7-lf4k4ky diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pdbfixer/1.7-lf4k4ky b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pdbfixer/1.7-lf4k4ky new file mode 100644 index 00000000..4415b697 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pdbfixer/1.7-lf4k4ky @@ -0,0 +1,79 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:37.546137 +## +## py-pdbfixer@1.7%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/lf4k4ky +## + + +module-whatis {PDBFixer is an easy to use application for fixing problems in Protein Data Bank files in preparation for simulating them.} + +proc ModulesHelp { } { + puts stderr {Name : py-pdbfixer} + puts stderr {Version: 1.7} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {PDBFixer is an easy to use application for fixing problems in Protein} + puts stderr {Data Bank files in preparation for simulating them.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load openmm/7.5.1-33qcxte + module load py-numpy/1.25.2-2wshlgs + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on openmm/7.5.1-33qcxte + depends-on py-numpy/1.25.2-2wshlgs + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-pdbfixer + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pdbfixer-1.7-lf4k4kyg2wvfqiadzkyjwpsqxktdnrot/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pdbfixer-1.7-lf4k4kyg2wvfqiadzkyjwpsqxktdnrot/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pdbfixer-1.7-lf4k4kyg2wvfqiadzkyjwpsqxktdnrot/.} +setenv OPENMM_CUDA_COMPILER {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/cuda-12.6.2/bin/nvcc} +setenv CUDA_HOST_COMPILER {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/compilers/gcc-13.2.0/bin/g++} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pdbfixer-1.7-lf4k4kyg2wvfqiadzkyjwpsqxktdnrot/lib/python3.11/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pdbfixer-1.7-lf4k4kyg2wvfqiadzkyjwpsqxktdnrot/bin} +setenv PY_PDBFIXER_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pdbfixer-1.7-lf4k4kyg2wvfqiadzkyjwpsqxktdnrot} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pexpect/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pexpect/.modulerc new file mode 100644 index 00000000..c402bec4 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pexpect/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-pexpect/4.9.0-rvw66yj diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pexpect/4.9.0-rvw66yj b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pexpect/4.9.0-rvw66yj new file mode 100644 index 00000000..da3806fd --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pexpect/4.9.0-rvw66yj @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:37.800679 +## +## py-pexpect@4.9.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/rvw66yj +## + + +module-whatis {Pexpect allows easy control of interactive console applications.} + +proc ModulesHelp { } { + puts stderr {Name : py-pexpect} + puts stderr {Version: 4.9.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Pexpect allows easy control of interactive console applications.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-ptyprocess/0.7.0-dim3f35 + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-ptyprocess/0.7.0-dim3f35 + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-pexpect + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pexpect-4.9.0-rvw66yjjltmlzaoufmeygcclmxyrosxv/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pexpect-4.9.0-rvw66yjjltmlzaoufmeygcclmxyrosxv/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pexpect-4.9.0-rvw66yjjltmlzaoufmeygcclmxyrosxv/lib/python3.11/site-packages} +setenv PY_PEXPECT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pexpect-4.9.0-rvw66yjjltmlzaoufmeygcclmxyrosxv} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pickleshare/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pickleshare/.modulerc new file mode 100644 index 00000000..ab7a16a0 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pickleshare/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-pickleshare/0.7.5-ic4ib6j diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pickleshare/0.7.5-ic4ib6j b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pickleshare/0.7.5-ic4ib6j new file mode 100644 index 00000000..a7b861ea --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pickleshare/0.7.5-ic4ib6j @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:37.963320 +## +## py-pickleshare@0.7.5%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/ic4ib6j +## + + +module-whatis {Tiny 'shelve'-like database with concurrency support} + +proc ModulesHelp { } { + puts stderr {Name : py-pickleshare} + puts stderr {Version: 0.7.5} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Tiny 'shelve'-like database with concurrency support} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-pickleshare + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pickleshare-0.7.5-ic4ib6jxwgndhpufo7hrsil2arhb3a5x/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pickleshare-0.7.5-ic4ib6jxwgndhpufo7hrsil2arhb3a5x/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pickleshare-0.7.5-ic4ib6jxwgndhpufo7hrsil2arhb3a5x/lib/python3.11/site-packages} +setenv PY_PICKLESHARE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pickleshare-0.7.5-ic4ib6jxwgndhpufo7hrsil2arhb3a5x} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pillow/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pillow/.modulerc new file mode 100644 index 00000000..36c26b2c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pillow/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-pillow/11.0.0-ofhp5he diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pillow/11.0.0-ofhp5he b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pillow/11.0.0-ofhp5he new file mode 100644 index 00000000..37118334 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pillow/11.0.0-ofhp5he @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:38.081509 +## +## py-pillow@11.0.0%gcc@13.2.0~freetype~imagequant+jpeg~jpeg2000~lcms~tiff~webp~xcb+zlib build_system=python_pip patches=599f37e arch=linux-ubuntu22.04-x86_64_v3/ofhp5he +## + + +module-whatis {Pillow is a fork of the Python Imaging Library (PIL). It adds image processing capabilities to your Python interpreter. This library supports many file formats, and provides powerful image processing and graphics capabilities.} + +proc ModulesHelp { } { + puts stderr {Name : py-pillow} + puts stderr {Version: 11.0.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Pillow is a fork of the Python Imaging Library (PIL). It adds image} + puts stderr {processing capabilities to your Python interpreter. This library} + puts stderr {supports many file formats, and provides powerful image processing and} + puts stderr {graphics capabilities.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-pillow + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pillow-11.0.0-ofhp5hepnmjo6isg3knryel7m2lglzzd/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pillow-11.0.0-ofhp5hepnmjo6isg3knryel7m2lglzzd/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pillow-11.0.0-ofhp5hepnmjo6isg3knryel7m2lglzzd/lib/python3.11/site-packages} +setenv PY_PILLOW_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pillow-11.0.0-ofhp5hepnmjo6isg3knryel7m2lglzzd} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pip/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pip/.modulerc new file mode 100644 index 00000000..55f24840 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pip/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-pip/23.1.2-j5o3zae +module-hide --soft --hidden-loaded py-pip/23.1.2-vxirqjz diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pip/23.1.2-j5o3zae b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pip/23.1.2-j5o3zae new file mode 100644 index 00000000..87ed4488 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pip/23.1.2-j5o3zae @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:38.321480 +## +## py-pip@23.1.2%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/j5o3zae +## + + +module-whatis {The PyPA recommended tool for installing Python packages.} + +proc ModulesHelp { } { + puts stderr {Name : py-pip} + puts stderr {Version: 23.1.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The PyPA recommended tool for installing Python packages.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.8.19-dxx3zxu + module load python-venv/1.0-l4mqvrb +} else { + depends-on python/3.8.19-dxx3zxu + depends-on python-venv/1.0-l4mqvrb +} +conflict py-pip + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pip-23.1.2-j5o3zaekmeg6m3itma3qzo6w7saaz5ip/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pip-23.1.2-j5o3zaekmeg6m3itma3qzo6w7saaz5ip/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pip-23.1.2-j5o3zaekmeg6m3itma3qzo6w7saaz5ip/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pip-23.1.2-j5o3zaekmeg6m3itma3qzo6w7saaz5ip/lib/python3.8/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pip-23.1.2-j5o3zaekmeg6m3itma3qzo6w7saaz5ip/bin} +setenv PY_PIP_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pip-23.1.2-j5o3zaekmeg6m3itma3qzo6w7saaz5ip} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pip/23.1.2-vxirqjz b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pip/23.1.2-vxirqjz new file mode 100644 index 00000000..98f5e4bf --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pip/23.1.2-vxirqjz @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:38.201332 +## +## py-pip@23.1.2%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/vxirqjz +## + + +module-whatis {The PyPA recommended tool for installing Python packages.} + +proc ModulesHelp { } { + puts stderr {Name : py-pip} + puts stderr {Version: 23.1.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The PyPA recommended tool for installing Python packages.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-pip + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pip-23.1.2-vxirqjzfpfwajjn5rsaqcgqlhx3sntty/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pip-23.1.2-vxirqjzfpfwajjn5rsaqcgqlhx3sntty/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pip-23.1.2-vxirqjzfpfwajjn5rsaqcgqlhx3sntty/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pip-23.1.2-vxirqjzfpfwajjn5rsaqcgqlhx3sntty/lib/python3.11/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pip-23.1.2-vxirqjzfpfwajjn5rsaqcgqlhx3sntty/bin} +setenv PY_PIP_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pip-23.1.2-vxirqjzfpfwajjn5rsaqcgqlhx3sntty} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-plotly/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-plotly/.modulerc new file mode 100644 index 00000000..bc10baed --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-plotly/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-plotly/5.20.0-er524ij +module-hide --soft --hidden-loaded py-plotly/5.20.0-yscqbcj diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-plotly/5.20.0-er524ij b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-plotly/5.20.0-er524ij new file mode 100644 index 00000000..9ad12920 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-plotly/5.20.0-er524ij @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:38.442001 +## +## py-plotly@5.20.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/er524ij +## + + +module-whatis {An interactive, browser-based graphing library for Python} + +proc ModulesHelp { } { + puts stderr {Name : py-plotly} + puts stderr {Version: 5.20.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {An interactive, browser-based graphing library for Python} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-packaging/24.1-a36mhum + module load py-tenacity/8.2.2-ikjmwyn + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-packaging/24.1-a36mhum + depends-on py-tenacity/8.2.2-ikjmwyn + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-plotly + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-plotly-5.20.0-er524ijzukozdbgiegnes7udl7hpswtt/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-plotly-5.20.0-er524ijzukozdbgiegnes7udl7hpswtt/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-plotly-5.20.0-er524ijzukozdbgiegnes7udl7hpswtt/lib/python3.11/site-packages} +setenv PY_PLOTLY_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-plotly-5.20.0-er524ijzukozdbgiegnes7udl7hpswtt} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-plotly/5.20.0-yscqbcj b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-plotly/5.20.0-yscqbcj new file mode 100644 index 00000000..0d2482e1 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-plotly/5.20.0-yscqbcj @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 13:38:47.909116 +## +## py-plotly@5.20.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/yscqbcj +## + + +module-whatis {An interactive, browser-based graphing library for Python} + +proc ModulesHelp { } { + puts stderr {Name : py-plotly} + puts stderr {Version: 5.20.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {An interactive, browser-based graphing library for Python} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-packaging/24.1-a36mhum + module load py-tenacity/8.2.2-ikjmwyn + module load python/3.11.9-i64b36b + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-packaging/24.1-a36mhum + depends-on py-tenacity/8.2.2-ikjmwyn + depends-on python/3.11.9-i64b36b + depends-on python-venv/1.0-ed2nmwx +} +conflict py-plotly + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-plotly-5.20.0-yscqbcjlug4abm2o5trwuct3ti4ienyv/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-plotly-5.20.0-yscqbcjlug4abm2o5trwuct3ti4ienyv/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-plotly-5.20.0-yscqbcjlug4abm2o5trwuct3ti4ienyv/lib/python3.11/site-packages} +setenv PY_PLOTLY_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-plotly-5.20.0-yscqbcjlug4abm2o5trwuct3ti4ienyv} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pluggy/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pluggy/.modulerc new file mode 100644 index 00000000..aac11cb5 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pluggy/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-pluggy/1.5.0-7wnsu7l diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pluggy/1.5.0-7wnsu7l b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pluggy/1.5.0-7wnsu7l new file mode 100644 index 00000000..eca835ec --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pluggy/1.5.0-7wnsu7l @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:38.647339 +## +## py-pluggy@1.5.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/7wnsu7l +## + + +module-whatis {Plugin and hook calling mechanisms for python.} + +proc ModulesHelp { } { + puts stderr {Name : py-pluggy} + puts stderr {Version: 1.5.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Plugin and hook calling mechanisms for python.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-pluggy + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pluggy-1.5.0-7wnsu7lpfa3ruyu2v6vapxqptisy3j2z/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pluggy-1.5.0-7wnsu7lpfa3ruyu2v6vapxqptisy3j2z/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pluggy-1.5.0-7wnsu7lpfa3ruyu2v6vapxqptisy3j2z/lib/python3.11/site-packages} +setenv PY_PLUGGY_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pluggy-1.5.0-7wnsu7lpfa3ruyu2v6vapxqptisy3j2z} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-ply/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-ply/.modulerc new file mode 100644 index 00000000..9a0c5a6d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-ply/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-ply/3.11-2uehqja diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-ply/3.11-2uehqja b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-ply/3.11-2uehqja new file mode 100644 index 00000000..b0dcd84c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-ply/3.11-2uehqja @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:38.759320 +## +## py-ply@3.11%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/2uehqja +## + + +module-whatis {Python Lex & Yacc.} + +proc ModulesHelp { } { + puts stderr {Name : py-ply} + puts stderr {Version: 3.11} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Python Lex & Yacc.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.8.19-dxx3zxu + module load python-venv/1.0-l4mqvrb +} else { + depends-on python/3.8.19-dxx3zxu + depends-on python-venv/1.0-l4mqvrb +} +conflict py-ply + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-ply-3.11-2uehqja7cievhko5k2u2tk6asbs2anrl/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-ply-3.11-2uehqja7cievhko5k2u2tk6asbs2anrl/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-ply-3.11-2uehqja7cievhko5k2u2tk6asbs2anrl/lib/python3.8/site-packages} +setenv PY_PLY_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-ply-3.11-2uehqja7cievhko5k2u2tk6asbs2anrl} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-prompt-toolkit/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-prompt-toolkit/.modulerc new file mode 100644 index 00000000..57e60265 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-prompt-toolkit/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-prompt-toolkit/3.0.38-wakgqao +module-hide --soft --hidden-loaded py-prompt-toolkit/3.0.43-fuj3cjt diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-prompt-toolkit/3.0.38-wakgqao b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-prompt-toolkit/3.0.38-wakgqao new file mode 100644 index 00000000..a383249f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-prompt-toolkit/3.0.38-wakgqao @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:38.908447 +## +## py-prompt-toolkit@3.0.38%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/wakgqao +## + + +module-whatis {Library for building powerful interactive command lines in Python} + +proc ModulesHelp { } { + puts stderr {Name : py-prompt-toolkit} + puts stderr {Version: 3.0.38} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Library for building powerful interactive command lines in Python} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-wcwidth/0.2.7-xb5en4c + module load python/3.11.9-itykk2n + module load python-venv/1.0-okrhcwx +} else { + depends-on py-wcwidth/0.2.7-xb5en4c + depends-on python/3.11.9-itykk2n + depends-on python-venv/1.0-okrhcwx +} +conflict py-prompt-toolkit + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-prompt-toolkit-3.0.38-wakgqao3lqgis7jnue6upq4ouh3lgtso/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-prompt-toolkit-3.0.38-wakgqao3lqgis7jnue6upq4ouh3lgtso/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-prompt-toolkit-3.0.38-wakgqao3lqgis7jnue6upq4ouh3lgtso/lib/python3.11/site-packages} +setenv PY_PROMPT_TOOLKIT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-prompt-toolkit-3.0.38-wakgqao3lqgis7jnue6upq4ouh3lgtso} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-prompt-toolkit/3.0.43-fuj3cjt b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-prompt-toolkit/3.0.43-fuj3cjt new file mode 100644 index 00000000..4a000857 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-prompt-toolkit/3.0.43-fuj3cjt @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:39.093595 +## +## py-prompt-toolkit@3.0.43%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/fuj3cjt +## + + +module-whatis {Library for building powerful interactive command lines in Python} + +proc ModulesHelp { } { + puts stderr {Name : py-prompt-toolkit} + puts stderr {Version: 3.0.43} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Library for building powerful interactive command lines in Python} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-wcwidth/0.2.7-q5fv7km + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-wcwidth/0.2.7-q5fv7km + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-prompt-toolkit + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-prompt-toolkit-3.0.43-fuj3cjtawfzsthxdetcxcc7camit6akj/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-prompt-toolkit-3.0.43-fuj3cjtawfzsthxdetcxcc7camit6akj/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-prompt-toolkit-3.0.43-fuj3cjtawfzsthxdetcxcc7camit6akj/lib/python3.11/site-packages} +setenv PY_PROMPT_TOOLKIT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-prompt-toolkit-3.0.43-fuj3cjtawfzsthxdetcxcc7camit6akj} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-protobuf/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-protobuf/.modulerc new file mode 100644 index 00000000..6facb2d5 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-protobuf/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-protobuf/4.25.3-b4ekuzd diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-protobuf/4.25.3-b4ekuzd b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-protobuf/4.25.3-b4ekuzd new file mode 100644 index 00000000..4132bed5 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-protobuf/4.25.3-b4ekuzd @@ -0,0 +1,77 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:39.264016 +## +## py-protobuf@4.25.3%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/b4ekuzd +## + + +module-whatis {Protocol buffers are Google's language-neutral, platform-neutral, extensible mechanism for serializing structured data - think XML, but smaller, faster, and simpler. You define how you want your data to be structured once, then you can use special generated source code to easily write and read your structured data to and from a variety of data streams and using a variety of languages.} + +proc ModulesHelp { } { + puts stderr {Name : py-protobuf} + puts stderr {Version: 4.25.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Protocol buffers are Google's language-neutral, platform-neutral,} + puts stderr {extensible mechanism for serializing structured data - think XML, but} + puts stderr {smaller, faster, and simpler. You define how you want your data to be} + puts stderr {structured once, then you can use special generated source code to} + puts stderr {easily write and read your structured data to and from a variety of data} + puts stderr {streams and using a variety of languages.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-setuptools/63.4.3-dk3apgd + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-setuptools/63.4.3-dk3apgd + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-protobuf + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-protobuf-4.25.3-b4ekuzdou4hrro5kfan6p5obdhdojoxw/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-protobuf-4.25.3-b4ekuzdou4hrro5kfan6p5obdhdojoxw/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-protobuf-4.25.3-b4ekuzdou4hrro5kfan6p5obdhdojoxw/lib/python3.11/site-packages} +setenv PY_PROTOBUF_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-protobuf-4.25.3-b4ekuzdou4hrro5kfan6p5obdhdojoxw} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-ptyprocess/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-ptyprocess/.modulerc new file mode 100644 index 00000000..a66d67e1 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-ptyprocess/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-ptyprocess/0.7.0-dim3f35 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-ptyprocess/0.7.0-dim3f35 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-ptyprocess/0.7.0-dim3f35 new file mode 100644 index 00000000..699bf841 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-ptyprocess/0.7.0-dim3f35 @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:39.421033 +## +## py-ptyprocess@0.7.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/dim3f35 +## + + +module-whatis {Run a subprocess in a pseudo terminal} + +proc ModulesHelp { } { + puts stderr {Name : py-ptyprocess} + puts stderr {Version: 0.7.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Run a subprocess in a pseudo terminal} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-ptyprocess + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-ptyprocess-0.7.0-dim3f35j3rwxp6mg6pe7udgus2skydt4/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-ptyprocess-0.7.0-dim3f35j3rwxp6mg6pe7udgus2skydt4/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-ptyprocess-0.7.0-dim3f35j3rwxp6mg6pe7udgus2skydt4/lib/python3.11/site-packages} +setenv PY_PTYPROCESS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-ptyprocess-0.7.0-dim3f35j3rwxp6mg6pe7udgus2skydt4} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pure-eval/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pure-eval/.modulerc new file mode 100644 index 00000000..35d65671 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pure-eval/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-pure-eval/0.2.2-tnyy4xq diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pure-eval/0.2.2-tnyy4xq b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pure-eval/0.2.2-tnyy4xq new file mode 100644 index 00000000..026b4f30 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pure-eval/0.2.2-tnyy4xq @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:39.521018 +## +## py-pure-eval@0.2.2%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/tnyy4xq +## + + +module-whatis {Safely evaluate AST nodes without side effects.} + +proc ModulesHelp { } { + puts stderr {Name : py-pure-eval} + puts stderr {Version: 0.2.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Safely evaluate AST nodes without side effects.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-pure-eval + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pure-eval-0.2.2-tnyy4xq42glgx5an37rw4y5yjr5xuiki/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pure-eval-0.2.2-tnyy4xq42glgx5an37rw4y5yjr5xuiki/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pure-eval-0.2.2-tnyy4xq42glgx5an37rw4y5yjr5xuiki/lib/python3.11/site-packages} +setenv PY_PURE_EVAL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pure-eval-0.2.2-tnyy4xq42glgx5an37rw4y5yjr5xuiki} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-py2bit/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-py2bit/.modulerc new file mode 100644 index 00000000..990443e1 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-py2bit/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-py2bit/0.2.1-j4ouaee diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-py2bit/0.2.1-j4ouaee b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-py2bit/0.2.1-j4ouaee new file mode 100644 index 00000000..4f4cd3dc --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-py2bit/0.2.1-j4ouaee @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:39.629363 +## +## py-py2bit@0.2.1%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/j4ouaee +## + + +module-whatis {A package for accessing 2bit files using lib2bit.} + +proc ModulesHelp { } { + puts stderr {Name : py-py2bit} + puts stderr {Version: 0.2.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A package for accessing 2bit files using lib2bit.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-py2bit + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-py2bit-0.2.1-j4ouaeedii2ajgl62ezipuur7xapvuyh/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-py2bit-0.2.1-j4ouaeedii2ajgl62ezipuur7xapvuyh/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-py2bit-0.2.1-j4ouaeedii2ajgl62ezipuur7xapvuyh/lib/python3.11/site-packages} +setenv PY_PY2BIT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-py2bit-0.2.1-j4ouaeedii2ajgl62ezipuur7xapvuyh} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pyaml-env/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pyaml-env/.modulerc new file mode 100644 index 00000000..5da70197 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pyaml-env/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-pyaml-env/1.2.1-angiqop diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pyaml-env/1.2.1-angiqop b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pyaml-env/1.2.1-angiqop new file mode 100644 index 00000000..01df2bdc --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pyaml-env/1.2.1-angiqop @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:39.753857 +## +## py-pyaml-env@1.2.1%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/angiqop +## + + +module-whatis {Provides yaml file parsing with environment variable resolution} + +proc ModulesHelp { } { + puts stderr {Name : py-pyaml-env} + puts stderr {Version: 1.2.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Provides yaml file parsing with environment variable resolution} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-pyyaml/6.0.2-xo53gxx + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-pyyaml/6.0.2-xo53gxx + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-pyaml-env + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pyaml-env-1.2.1-angiqopuklcsdujgmqkylgq6ajlk6aj5/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pyaml-env-1.2.1-angiqopuklcsdujgmqkylgq6ajlk6aj5/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pyaml-env-1.2.1-angiqopuklcsdujgmqkylgq6ajlk6aj5/lib/python3.11/site-packages} +setenv PY_PYAML_ENV_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pyaml-env-1.2.1-angiqopuklcsdujgmqkylgq6ajlk6aj5} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pyasn1/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pyasn1/.modulerc new file mode 100644 index 00000000..15ce4a17 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pyasn1/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-pyasn1/0.4.8-rwfysre diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pyasn1/0.4.8-rwfysre b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pyasn1/0.4.8-rwfysre new file mode 100644 index 00000000..2da72b70 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pyasn1/0.4.8-rwfysre @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:39.924859 +## +## py-pyasn1@0.4.8%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/rwfysre +## + + +module-whatis {Pure-Python implementation of ASN.1 types and DER/BER/CER codecs (X.208).} + +proc ModulesHelp { } { + puts stderr {Name : py-pyasn1} + puts stderr {Version: 0.4.8} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Pure-Python implementation of ASN.1 types and DER/BER/CER codecs} + puts stderr {(X.208).} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.13.0-xf4zxxe + module load python-venv/1.0-6mlwnfu +} else { + depends-on python/3.13.0-xf4zxxe + depends-on python-venv/1.0-6mlwnfu +} +conflict py-pyasn1 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pyasn1-0.4.8-rwfysreweqp75vdq2adwl37iy4nlu4vg/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pyasn1-0.4.8-rwfysreweqp75vdq2adwl37iy4nlu4vg/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pyasn1-0.4.8-rwfysreweqp75vdq2adwl37iy4nlu4vg/lib/python3.13/site-packages} +setenv PY_PYASN1_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pyasn1-0.4.8-rwfysreweqp75vdq2adwl37iy4nlu4vg} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pybigwig/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pybigwig/.modulerc new file mode 100644 index 00000000..f4f88698 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pybigwig/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-pybigwig/0.3.12-btzmazx diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pybigwig/0.3.12-btzmazx b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pybigwig/0.3.12-btzmazx new file mode 100644 index 00000000..103f43da --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pybigwig/0.3.12-btzmazx @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:40.081516 +## +## py-pybigwig@0.3.12%gcc@13.2.0+numpy build_system=python_pip patches=25a465b arch=linux-ubuntu22.04-x86_64_v3/btzmazx +## + + +module-whatis {A package for accessing bigWig files using libBigWig.} + +proc ModulesHelp { } { + puts stderr {Name : py-pybigwig} + puts stderr {Version: 0.3.12} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A package for accessing bigWig files using libBigWig.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load curl/8.10.1-ayyzogx + module load py-numpy/2.1.2-rif434b + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on curl/8.10.1-ayyzogx + depends-on py-numpy/2.1.2-rif434b + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-pybigwig + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pybigwig-0.3.12-btzmazxxu53pxacenxx3xk4gnaic7ctd/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pybigwig-0.3.12-btzmazxxu53pxacenxx3xk4gnaic7ctd/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pybigwig-0.3.12-btzmazxxu53pxacenxx3xk4gnaic7ctd/lib/python3.11/site-packages} +setenv PY_PYBIGWIG_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pybigwig-0.3.12-btzmazxxu53pxacenxx3xk4gnaic7ctd} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pybind11/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pybind11/.modulerc new file mode 100644 index 00000000..278df828 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pybind11/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-pybind11/2.13.5-wfgxly2 +module-hide --soft --hidden-loaded py-pybind11/2.13.5-wqd4gbl diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pybind11/2.13.5-wfgxly2 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pybind11/2.13.5-wfgxly2 new file mode 100644 index 00000000..2f40daaa --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pybind11/2.13.5-wfgxly2 @@ -0,0 +1,81 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:40.243507 +## +## py-pybind11@2.13.5%gcc@13.2.0+ipo build_system=cmake build_type=Release generator=ninja arch=linux-ubuntu22.04-x86_64_v3/wfgxly2 +## + + +module-whatis {pybind11 -- Seamless operability between C++11 and Python.} + +proc ModulesHelp { } { + puts stderr {Name : py-pybind11} + puts stderr {Version: 2.13.5} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {pybind11 -- Seamless operability between C++11 and Python. pybind11 is a} + puts stderr {lightweight header-only library that exposes C++ types in Python and} + puts stderr {vice versa, mainly to create Python bindings of existing C++ code. Its} + puts stderr {goals and syntax are similar to the excellent Boost.Python library by} + puts stderr {David Abrahams: to minimize boilerplate code in traditional extension} + puts stderr {modules by inferring type information using compile-time introspection.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-pybind11 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pybind11-2.13.5-wfgxly2q2xg7ulmqzmyqdcfhscx4ebug/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pybind11-2.13.5-wfgxly2q2xg7ulmqzmyqdcfhscx4ebug/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pybind11-2.13.5-wfgxly2q2xg7ulmqzmyqdcfhscx4ebug/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pybind11-2.13.5-wfgxly2q2xg7ulmqzmyqdcfhscx4ebug/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pybind11-2.13.5-wfgxly2q2xg7ulmqzmyqdcfhscx4ebug/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pybind11-2.13.5-wfgxly2q2xg7ulmqzmyqdcfhscx4ebug/share/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pybind11-2.13.5-wfgxly2q2xg7ulmqzmyqdcfhscx4ebug/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pybind11-2.13.5-wfgxly2q2xg7ulmqzmyqdcfhscx4ebug/lib/python3.11/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pybind11-2.13.5-wfgxly2q2xg7ulmqzmyqdcfhscx4ebug/bin} +setenv PY_PYBIND11_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pybind11-2.13.5-wfgxly2q2xg7ulmqzmyqdcfhscx4ebug} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pybind11/2.13.5-wqd4gbl b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pybind11/2.13.5-wqd4gbl new file mode 100644 index 00000000..e9f4501c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pybind11/2.13.5-wqd4gbl @@ -0,0 +1,81 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:40.351503 +## +## py-pybind11@2.13.5%gcc@13.2.0+ipo build_system=cmake build_type=Release generator=ninja arch=linux-ubuntu22.04-x86_64_v3/wqd4gbl +## + + +module-whatis {pybind11 -- Seamless operability between C++11 and Python.} + +proc ModulesHelp { } { + puts stderr {Name : py-pybind11} + puts stderr {Version: 2.13.5} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {pybind11 -- Seamless operability between C++11 and Python. pybind11 is a} + puts stderr {lightweight header-only library that exposes C++ types in Python and} + puts stderr {vice versa, mainly to create Python bindings of existing C++ code. Its} + puts stderr {goals and syntax are similar to the excellent Boost.Python library by} + puts stderr {David Abrahams: to minimize boilerplate code in traditional extension} + puts stderr {modules by inferring type information using compile-time introspection.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-pybind11 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pybind11-2.13.5-wqd4gblcl3qpdjn5c2xxbxfwogeouog6/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pybind11-2.13.5-wqd4gblcl3qpdjn5c2xxbxfwogeouog6/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pybind11-2.13.5-wqd4gblcl3qpdjn5c2xxbxfwogeouog6/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pybind11-2.13.5-wqd4gblcl3qpdjn5c2xxbxfwogeouog6/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pybind11-2.13.5-wqd4gblcl3qpdjn5c2xxbxfwogeouog6/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pybind11-2.13.5-wqd4gblcl3qpdjn5c2xxbxfwogeouog6/share/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pybind11-2.13.5-wqd4gblcl3qpdjn5c2xxbxfwogeouog6/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pybind11-2.13.5-wqd4gblcl3qpdjn5c2xxbxfwogeouog6/lib/python3.11/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pybind11-2.13.5-wqd4gblcl3qpdjn5c2xxbxfwogeouog6/bin} +setenv PY_PYBIND11_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pybind11-2.13.5-wqd4gblcl3qpdjn5c2xxbxfwogeouog6} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pycparser/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pycparser/.modulerc new file mode 100644 index 00000000..460c218f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pycparser/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-pycparser/2.21-rgyvvgv diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pycparser/2.21-rgyvvgv b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pycparser/2.21-rgyvvgv new file mode 100644 index 00000000..f95e9e58 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pycparser/2.21-rgyvvgv @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:40.472018 +## +## py-pycparser@2.21%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/rgyvvgv +## + + +module-whatis {A complete parser of the C language, written in pure python.} + +proc ModulesHelp { } { + puts stderr {Name : py-pycparser} + puts stderr {Version: 2.21} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A complete parser of the C language, written in pure python.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9-itykk2n + module load python-venv/1.0-okrhcwx +} else { + depends-on python/3.11.9-itykk2n + depends-on python-venv/1.0-okrhcwx +} +conflict py-pycparser + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pycparser-2.21-rgyvvgvj67pi3wlwjfovj6xi7euvvcmp/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pycparser-2.21-rgyvvgvj67pi3wlwjfovj6xi7euvvcmp/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pycparser-2.21-rgyvvgvj67pi3wlwjfovj6xi7euvvcmp/lib/python3.11/site-packages} +setenv PY_PYCPARSER_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pycparser-2.21-rgyvvgvj67pi3wlwjfovj6xi7euvvcmp} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pydantic-core/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pydantic-core/.modulerc new file mode 100644 index 00000000..6cd03306 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pydantic-core/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-pydantic-core/2.18.4-agbj7kg diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pydantic-core/2.18.4-agbj7kg b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pydantic-core/2.18.4-agbj7kg new file mode 100644 index 00000000..baa5b454 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pydantic-core/2.18.4-agbj7kg @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:40.881647 +## +## py-pydantic-core@2.18.4%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/agbj7kg +## + + +module-whatis {Core functionality for Pydantic validation and serialization} + +proc ModulesHelp { } { + puts stderr {Name : py-pydantic-core} + puts stderr {Version: 2.18.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Core functionality for Pydantic validation and serialization} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-pydantic-core + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pydantic-core-2.18.4-agbj7kgfpjy5sv2rdcvsdktcgozssyx6/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pydantic-core-2.18.4-agbj7kgfpjy5sv2rdcvsdktcgozssyx6/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pydantic-core-2.18.4-agbj7kgfpjy5sv2rdcvsdktcgozssyx6/lib/python3.11/site-packages} +setenv PY_PYDANTIC_CORE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pydantic-core-2.18.4-agbj7kgfpjy5sv2rdcvsdktcgozssyx6} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pydantic/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pydantic/.modulerc new file mode 100644 index 00000000..f7dae938 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pydantic/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-pydantic/2.7.4-srj25r3 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pydantic/2.7.4-srj25r3 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pydantic/2.7.4-srj25r3 new file mode 100644 index 00000000..d6a4bf8b --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pydantic/2.7.4-srj25r3 @@ -0,0 +1,76 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:40.600388 +## +## py-pydantic@2.7.4%gcc@13.2.0~dotenv build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/srj25r3 +## + + +module-whatis {Data validation and settings management using Python type hinting.} + +proc ModulesHelp { } { + puts stderr {Name : py-pydantic} + puts stderr {Version: 2.7.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Data validation and settings management using Python type hinting.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-annotated-types/0.7.0-osnujng + module load py-pydantic-core/2.18.4-agbj7kg + module load py-typing-extensions/4.12.2-h4iey52 + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-annotated-types/0.7.0-osnujng + depends-on py-pydantic-core/2.18.4-agbj7kg + depends-on py-typing-extensions/4.12.2-h4iey52 + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-pydantic + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pydantic-2.7.4-srj25r3wmcmldtgm5ghtob3b72tstnab/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pydantic-2.7.4-srj25r3wmcmldtgm5ghtob3b72tstnab/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pydantic-2.7.4-srj25r3wmcmldtgm5ghtob3b72tstnab/lib/python3.11/site-packages} +setenv PY_PYDANTIC_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pydantic-2.7.4-srj25r3wmcmldtgm5ghtob3b72tstnab} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pyfaidx/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pyfaidx/.modulerc new file mode 100644 index 00000000..d3010ea8 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pyfaidx/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-pyfaidx/0.8.1.2-zciedjl diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pyfaidx/0.8.1.2-zciedjl b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pyfaidx/0.8.1.2-zciedjl new file mode 100644 index 00000000..ebe4aae9 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pyfaidx/0.8.1.2-zciedjl @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:41.014290 +## +## py-pyfaidx@0.8.1.2%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/zciedjl +## + + +module-whatis {pyfaidx: efficient pythonic random access to fasta subsequences} + +proc ModulesHelp { } { + puts stderr {Name : py-pyfaidx} + puts stderr {Version: 0.8.1.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {pyfaidx: efficient pythonic random access to fasta subsequences} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-packaging/24.1-a36mhum + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-packaging/24.1-a36mhum + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-pyfaidx + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pyfaidx-0.8.1.2-zciedjlttshqxe6qncdguqmrtwhjqomu/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pyfaidx-0.8.1.2-zciedjlttshqxe6qncdguqmrtwhjqomu/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pyfaidx-0.8.1.2-zciedjlttshqxe6qncdguqmrtwhjqomu/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pyfaidx-0.8.1.2-zciedjlttshqxe6qncdguqmrtwhjqomu/lib/python3.11/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pyfaidx-0.8.1.2-zciedjlttshqxe6qncdguqmrtwhjqomu/bin} +setenv PY_PYFAIDX_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pyfaidx-0.8.1.2-zciedjlttshqxe6qncdguqmrtwhjqomu} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pygments/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pygments/.modulerc new file mode 100644 index 00000000..b5402805 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pygments/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-pygments/2.18.0-xfh2ndk diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pygments/2.18.0-xfh2ndk b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pygments/2.18.0-xfh2ndk new file mode 100644 index 00000000..5bdb9c2a --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pygments/2.18.0-xfh2ndk @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:41.171711 +## +## py-pygments@2.18.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/xfh2ndk +## + + +module-whatis {Pygments is a syntax highlighting package written in Python.} + +proc ModulesHelp { } { + puts stderr {Name : py-pygments} + puts stderr {Version: 2.18.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Pygments is a syntax highlighting package written in Python.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-pygments + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pygments-2.18.0-xfh2ndkj7ujtpxneoj6q5dki6qgzweoh/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pygments-2.18.0-xfh2ndkj7ujtpxneoj6q5dki6qgzweoh/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pygments-2.18.0-xfh2ndkj7ujtpxneoj6q5dki6qgzweoh/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pygments-2.18.0-xfh2ndkj7ujtpxneoj6q5dki6qgzweoh/lib/python3.11/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pygments-2.18.0-xfh2ndkj7ujtpxneoj6q5dki6qgzweoh/bin} +setenv PY_PYGMENTS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pygments-2.18.0-xfh2ndkj7ujtpxneoj6q5dki6qgzweoh} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pyparsing/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pyparsing/.modulerc new file mode 100644 index 00000000..e166c1d9 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pyparsing/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-pyparsing/3.1.2-ambuin2 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pyparsing/3.1.2-ambuin2 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pyparsing/3.1.2-ambuin2 new file mode 100644 index 00000000..b3933ea3 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pyparsing/3.1.2-ambuin2 @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:41.274580 +## +## py-pyparsing@3.1.2%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/ambuin2 +## + + +module-whatis {A Python Parsing Module.} + +proc ModulesHelp { } { + puts stderr {Name : py-pyparsing} + puts stderr {Version: 3.1.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A Python Parsing Module.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-pyparsing + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pyparsing-3.1.2-ambuin2o6muwccz5aw43vh7mq4wybdzy/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pyparsing-3.1.2-ambuin2o6muwccz5aw43vh7mq4wybdzy/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pyparsing-3.1.2-ambuin2o6muwccz5aw43vh7mq4wybdzy/lib/python3.11/site-packages} +setenv PY_PYPARSING_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pyparsing-3.1.2-ambuin2o6muwccz5aw43vh7mq4wybdzy} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pyproject-metadata/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pyproject-metadata/.modulerc new file mode 100644 index 00000000..e20bce84 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pyproject-metadata/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-pyproject-metadata/0.7.1-6qrft4z diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pyproject-metadata/0.7.1-6qrft4z b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pyproject-metadata/0.7.1-6qrft4z new file mode 100644 index 00000000..41c80f18 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pyproject-metadata/0.7.1-6qrft4z @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:41.364071 +## +## py-pyproject-metadata@0.7.1%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/6qrft4z +## + + +module-whatis {PEP 621 metadata parsing.} + +proc ModulesHelp { } { + puts stderr {Name : py-pyproject-metadata} + puts stderr {Version: 0.7.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {PEP 621 metadata parsing.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-packaging/24.1-wqlsuzx + module load python/3.8.19-dxx3zxu + module load python-venv/1.0-l4mqvrb +} else { + depends-on py-packaging/24.1-wqlsuzx + depends-on python/3.8.19-dxx3zxu + depends-on python-venv/1.0-l4mqvrb +} +conflict py-pyproject-metadata + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pyproject-metadata-0.7.1-6qrft4z5qwuclo22o7a6r5gajzohoid4/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pyproject-metadata-0.7.1-6qrft4z5qwuclo22o7a6r5gajzohoid4/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pyproject-metadata-0.7.1-6qrft4z5qwuclo22o7a6r5gajzohoid4/lib/python3.8/site-packages} +setenv PY_PYPROJECT_METADATA_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pyproject-metadata-0.7.1-6qrft4z5qwuclo22o7a6r5gajzohoid4} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pysam/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pysam/.modulerc new file mode 100644 index 00000000..de4ac752 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pysam/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-pysam/0.19.1-qyscevj diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pysam/0.19.1-qyscevj b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pysam/0.19.1-qyscevj new file mode 100644 index 00000000..d97345ee --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pysam/0.19.1-qyscevj @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:41.539904 +## +## py-pysam@0.19.1%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/qyscevj +## + + +module-whatis {A python module for reading, manipulating and writing genomic data sets.} + +proc ModulesHelp { } { + puts stderr {Name : py-pysam} + puts stderr {Version: 0.19.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A python module for reading, manipulating and writing genomic data sets.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-pysam + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pysam-0.19.1-qyscevjd5r4i7n4gwlgzlqhcbt3toez2/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pysam-0.19.1-qyscevjd5r4i7n4gwlgzlqhcbt3toez2/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pysam-0.19.1-qyscevjd5r4i7n4gwlgzlqhcbt3toez2/lib/python3.11/site-packages} +setenv PY_PYSAM_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pysam-0.19.1-qyscevjd5r4i7n4gwlgzlqhcbt3toez2} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-python-dateutil/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-python-dateutil/.modulerc new file mode 100644 index 00000000..d345609f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-python-dateutil/.modulerc @@ -0,0 +1,5 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-python-dateutil/2.8.2-kisczcp +module-hide --soft --hidden-loaded py-python-dateutil/2.8.2-2mjz45z +module-hide --soft --hidden-loaded py-python-dateutil/2.8.2-jg4xjs2 +module-hide --soft --hidden-loaded py-python-dateutil/2.8.2-viseoic diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-python-dateutil/2.8.2-2mjz45z b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-python-dateutil/2.8.2-2mjz45z new file mode 100644 index 00000000..ef5a3475 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-python-dateutil/2.8.2-2mjz45z @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:41.852992 +## +## py-python-dateutil@2.8.2%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/2mjz45z +## + + +module-whatis {Extensions to the standard Python datetime module.} + +proc ModulesHelp { } { + puts stderr {Name : py-python-dateutil} + puts stderr {Version: 2.8.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Extensions to the standard Python datetime module.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-six/1.16.0-ya4wgps + module load python/3.11.9-itykk2n + module load python-venv/1.0-okrhcwx +} else { + depends-on py-six/1.16.0-ya4wgps + depends-on python/3.11.9-itykk2n + depends-on python-venv/1.0-okrhcwx +} +conflict py-python-dateutil + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-python-dateutil-2.8.2-2mjz45zigfmnggmrjqdcgbtlp3wukckr/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-python-dateutil-2.8.2-2mjz45zigfmnggmrjqdcgbtlp3wukckr/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-python-dateutil-2.8.2-2mjz45zigfmnggmrjqdcgbtlp3wukckr/lib/python3.11/site-packages} +setenv PY_PYTHON_DATEUTIL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-python-dateutil-2.8.2-2mjz45zigfmnggmrjqdcgbtlp3wukckr} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-python-dateutil/2.8.2-jg4xjs2 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-python-dateutil/2.8.2-jg4xjs2 new file mode 100644 index 00000000..c0759b27 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-python-dateutil/2.8.2-jg4xjs2 @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:42.018247 +## +## py-python-dateutil@2.8.2%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/jg4xjs2 +## + + +module-whatis {Extensions to the standard Python datetime module.} + +proc ModulesHelp { } { + puts stderr {Name : py-python-dateutil} + puts stderr {Version: 2.8.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Extensions to the standard Python datetime module.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-six/1.16.0-i34z4g2 + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-six/1.16.0-i34z4g2 + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-python-dateutil + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-python-dateutil-2.8.2-jg4xjs2q4qz5cogheyeftz625iuhxcwi/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-python-dateutil-2.8.2-jg4xjs2q4qz5cogheyeftz625iuhxcwi/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-python-dateutil-2.8.2-jg4xjs2q4qz5cogheyeftz625iuhxcwi/lib/python3.11/site-packages} +setenv PY_PYTHON_DATEUTIL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-python-dateutil-2.8.2-jg4xjs2q4qz5cogheyeftz625iuhxcwi} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-python-dateutil/2.8.2-kisczcp b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-python-dateutil/2.8.2-kisczcp new file mode 100644 index 00000000..43b02c6b --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-python-dateutil/2.8.2-kisczcp @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:41.659488 +## +## py-python-dateutil@2.8.2%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/kisczcp +## + + +module-whatis {Extensions to the standard Python datetime module.} + +proc ModulesHelp { } { + puts stderr {Name : py-python-dateutil} + puts stderr {Version: 2.8.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Extensions to the standard Python datetime module.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-six/1.16.0-auuvhoh + module load python/3.13.0-xf4zxxe + module load python-venv/1.0-6mlwnfu +} else { + depends-on py-six/1.16.0-auuvhoh + depends-on python/3.13.0-xf4zxxe + depends-on python-venv/1.0-6mlwnfu +} +conflict py-python-dateutil + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-python-dateutil-2.8.2-kisczcpjcazbztromzmbbhcxmmw5uv4e/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-python-dateutil-2.8.2-kisczcpjcazbztromzmbbhcxmmw5uv4e/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-python-dateutil-2.8.2-kisczcpjcazbztromzmbbhcxmmw5uv4e/lib/python3.13/site-packages} +setenv PY_PYTHON_DATEUTIL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-python-dateutil-2.8.2-kisczcpjcazbztromzmbbhcxmmw5uv4e} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-python-dateutil/2.8.2-viseoic b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-python-dateutil/2.8.2-viseoic new file mode 100644 index 00000000..939ebc6a --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-python-dateutil/2.8.2-viseoic @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:42.165181 +## +## py-python-dateutil@2.8.2%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/viseoic +## + + +module-whatis {Extensions to the standard Python datetime module.} + +proc ModulesHelp { } { + puts stderr {Name : py-python-dateutil} + puts stderr {Version: 2.8.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Extensions to the standard Python datetime module.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-six/1.16.0-2bnsnfx + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-six/1.16.0-2bnsnfx + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-python-dateutil + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-python-dateutil-2.8.2-viseoicmcu7yzibxssygupgthvkh4of6/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-python-dateutil-2.8.2-viseoicmcu7yzibxssygupgthvkh4of6/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-python-dateutil-2.8.2-viseoicmcu7yzibxssygupgthvkh4of6/lib/python3.11/site-packages} +setenv PY_PYTHON_DATEUTIL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-python-dateutil-2.8.2-viseoicmcu7yzibxssygupgthvkh4of6} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pythran/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pythran/.modulerc new file mode 100644 index 00000000..b3db9671 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pythran/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-pythran/0.16.1-wkrz2b5 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pythran/0.16.1-wkrz2b5 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pythran/0.16.1-wkrz2b5 new file mode 100644 index 00000000..d1493e0e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pythran/0.16.1-wkrz2b5 @@ -0,0 +1,82 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:42.343020 +## +## py-pythran@0.16.1%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/wkrz2b5 +## + + +module-whatis {Ahead of Time compiler for numeric kernels.} + +proc ModulesHelp { } { + puts stderr {Name : py-pythran} + puts stderr {Version: 0.16.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Ahead of Time compiler for numeric kernels.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-beniget/0.4.1-ikcn73o + module load py-gast/0.5.4-myvhqk6 + module load py-numpy/1.24.4-bazqgqd + module load py-ply/3.11-2uehqja + module load py-setuptools/63.4.3-63ta5ci + module load python/3.8.19-dxx3zxu + module load python-venv/1.0-l4mqvrb +} else { + depends-on py-beniget/0.4.1-ikcn73o + depends-on py-gast/0.5.4-myvhqk6 + depends-on py-numpy/1.24.4-bazqgqd + depends-on py-ply/3.11-2uehqja + depends-on py-setuptools/63.4.3-63ta5ci + depends-on python/3.8.19-dxx3zxu + depends-on python-venv/1.0-l4mqvrb +} +conflict py-pythran + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pythran-0.16.1-wkrz2b5gxxahllaiorl7aeh4qkhijfr5/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pythran-0.16.1-wkrz2b5gxxahllaiorl7aeh4qkhijfr5/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pythran-0.16.1-wkrz2b5gxxahllaiorl7aeh4qkhijfr5/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pythran-0.16.1-wkrz2b5gxxahllaiorl7aeh4qkhijfr5/lib/python3.8/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pythran-0.16.1-wkrz2b5gxxahllaiorl7aeh4qkhijfr5/bin} +setenv PY_PYTHRAN_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pythran-0.16.1-wkrz2b5gxxahllaiorl7aeh4qkhijfr5} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pytz/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pytz/.modulerc new file mode 100644 index 00000000..a44e39d8 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pytz/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-pytz/2023.3-c555fuu +module-hide --soft --hidden-loaded py-pytz/2023.3-35rkh4p diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pytz/2023.3-35rkh4p b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pytz/2023.3-35rkh4p new file mode 100644 index 00000000..3c0cfe2c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pytz/2023.3-35rkh4p @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:42.855161 +## +## py-pytz@2023.3%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/35rkh4p +## + + +module-whatis {World timezone definitions, modern and historical.} + +proc ModulesHelp { } { + puts stderr {Name : py-pytz} + puts stderr {Version: 2023.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {World timezone definitions, modern and historical.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-pytz + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pytz-2023.3-35rkh4pfsuzyvlmgftxn3cbyrwzdqixp/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pytz-2023.3-35rkh4pfsuzyvlmgftxn3cbyrwzdqixp/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pytz-2023.3-35rkh4pfsuzyvlmgftxn3cbyrwzdqixp/lib/python3.11/site-packages} +setenv PY_PYTZ_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pytz-2023.3-35rkh4pfsuzyvlmgftxn3cbyrwzdqixp} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pytz/2023.3-c555fuu b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pytz/2023.3-c555fuu new file mode 100644 index 00000000..56ef52f9 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pytz/2023.3-c555fuu @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:42.741000 +## +## py-pytz@2023.3%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/c555fuu +## + + +module-whatis {World timezone definitions, modern and historical.} + +proc ModulesHelp { } { + puts stderr {Name : py-pytz} + puts stderr {Version: 2023.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {World timezone definitions, modern and historical.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-pytz + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pytz-2023.3-c555fuu7uj5snrqyh74xz4didwkil7rl/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pytz-2023.3-c555fuu7uj5snrqyh74xz4didwkil7rl/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pytz-2023.3-c555fuu7uj5snrqyh74xz4didwkil7rl/lib/python3.11/site-packages} +setenv PY_PYTZ_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pytz-2023.3-c555fuu7uj5snrqyh74xz4didwkil7rl} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pyyaml/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pyyaml/.modulerc new file mode 100644 index 00000000..56b0bf0f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pyyaml/.modulerc @@ -0,0 +1,4 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-pyyaml/5.4.1-6wupxf2 +module-hide --soft --hidden-loaded py-pyyaml/6.0.2-xo53gxx +module-hide --soft --hidden-loaded py-pyyaml/6.0.2-xqwtg5w diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pyyaml/5.4.1-6wupxf2 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pyyaml/5.4.1-6wupxf2 new file mode 100644 index 00000000..ee39cbd7 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pyyaml/5.4.1-6wupxf2 @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:42.983415 +## +## py-pyyaml@5.4.1%gcc@13.2.0+libyaml build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/6wupxf2 +## + + +module-whatis {PyYAML is a YAML parser and emitter for Python.} + +proc ModulesHelp { } { + puts stderr {Name : py-pyyaml} + puts stderr {Version: 5.4.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {PyYAML is a YAML parser and emitter for Python.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.13.0-xf4zxxe + module load python-venv/1.0-6mlwnfu +} else { + depends-on python/3.13.0-xf4zxxe + depends-on python-venv/1.0-6mlwnfu +} +conflict py-pyyaml + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pyyaml-5.4.1-6wupxf2ngpnkt7pboj2penixknfvkekt/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pyyaml-5.4.1-6wupxf2ngpnkt7pboj2penixknfvkekt/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pyyaml-5.4.1-6wupxf2ngpnkt7pboj2penixknfvkekt/lib/python3.13/site-packages} +setenv PY_PYYAML_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pyyaml-5.4.1-6wupxf2ngpnkt7pboj2penixknfvkekt} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pyyaml/6.0.2-xo53gxx b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pyyaml/6.0.2-xo53gxx new file mode 100644 index 00000000..f5a8255b --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pyyaml/6.0.2-xo53gxx @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:43.120489 +## +## py-pyyaml@6.0.2%gcc@13.2.0+libyaml build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/xo53gxx +## + + +module-whatis {PyYAML is a YAML parser and emitter for Python.} + +proc ModulesHelp { } { + puts stderr {Name : py-pyyaml} + puts stderr {Version: 6.0.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {PyYAML is a YAML parser and emitter for Python.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-pyyaml + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pyyaml-6.0.2-xo53gxxu5p3y3spcofrr7mauexxfrqzg/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pyyaml-6.0.2-xo53gxxu5p3y3spcofrr7mauexxfrqzg/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pyyaml-6.0.2-xo53gxxu5p3y3spcofrr7mauexxfrqzg/lib/python3.11/site-packages} +setenv PY_PYYAML_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pyyaml-6.0.2-xo53gxxu5p3y3spcofrr7mauexxfrqzg} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pyyaml/6.0.2-xqwtg5w b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pyyaml/6.0.2-xqwtg5w new file mode 100644 index 00000000..ab8392fc --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-pyyaml/6.0.2-xqwtg5w @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:43.234652 +## +## py-pyyaml@6.0.2%gcc@13.2.0+libyaml build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/xqwtg5w +## + + +module-whatis {PyYAML is a YAML parser and emitter for Python.} + +proc ModulesHelp { } { + puts stderr {Name : py-pyyaml} + puts stderr {Version: 6.0.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {PyYAML is a YAML parser and emitter for Python.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-pyyaml + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pyyaml-6.0.2-xqwtg5whhqs5jephkajygfpaacq56sny/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pyyaml-6.0.2-xqwtg5whhqs5jephkajygfpaacq56sny/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pyyaml-6.0.2-xqwtg5whhqs5jephkajygfpaacq56sny/lib/python3.11/site-packages} +setenv PY_PYYAML_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-pyyaml-6.0.2-xqwtg5whhqs5jephkajygfpaacq56sny} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-requests/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-requests/.modulerc new file mode 100644 index 00000000..ad35344a --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-requests/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-requests/2.32.3-s2t3ntc +module-hide --soft --hidden-loaded py-requests/2.32.3-2wr6uxx diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-requests/2.32.3-2wr6uxx b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-requests/2.32.3-2wr6uxx new file mode 100644 index 00000000..f3a326a4 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-requests/2.32.3-2wr6uxx @@ -0,0 +1,78 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:43.628364 +## +## py-requests@2.32.3%gcc@13.2.0~socks build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/2wr6uxx +## + + +module-whatis {Python HTTP for Humans.} + +proc ModulesHelp { } { + puts stderr {Name : py-requests} + puts stderr {Version: 2.32.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Python HTTP for Humans.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-certifi/2023.7.22-7kovaf6 + module load py-charset-normalizer/3.3.0-uuqklzi + module load py-idna/3.4-x3xerti + module load py-urllib3/2.1.0-2lr244r + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-certifi/2023.7.22-7kovaf6 + depends-on py-charset-normalizer/3.3.0-uuqklzi + depends-on py-idna/3.4-x3xerti + depends-on py-urllib3/2.1.0-2lr244r + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-requests + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-requests-2.32.3-2wr6uxxu4qzwfl4ov5cjnl62elqse3wi/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-requests-2.32.3-2wr6uxxu4qzwfl4ov5cjnl62elqse3wi/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-requests-2.32.3-2wr6uxxu4qzwfl4ov5cjnl62elqse3wi/lib/python3.11/site-packages} +setenv PY_REQUESTS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-requests-2.32.3-2wr6uxxu4qzwfl4ov5cjnl62elqse3wi} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-requests/2.32.3-s2t3ntc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-requests/2.32.3-s2t3ntc new file mode 100644 index 00000000..d71117ea --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-requests/2.32.3-s2t3ntc @@ -0,0 +1,78 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:43.354545 +## +## py-requests@2.32.3%gcc@13.2.0~socks build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/s2t3ntc +## + + +module-whatis {Python HTTP for Humans.} + +proc ModulesHelp { } { + puts stderr {Name : py-requests} + puts stderr {Version: 2.32.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Python HTTP for Humans.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-certifi/2023.7.22-ttvy2hk + module load py-charset-normalizer/3.3.0-gdaypjv + module load py-idna/3.4-x3xerti + module load py-urllib3/2.1.0-563wyo5 + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-certifi/2023.7.22-ttvy2hk + depends-on py-charset-normalizer/3.3.0-gdaypjv + depends-on py-idna/3.4-x3xerti + depends-on py-urllib3/2.1.0-563wyo5 + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-requests + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-requests-2.32.3-s2t3ntctn4qs4cs2yhf7ill56xxrjrsc/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-requests-2.32.3-s2t3ntctn4qs4cs2yhf7ill56xxrjrsc/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-requests-2.32.3-s2t3ntctn4qs4cs2yhf7ill56xxrjrsc/lib/python3.11/site-packages} +setenv PY_REQUESTS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-requests-2.32.3-s2t3ntctn4qs4cs2yhf7ill56xxrjrsc} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-rich-click/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-rich-click/.modulerc new file mode 100644 index 00000000..1ed702a1 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-rich-click/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-rich-click/1.5.2-i46u4y4 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-rich-click/1.5.2-i46u4y4 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-rich-click/1.5.2-i46u4y4 new file mode 100644 index 00000000..45a4dbaf --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-rich-click/1.5.2-i46u4y4 @@ -0,0 +1,77 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:44.135320 +## +## py-rich-click@1.5.2%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/i46u4y4 +## + + +module-whatis {The intention of rich-click is to provide attractive help output from click, formatted with rich, with minimal customisation required.} + +proc ModulesHelp { } { + puts stderr {Name : py-rich-click} + puts stderr {Version: 1.5.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The intention of rich-click is to provide attractive help output from} + puts stderr {click, formatted with rich, with minimal customisation required.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-click/8.1.7-kjrzl6j + module load py-rich/13.7.1-o74bxaf + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-click/8.1.7-kjrzl6j + depends-on py-rich/13.7.1-o74bxaf + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-rich-click + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-rich-click-1.5.2-i46u4y4xdpjd54qccesq7jsmen3bekv2/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-rich-click-1.5.2-i46u4y4xdpjd54qccesq7jsmen3bekv2/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-rich-click-1.5.2-i46u4y4xdpjd54qccesq7jsmen3bekv2/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-rich-click-1.5.2-i46u4y4xdpjd54qccesq7jsmen3bekv2/lib/python3.11/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-rich-click-1.5.2-i46u4y4xdpjd54qccesq7jsmen3bekv2/bin} +setenv PY_RICH_CLICK_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-rich-click-1.5.2-i46u4y4xdpjd54qccesq7jsmen3bekv2} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-rich/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-rich/.modulerc new file mode 100644 index 00000000..a92c0ae7 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-rich/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-rich/13.7.1-o74bxaf diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-rich/13.7.1-o74bxaf b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-rich/13.7.1-o74bxaf new file mode 100644 index 00000000..d4fd30c7 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-rich/13.7.1-o74bxaf @@ -0,0 +1,75 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:43.900917 +## +## py-rich@13.7.1%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/o74bxaf +## + + +module-whatis {Rich is a Python library for rich text and beautiful formatting in the terminal. } + +proc ModulesHelp { } { + puts stderr {Name : py-rich} + puts stderr {Version: 13.7.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Rich is a Python library for rich text and beautiful formatting in the} + puts stderr {terminal.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-markdown-it-py/3.0.0-4de3mjn + module load py-pygments/2.18.0-xfh2ndk + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-markdown-it-py/3.0.0-4de3mjn + depends-on py-pygments/2.18.0-xfh2ndk + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-rich + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-rich-13.7.1-o74bxafehnstamwgnlglimikhbmyutgq/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-rich-13.7.1-o74bxafehnstamwgnlglimikhbmyutgq/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-rich-13.7.1-o74bxafehnstamwgnlglimikhbmyutgq/lib/python3.11/site-packages} +setenv PY_RICH_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-rich-13.7.1-o74bxafehnstamwgnlglimikhbmyutgq} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-rsa/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-rsa/.modulerc new file mode 100644 index 00000000..325eec08 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-rsa/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-rsa/4.7.2-c6c2ul6 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-rsa/4.7.2-c6c2ul6 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-rsa/4.7.2-c6c2ul6 new file mode 100644 index 00000000..7d7e3f31 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-rsa/4.7.2-c6c2ul6 @@ -0,0 +1,76 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:44.461816 +## +## py-rsa@4.7.2%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/c6c2ul6 +## + + +module-whatis {Pure-Python RSA implementation} + +proc ModulesHelp { } { + puts stderr {Name : py-rsa} + puts stderr {Version: 4.7.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Pure-Python RSA implementation} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-pyasn1/0.4.8-rwfysre + module load py-setuptools/69.2.0-xquxuec + module load python/3.13.0-xf4zxxe + module load python-venv/1.0-6mlwnfu +} else { + depends-on py-pyasn1/0.4.8-rwfysre + depends-on py-setuptools/69.2.0-xquxuec + depends-on python/3.13.0-xf4zxxe + depends-on python-venv/1.0-6mlwnfu +} +conflict py-rsa + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-rsa-4.7.2-c6c2ul6barzqp6udgr3ykvcnyrd2fulh/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-rsa-4.7.2-c6c2ul6barzqp6udgr3ykvcnyrd2fulh/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-rsa-4.7.2-c6c2ul6barzqp6udgr3ykvcnyrd2fulh/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-rsa-4.7.2-c6c2ul6barzqp6udgr3ykvcnyrd2fulh/lib/python3.13/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-rsa-4.7.2-c6c2ul6barzqp6udgr3ykvcnyrd2fulh/bin} +setenv PY_RSA_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-rsa-4.7.2-c6c2ul6barzqp6udgr3ykvcnyrd2fulh} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-ruamel-yaml/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-ruamel-yaml/.modulerc new file mode 100644 index 00000000..9d511bb5 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-ruamel-yaml/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-ruamel-yaml/0.17.16-5gas6rx diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-ruamel-yaml/0.17.16-5gas6rx b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-ruamel-yaml/0.17.16-5gas6rx new file mode 100644 index 00000000..52cd8203 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-ruamel-yaml/0.17.16-5gas6rx @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:44.730608 +## +## py-ruamel-yaml@0.17.16%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/5gas6rx +## + + +module-whatis { a YAML parser/emitter that supports roundtrip preservation of comments, seq/map flow style, and map key order } + +proc ModulesHelp { } { + puts stderr {Name : py-ruamel-yaml} + puts stderr {Version: 0.17.16} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr { a YAML parser/emitter that supports roundtrip preservation of comments,} + puts stderr {seq/map flow style, and map key order} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9-itykk2n + module load python-venv/1.0-okrhcwx +} else { + depends-on python/3.11.9-itykk2n + depends-on python-venv/1.0-okrhcwx +} +conflict py-ruamel-yaml + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-ruamel-yaml-0.17.16-5gas6rxjzv3kfklauypqfvye45zl5oj4/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-ruamel-yaml-0.17.16-5gas6rxjzv3kfklauypqfvye45zl5oj4/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-ruamel-yaml-0.17.16-5gas6rxjzv3kfklauypqfvye45zl5oj4/lib/python3.11/site-packages} +setenv PY_RUAMEL_YAML_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-ruamel-yaml-0.17.16-5gas6rxjzv3kfklauypqfvye45zl5oj4} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-s3transfer/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-s3transfer/.modulerc new file mode 100644 index 00000000..db520720 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-s3transfer/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-s3transfer/0.6.2-xozmlox diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-s3transfer/0.6.2-xozmlox b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-s3transfer/0.6.2-xozmlox new file mode 100644 index 00000000..d9f7567a --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-s3transfer/0.6.2-xozmlox @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:44.831947 +## +## py-s3transfer@0.6.2%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/xozmlox +## + + +module-whatis {S3transfer is a Python library for managing Amazon S3 transfers.} + +proc ModulesHelp { } { + puts stderr {Name : py-s3transfer} + puts stderr {Version: 0.6.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {S3transfer is a Python library for managing Amazon S3 transfers.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-botocore/1.31.41-fk2gdrm + module load python/3.13.0-xf4zxxe + module load python-venv/1.0-6mlwnfu +} else { + depends-on py-botocore/1.31.41-fk2gdrm + depends-on python/3.13.0-xf4zxxe + depends-on python-venv/1.0-6mlwnfu +} +conflict py-s3transfer + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-s3transfer-0.6.2-xozmloxdem5dok256fiotbkbxv5blz3o/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-s3transfer-0.6.2-xozmloxdem5dok256fiotbkbxv5blz3o/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-s3transfer-0.6.2-xozmloxdem5dok256fiotbkbxv5blz3o/lib/python3.13/site-packages} +setenv PY_S3TRANSFER_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-s3transfer-0.6.2-xozmloxdem5dok256fiotbkbxv5blz3o} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-scipy/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-scipy/.modulerc new file mode 100644 index 00000000..b42fdc96 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-scipy/.modulerc @@ -0,0 +1,4 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-scipy/1.14.1-3q4c4eg +module-hide --soft --hidden-loaded py-scipy/1.14.1-3aemdsc +module-hide --soft --hidden-loaded py-scipy/1.14.1-u5pel67 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-scipy/1.14.1-3aemdsc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-scipy/1.14.1-3aemdsc new file mode 100644 index 00000000..66d867c3 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-scipy/1.14.1-3aemdsc @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:45.484541 +## +## py-scipy@1.14.1%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/3aemdsc +## + + +module-whatis {Fundamental algorithms for scientific computing in Python.} + +proc ModulesHelp { } { + puts stderr {Name : py-scipy} + puts stderr {Version: 1.14.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Fundamental algorithms for scientific computing in Python.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-numpy/1.25.2-2wshlgs + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-numpy/1.25.2-2wshlgs + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-scipy + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-scipy-1.14.1-3aemdsccyjh7aiu4pbx4ludfjurmytlj/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-scipy-1.14.1-3aemdsccyjh7aiu4pbx4ludfjurmytlj/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-scipy-1.14.1-3aemdsccyjh7aiu4pbx4ludfjurmytlj/lib/python3.11/site-packages} +setenv PY_SCIPY_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-scipy-1.14.1-3aemdsccyjh7aiu4pbx4ludfjurmytlj} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-scipy/1.14.1-3q4c4eg b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-scipy/1.14.1-3q4c4eg new file mode 100644 index 00000000..c3dca285 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-scipy/1.14.1-3q4c4eg @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:45.234093 +## +## py-scipy@1.14.1%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/3q4c4eg +## + + +module-whatis {Fundamental algorithms for scientific computing in Python.} + +proc ModulesHelp { } { + puts stderr {Name : py-scipy} + puts stderr {Version: 1.14.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Fundamental algorithms for scientific computing in Python.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-numpy/1.25.2-4avjy5d + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-numpy/1.25.2-4avjy5d + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-scipy + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-scipy-1.14.1-3q4c4egb3aulype64kli356s5cotwjok/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-scipy-1.14.1-3q4c4egb3aulype64kli356s5cotwjok/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-scipy-1.14.1-3q4c4egb3aulype64kli356s5cotwjok/lib/python3.11/site-packages} +setenv PY_SCIPY_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-scipy-1.14.1-3q4c4egb3aulype64kli356s5cotwjok} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-scipy/1.14.1-u5pel67 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-scipy/1.14.1-u5pel67 new file mode 100644 index 00000000..ec20333b --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-scipy/1.14.1-u5pel67 @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:45.720061 +## +## py-scipy@1.14.1%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/u5pel67 +## + + +module-whatis {Fundamental algorithms for scientific computing in Python.} + +proc ModulesHelp { } { + puts stderr {Name : py-scipy} + puts stderr {Version: 1.14.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Fundamental algorithms for scientific computing in Python.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-numpy/2.1.2-rif434b + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-numpy/2.1.2-rif434b + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-scipy + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-scipy-1.14.1-u5pel67lih7bvlwsadadm7s2s6k6c32w/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-scipy-1.14.1-u5pel67lih7bvlwsadadm7s2s6k6c32w/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-scipy-1.14.1-u5pel67lih7bvlwsadadm7s2s6k6c32w/lib/python3.11/site-packages} +setenv PY_SCIPY_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-scipy-1.14.1-u5pel67lih7bvlwsadadm7s2s6k6c32w} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-semantic-version/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-semantic-version/.modulerc new file mode 100644 index 00000000..ae048059 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-semantic-version/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-semantic-version/2.10.0-jpdknyo diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-semantic-version/2.10.0-jpdknyo b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-semantic-version/2.10.0-jpdknyo new file mode 100644 index 00000000..73d72641 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-semantic-version/2.10.0-jpdknyo @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:45.949644 +## +## py-semantic-version@2.10.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/jpdknyo +## + + +module-whatis {This small python library provides a few tools to handle SemVer in Python. It follows strictly the 2.0.0 version of the SemVer scheme.} + +proc ModulesHelp { } { + puts stderr {Name : py-semantic-version} + puts stderr {Version: 2.10.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {This small python library provides a few tools to handle SemVer in} + puts stderr {Python. It follows strictly the 2.0.0 version of the SemVer scheme.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-semantic-version + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-semantic-version-2.10.0-jpdknyoacszb3rzo2zhlsokbrwvjeyap/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-semantic-version-2.10.0-jpdknyoacszb3rzo2zhlsokbrwvjeyap/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-semantic-version-2.10.0-jpdknyoacszb3rzo2zhlsokbrwvjeyap/lib/python3.11/site-packages} +setenv PY_SEMANTIC_VERSION_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-semantic-version-2.10.0-jpdknyoacszb3rzo2zhlsokbrwvjeyap} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-setuptools-rust/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-setuptools-rust/.modulerc new file mode 100644 index 00000000..33627577 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-setuptools-rust/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-setuptools-rust/1.9.0-27ktaro diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-setuptools-rust/1.9.0-27ktaro b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-setuptools-rust/1.9.0-27ktaro new file mode 100644 index 00000000..8d3e2363 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-setuptools-rust/1.9.0-27ktaro @@ -0,0 +1,78 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:46.649147 +## +## py-setuptools-rust@1.9.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/27ktaro +## + + +module-whatis {Setuptools rust extension plugin.} + +proc ModulesHelp { } { + puts stderr {Name : py-setuptools-rust} + puts stderr {Version: 1.9.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Setuptools rust extension plugin.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-semantic-version/2.10.0-jpdknyo + module load py-setuptools/69.2.0-rhq2cbb + module load py-setuptools-scm/8.0.4-bej4vfd + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx + module load rust/1.81.0 +} else { + depends-on py-semantic-version/2.10.0-jpdknyo + depends-on py-setuptools/69.2.0-rhq2cbb + depends-on py-setuptools-scm/8.0.4-bej4vfd + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx + depends-on rust/1.81.0 +} +conflict py-setuptools-rust + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-setuptools-rust-1.9.0-27ktaro2nzcfz5enhytssfxqyssciit5/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-setuptools-rust-1.9.0-27ktaro2nzcfz5enhytssfxqyssciit5/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-setuptools-rust-1.9.0-27ktaro2nzcfz5enhytssfxqyssciit5/lib/python3.11/site-packages} +setenv PY_SETUPTOOLS_RUST_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-setuptools-rust-1.9.0-27ktaro2nzcfz5enhytssfxqyssciit5} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-setuptools-scm/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-setuptools-scm/.modulerc new file mode 100644 index 00000000..ab2cc083 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-setuptools-scm/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-setuptools-scm/8.0.4-bej4vfd diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-setuptools-scm/8.0.4-bej4vfd b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-setuptools-scm/8.0.4-bej4vfd new file mode 100644 index 00000000..44c9661c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-setuptools-scm/8.0.4-bej4vfd @@ -0,0 +1,80 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:47.051778 +## +## py-setuptools-scm@8.0.4%gcc@13.2.0+toml build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/bej4vfd +## + + +module-whatis {The blessed package to manage your versions by scm tags.} + +proc ModulesHelp { } { + puts stderr {Name : py-setuptools-scm} + puts stderr {Version: 8.0.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The blessed package to manage your versions by scm tags.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load git/2.47.0-o3w7rir + module load py-packaging/24.1-a36mhum + module load py-setuptools/69.2.0-rhq2cbb + module load py-tomli/2.0.1-qvzohea + module load py-typing-extensions/4.12.2-h4iey52 + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on git/2.47.0-o3w7rir + depends-on py-packaging/24.1-a36mhum + depends-on py-setuptools/69.2.0-rhq2cbb + depends-on py-tomli/2.0.1-qvzohea + depends-on py-typing-extensions/4.12.2-h4iey52 + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-setuptools-scm + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-setuptools-scm-8.0.4-bej4vfdxag2pj4vtqqgd44gkorjsmshb/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-setuptools-scm-8.0.4-bej4vfdxag2pj4vtqqgd44gkorjsmshb/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-setuptools-scm-8.0.4-bej4vfdxag2pj4vtqqgd44gkorjsmshb/lib/python3.11/site-packages} +setenv PY_SETUPTOOLS_SCM_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-setuptools-scm-8.0.4-bej4vfdxag2pj4vtqqgd44gkorjsmshb} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-setuptools/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-setuptools/.modulerc new file mode 100644 index 00000000..becee239 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-setuptools/.modulerc @@ -0,0 +1,5 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-setuptools/63.4.3-dk3apgd +module-hide --soft --hidden-loaded py-setuptools/69.2.0-xquxuec +module-hide --soft --hidden-loaded py-setuptools/69.2.0-rhq2cbb +module-hide --soft --hidden-loaded py-setuptools/63.4.3-63ta5ci diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-setuptools/63.4.3-63ta5ci b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-setuptools/63.4.3-63ta5ci new file mode 100644 index 00000000..49c0a4f5 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-setuptools/63.4.3-63ta5ci @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:46.097666 +## +## py-setuptools@63.4.3%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/63ta5ci +## + + +module-whatis {A Python utility that aids in the process of downloading, building, upgrading, installing, and uninstalling Python packages.} + +proc ModulesHelp { } { + puts stderr {Name : py-setuptools} + puts stderr {Version: 63.4.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A Python utility that aids in the process of downloading, building,} + puts stderr {upgrading, installing, and uninstalling Python packages.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.8.19-dxx3zxu + module load python-venv/1.0-l4mqvrb +} else { + depends-on python/3.8.19-dxx3zxu + depends-on python-venv/1.0-l4mqvrb +} +conflict py-setuptools + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-setuptools-63.4.3-63ta5cixzxfd5e475n3yriw3phhkdbay/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-setuptools-63.4.3-63ta5cixzxfd5e475n3yriw3phhkdbay/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-setuptools-63.4.3-63ta5cixzxfd5e475n3yriw3phhkdbay/lib/python3.8/site-packages} +setenv PY_SETUPTOOLS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-setuptools-63.4.3-63ta5cixzxfd5e475n3yriw3phhkdbay} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-setuptools/63.4.3-dk3apgd b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-setuptools/63.4.3-dk3apgd new file mode 100644 index 00000000..8f9263bb --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-setuptools/63.4.3-dk3apgd @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:46.229523 +## +## py-setuptools@63.4.3%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/dk3apgd +## + + +module-whatis {A Python utility that aids in the process of downloading, building, upgrading, installing, and uninstalling Python packages.} + +proc ModulesHelp { } { + puts stderr {Name : py-setuptools} + puts stderr {Version: 63.4.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A Python utility that aids in the process of downloading, building,} + puts stderr {upgrading, installing, and uninstalling Python packages.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-setuptools + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-setuptools-63.4.3-dk3apgduoqvrbns234dg5afzzctnlfte/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-setuptools-63.4.3-dk3apgduoqvrbns234dg5afzzctnlfte/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-setuptools-63.4.3-dk3apgduoqvrbns234dg5afzzctnlfte/lib/python3.11/site-packages} +setenv PY_SETUPTOOLS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-setuptools-63.4.3-dk3apgduoqvrbns234dg5afzzctnlfte} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-setuptools/69.2.0-rhq2cbb b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-setuptools/69.2.0-rhq2cbb new file mode 100644 index 00000000..d5f96412 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-setuptools/69.2.0-rhq2cbb @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:46.516207 +## +## py-setuptools@69.2.0%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/rhq2cbb +## + + +module-whatis {A Python utility that aids in the process of downloading, building, upgrading, installing, and uninstalling Python packages.} + +proc ModulesHelp { } { + puts stderr {Name : py-setuptools} + puts stderr {Version: 69.2.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A Python utility that aids in the process of downloading, building,} + puts stderr {upgrading, installing, and uninstalling Python packages.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-setuptools + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-setuptools-69.2.0-rhq2cbbaqhpvlnpw5k7xw3tyyiyt54sk/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-setuptools-69.2.0-rhq2cbbaqhpvlnpw5k7xw3tyyiyt54sk/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-setuptools-69.2.0-rhq2cbbaqhpvlnpw5k7xw3tyyiyt54sk/lib/python3.11/site-packages} +setenv PY_SETUPTOOLS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-setuptools-69.2.0-rhq2cbbaqhpvlnpw5k7xw3tyyiyt54sk} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-setuptools/69.2.0-xquxuec b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-setuptools/69.2.0-xquxuec new file mode 100644 index 00000000..4e20bb7f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-setuptools/69.2.0-xquxuec @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:46.364946 +## +## py-setuptools@69.2.0%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/xquxuec +## + + +module-whatis {A Python utility that aids in the process of downloading, building, upgrading, installing, and uninstalling Python packages.} + +proc ModulesHelp { } { + puts stderr {Name : py-setuptools} + puts stderr {Version: 69.2.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A Python utility that aids in the process of downloading, building,} + puts stderr {upgrading, installing, and uninstalling Python packages.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.13.0-xf4zxxe + module load python-venv/1.0-6mlwnfu +} else { + depends-on python/3.13.0-xf4zxxe + depends-on python-venv/1.0-6mlwnfu +} +conflict py-setuptools + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-setuptools-69.2.0-xquxuecmlbql27smekwmrtrllimgfyv6/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-setuptools-69.2.0-xquxuecmlbql27smekwmrtrllimgfyv6/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-setuptools-69.2.0-xquxuecmlbql27smekwmrtrllimgfyv6/lib/python3.13/site-packages} +setenv PY_SETUPTOOLS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-setuptools-69.2.0-xquxuecmlbql27smekwmrtrllimgfyv6} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-simplejson/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-simplejson/.modulerc new file mode 100644 index 00000000..cd746a6f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-simplejson/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-simplejson/3.19.1-umvh6lv diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-simplejson/3.19.1-umvh6lv b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-simplejson/3.19.1-umvh6lv new file mode 100644 index 00000000..253cc962 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-simplejson/3.19.1-umvh6lv @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:47.347704 +## +## py-simplejson@3.19.1%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/umvh6lv +## + + +module-whatis {Simplejson is a simple, fast, extensible JSON encoder/decoder for Python} + +proc ModulesHelp { } { + puts stderr {Name : py-simplejson} + puts stderr {Version: 3.19.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Simplejson is a simple, fast, extensible JSON encoder/decoder for Python} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-simplejson + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-simplejson-3.19.1-umvh6lvq46himcp554bqlkgj3juumsbk/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-simplejson-3.19.1-umvh6lvq46himcp554bqlkgj3juumsbk/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-simplejson-3.19.1-umvh6lvq46himcp554bqlkgj3juumsbk/lib/python3.11/site-packages} +setenv PY_SIMPLEJSON_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-simplejson-3.19.1-umvh6lvq46himcp554bqlkgj3juumsbk} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-six/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-six/.modulerc new file mode 100644 index 00000000..c0b362b3 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-six/.modulerc @@ -0,0 +1,5 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-six/1.16.0-ya4wgps +module-hide --soft --hidden-loaded py-six/1.16.0-2bnsnfx +module-hide --soft --hidden-loaded py-six/1.16.0-auuvhoh +module-hide --soft --hidden-loaded py-six/1.16.0-i34z4g2 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-six/1.16.0-2bnsnfx b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-six/1.16.0-2bnsnfx new file mode 100644 index 00000000..4846128e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-six/1.16.0-2bnsnfx @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:47.590299 +## +## py-six@1.16.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/2bnsnfx +## + + +module-whatis {Python 2 and 3 compatibility utilities.} + +proc ModulesHelp { } { + puts stderr {Name : py-six} + puts stderr {Version: 1.16.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Python 2 and 3 compatibility utilities.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-six + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-six-1.16.0-2bnsnfxzin64wkkxiqvl7lrtb6amqixo/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-six-1.16.0-2bnsnfxzin64wkkxiqvl7lrtb6amqixo/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-six-1.16.0-2bnsnfxzin64wkkxiqvl7lrtb6amqixo/lib/python3.11/site-packages} +setenv PY_SIX_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-six-1.16.0-2bnsnfxzin64wkkxiqvl7lrtb6amqixo} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-six/1.16.0-auuvhoh b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-six/1.16.0-auuvhoh new file mode 100644 index 00000000..f4d1ece7 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-six/1.16.0-auuvhoh @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:47.717815 +## +## py-six@1.16.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/auuvhoh +## + + +module-whatis {Python 2 and 3 compatibility utilities.} + +proc ModulesHelp { } { + puts stderr {Name : py-six} + puts stderr {Version: 1.16.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Python 2 and 3 compatibility utilities.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.13.0-xf4zxxe + module load python-venv/1.0-6mlwnfu +} else { + depends-on python/3.13.0-xf4zxxe + depends-on python-venv/1.0-6mlwnfu +} +conflict py-six + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-six-1.16.0-auuvhoheawgzo7xtkmybwhgypitpcji6/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-six-1.16.0-auuvhoheawgzo7xtkmybwhgypitpcji6/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-six-1.16.0-auuvhoheawgzo7xtkmybwhgypitpcji6/lib/python3.13/site-packages} +setenv PY_SIX_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-six-1.16.0-auuvhoheawgzo7xtkmybwhgypitpcji6} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-six/1.16.0-i34z4g2 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-six/1.16.0-i34z4g2 new file mode 100644 index 00000000..0a5df61c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-six/1.16.0-i34z4g2 @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:47.866613 +## +## py-six@1.16.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/i34z4g2 +## + + +module-whatis {Python 2 and 3 compatibility utilities.} + +proc ModulesHelp { } { + puts stderr {Name : py-six} + puts stderr {Version: 1.16.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Python 2 and 3 compatibility utilities.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-six + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-six-1.16.0-i34z4g2dvnf4bn3db5wj76qh5tvpsoqk/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-six-1.16.0-i34z4g2dvnf4bn3db5wj76qh5tvpsoqk/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-six-1.16.0-i34z4g2dvnf4bn3db5wj76qh5tvpsoqk/lib/python3.11/site-packages} +setenv PY_SIX_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-six-1.16.0-i34z4g2dvnf4bn3db5wj76qh5tvpsoqk} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-six/1.16.0-ya4wgps b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-six/1.16.0-ya4wgps new file mode 100644 index 00000000..b812e64f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-six/1.16.0-ya4wgps @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:47.461686 +## +## py-six@1.16.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/ya4wgps +## + + +module-whatis {Python 2 and 3 compatibility utilities.} + +proc ModulesHelp { } { + puts stderr {Name : py-six} + puts stderr {Version: 1.16.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Python 2 and 3 compatibility utilities.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9-itykk2n + module load python-venv/1.0-okrhcwx +} else { + depends-on python/3.11.9-itykk2n + depends-on python-venv/1.0-okrhcwx +} +conflict py-six + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-six-1.16.0-ya4wgpsmeycpwfe763ekkwsdzhp7lkhq/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-six-1.16.0-ya4wgpsmeycpwfe763ekkwsdzhp7lkhq/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-six-1.16.0-ya4wgpsmeycpwfe763ekkwsdzhp7lkhq/lib/python3.11/site-packages} +setenv PY_SIX_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-six-1.16.0-ya4wgpsmeycpwfe763ekkwsdzhp7lkhq} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-snowballstemmer/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-snowballstemmer/.modulerc new file mode 100644 index 00000000..0d40050e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-snowballstemmer/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-snowballstemmer/2.2.0-cof6kne diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-snowballstemmer/2.2.0-cof6kne b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-snowballstemmer/2.2.0-cof6kne new file mode 100644 index 00000000..5b6637d8 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-snowballstemmer/2.2.0-cof6kne @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:47.973221 +## +## py-snowballstemmer@2.2.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/cof6kne +## + + +module-whatis {This package provides 29 stemmers for 28 languages generated from Snowball algorithms.} + +proc ModulesHelp { } { + puts stderr {Name : py-snowballstemmer} + puts stderr {Version: 2.2.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {This package provides 29 stemmers for 28 languages generated from} + puts stderr {Snowball algorithms.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-snowballstemmer + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-snowballstemmer-2.2.0-cof6knea4lk5eduqyhd5wofghp6ozznl/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-snowballstemmer-2.2.0-cof6knea4lk5eduqyhd5wofghp6ozznl/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-snowballstemmer-2.2.0-cof6knea4lk5eduqyhd5wofghp6ozznl/lib/python3.11/site-packages} +setenv PY_SNOWBALLSTEMMER_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-snowballstemmer-2.2.0-cof6knea4lk5eduqyhd5wofghp6ozznl} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-spectra/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-spectra/.modulerc new file mode 100644 index 00000000..7466f5f3 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-spectra/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-spectra/0.0.11-p3nmzwl diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-spectra/0.0.11-p3nmzwl b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-spectra/0.0.11-p3nmzwl new file mode 100644 index 00000000..05b50a50 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-spectra/0.0.11-p3nmzwl @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:48.068186 +## +## py-spectra@0.0.11%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/p3nmzwl +## + + +module-whatis {Color scales and color conversion made easy for Python.} + +proc ModulesHelp { } { + puts stderr {Name : py-spectra} + puts stderr {Version: 0.0.11} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Color scales and color conversion made easy for Python.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-colormath/3.0.0-e5et5ic + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-colormath/3.0.0-e5et5ic + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-spectra + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-spectra-0.0.11-p3nmzwlyspbzwehcfu34h2g7f2c3zt47/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-spectra-0.0.11-p3nmzwlyspbzwehcfu34h2g7f2c3zt47/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-spectra-0.0.11-p3nmzwlyspbzwehcfu34h2g7f2c3zt47/lib/python3.11/site-packages} +setenv PY_SPECTRA_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-spectra-0.0.11-p3nmzwlyspbzwehcfu34h2g7f2c3zt47} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-sphinx/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-sphinx/.modulerc new file mode 100644 index 00000000..61f72472 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-sphinx/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-sphinx/8.1.0-h2pf5hd diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-sphinx/8.1.0-h2pf5hd b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-sphinx/8.1.0-h2pf5hd new file mode 100644 index 00000000..db982073 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-sphinx/8.1.0-h2pf5hd @@ -0,0 +1,102 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:48.311862 +## +## py-sphinx@8.1.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/h2pf5hd +## + + +module-whatis {Sphinx Documentation Generator.} + +proc ModulesHelp { } { + puts stderr {Name : py-sphinx} + puts stderr {Version: 8.1.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Sphinx Documentation Generator.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-alabaster/0.7.16-54j5d53 + module load py-babel/2.15.0-clka33t + module load py-docutils/0.20.1-y6wljfy + module load py-imagesize/1.4.1-tsc7bhd + module load py-jinja2/3.1.4-4gsb36v + module load py-packaging/24.1-a36mhum + module load py-pygments/2.18.0-xfh2ndk + module load py-requests/2.32.3-s2t3ntc + module load py-snowballstemmer/2.2.0-cof6kne + module load py-sphinxcontrib-applehelp/2.0.0-sk4jytu + module load py-sphinxcontrib-devhelp/2.0.0-grzqbak + module load py-sphinxcontrib-htmlhelp/2.1.0-7gqmppk + module load py-sphinxcontrib-jsmath/1.0.1-myubpop + module load py-sphinxcontrib-qthelp/2.0.0-lcetx6u + module load py-sphinxcontrib-serializinghtml/1.1.9-bpneol7 + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-alabaster/0.7.16-54j5d53 + depends-on py-babel/2.15.0-clka33t + depends-on py-docutils/0.20.1-y6wljfy + depends-on py-imagesize/1.4.1-tsc7bhd + depends-on py-jinja2/3.1.4-4gsb36v + depends-on py-packaging/24.1-a36mhum + depends-on py-pygments/2.18.0-xfh2ndk + depends-on py-requests/2.32.3-s2t3ntc + depends-on py-snowballstemmer/2.2.0-cof6kne + depends-on py-sphinxcontrib-applehelp/2.0.0-sk4jytu + depends-on py-sphinxcontrib-devhelp/2.0.0-grzqbak + depends-on py-sphinxcontrib-htmlhelp/2.1.0-7gqmppk + depends-on py-sphinxcontrib-jsmath/1.0.1-myubpop + depends-on py-sphinxcontrib-qthelp/2.0.0-lcetx6u + depends-on py-sphinxcontrib-serializinghtml/1.1.9-bpneol7 + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-sphinx + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-sphinx-8.1.0-h2pf5hdblsdgawos4zntvgsoql3lxnbm/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-sphinx-8.1.0-h2pf5hdblsdgawos4zntvgsoql3lxnbm/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-sphinx-8.1.0-h2pf5hdblsdgawos4zntvgsoql3lxnbm/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-sphinx-8.1.0-h2pf5hdblsdgawos4zntvgsoql3lxnbm/lib/python3.11/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-sphinx-8.1.0-h2pf5hdblsdgawos4zntvgsoql3lxnbm/bin} +setenv PY_SPHINX_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-sphinx-8.1.0-h2pf5hdblsdgawos4zntvgsoql3lxnbm} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-sphinxcontrib-applehelp/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-sphinxcontrib-applehelp/.modulerc new file mode 100644 index 00000000..0203dce4 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-sphinxcontrib-applehelp/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-sphinxcontrib-applehelp/2.0.0-sk4jytu diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-sphinxcontrib-applehelp/2.0.0-sk4jytu b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-sphinxcontrib-applehelp/2.0.0-sk4jytu new file mode 100644 index 00000000..36c38b22 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-sphinxcontrib-applehelp/2.0.0-sk4jytu @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:49.356476 +## +## py-sphinxcontrib-applehelp@2.0.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/sk4jytu +## + + +module-whatis {sphinxcontrib-applehelp is a sphinx extension which outputs Apple help books.} + +proc ModulesHelp { } { + puts stderr {Name : py-sphinxcontrib-applehelp} + puts stderr {Version: 2.0.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {sphinxcontrib-applehelp is a sphinx extension which outputs Apple help} + puts stderr {books.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-sphinxcontrib-applehelp + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-sphinxcontrib-applehelp-2.0.0-sk4jytu2feetx5bwwx6pc6yhmymdfkgl/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-sphinxcontrib-applehelp-2.0.0-sk4jytu2feetx5bwwx6pc6yhmymdfkgl/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-sphinxcontrib-applehelp-2.0.0-sk4jytu2feetx5bwwx6pc6yhmymdfkgl/lib/python3.11/site-packages} +setenv PY_SPHINXCONTRIB_APPLEHELP_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-sphinxcontrib-applehelp-2.0.0-sk4jytu2feetx5bwwx6pc6yhmymdfkgl} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-sphinxcontrib-devhelp/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-sphinxcontrib-devhelp/.modulerc new file mode 100644 index 00000000..57cb4623 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-sphinxcontrib-devhelp/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-sphinxcontrib-devhelp/2.0.0-grzqbak diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-sphinxcontrib-devhelp/2.0.0-grzqbak b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-sphinxcontrib-devhelp/2.0.0-grzqbak new file mode 100644 index 00000000..bfa3222e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-sphinxcontrib-devhelp/2.0.0-grzqbak @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:49.467105 +## +## py-sphinxcontrib-devhelp@2.0.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/grzqbak +## + + +module-whatis {sphinxcontrib-devhelp is a sphinx extension which outputs Devhelp document.} + +proc ModulesHelp { } { + puts stderr {Name : py-sphinxcontrib-devhelp} + puts stderr {Version: 2.0.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {sphinxcontrib-devhelp is a sphinx extension which outputs Devhelp} + puts stderr {document.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-sphinxcontrib-devhelp + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-sphinxcontrib-devhelp-2.0.0-grzqbakfanokjdplqrkfnct5pkoha6z6/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-sphinxcontrib-devhelp-2.0.0-grzqbakfanokjdplqrkfnct5pkoha6z6/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-sphinxcontrib-devhelp-2.0.0-grzqbakfanokjdplqrkfnct5pkoha6z6/lib/python3.11/site-packages} +setenv PY_SPHINXCONTRIB_DEVHELP_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-sphinxcontrib-devhelp-2.0.0-grzqbakfanokjdplqrkfnct5pkoha6z6} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-sphinxcontrib-htmlhelp/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-sphinxcontrib-htmlhelp/.modulerc new file mode 100644 index 00000000..62844f09 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-sphinxcontrib-htmlhelp/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-sphinxcontrib-htmlhelp/2.1.0-7gqmppk diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-sphinxcontrib-htmlhelp/2.1.0-7gqmppk b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-sphinxcontrib-htmlhelp/2.1.0-7gqmppk new file mode 100644 index 00000000..6b5d1573 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-sphinxcontrib-htmlhelp/2.1.0-7gqmppk @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:49.572984 +## +## py-sphinxcontrib-htmlhelp@2.1.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/7gqmppk +## + + +module-whatis {sphinxcontrib-htmlhelp is a sphinx extension which outputs htmlhelp document.} + +proc ModulesHelp { } { + puts stderr {Name : py-sphinxcontrib-htmlhelp} + puts stderr {Version: 2.1.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {sphinxcontrib-htmlhelp is a sphinx extension which outputs htmlhelp} + puts stderr {document.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-sphinxcontrib-htmlhelp + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-sphinxcontrib-htmlhelp-2.1.0-7gqmppkvt4hathpztk67wnkfhlfu3oha/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-sphinxcontrib-htmlhelp-2.1.0-7gqmppkvt4hathpztk67wnkfhlfu3oha/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-sphinxcontrib-htmlhelp-2.1.0-7gqmppkvt4hathpztk67wnkfhlfu3oha/lib/python3.11/site-packages} +setenv PY_SPHINXCONTRIB_HTMLHELP_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-sphinxcontrib-htmlhelp-2.1.0-7gqmppkvt4hathpztk67wnkfhlfu3oha} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-sphinxcontrib-jsmath/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-sphinxcontrib-jsmath/.modulerc new file mode 100644 index 00000000..bb1ee471 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-sphinxcontrib-jsmath/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-sphinxcontrib-jsmath/1.0.1-myubpop diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-sphinxcontrib-jsmath/1.0.1-myubpop b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-sphinxcontrib-jsmath/1.0.1-myubpop new file mode 100644 index 00000000..3a7e5b00 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-sphinxcontrib-jsmath/1.0.1-myubpop @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:49.675169 +## +## py-sphinxcontrib-jsmath@1.0.1%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/myubpop +## + + +module-whatis {A sphinx extension which renders display math in HTML via JavaScript.} + +proc ModulesHelp { } { + puts stderr {Name : py-sphinxcontrib-jsmath} + puts stderr {Version: 1.0.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A sphinx extension which renders display math in HTML via JavaScript.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-sphinxcontrib-jsmath + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-sphinxcontrib-jsmath-1.0.1-myubpoptv7slfvxvpj5ta2wrcs4gh3zy/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-sphinxcontrib-jsmath-1.0.1-myubpoptv7slfvxvpj5ta2wrcs4gh3zy/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-sphinxcontrib-jsmath-1.0.1-myubpoptv7slfvxvpj5ta2wrcs4gh3zy/lib/python3.11/site-packages} +setenv PY_SPHINXCONTRIB_JSMATH_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-sphinxcontrib-jsmath-1.0.1-myubpoptv7slfvxvpj5ta2wrcs4gh3zy} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-sphinxcontrib-qthelp/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-sphinxcontrib-qthelp/.modulerc new file mode 100644 index 00000000..ad2a5555 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-sphinxcontrib-qthelp/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-sphinxcontrib-qthelp/2.0.0-lcetx6u diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-sphinxcontrib-qthelp/2.0.0-lcetx6u b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-sphinxcontrib-qthelp/2.0.0-lcetx6u new file mode 100644 index 00000000..00b1ad47 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-sphinxcontrib-qthelp/2.0.0-lcetx6u @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:49.779896 +## +## py-sphinxcontrib-qthelp@2.0.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/lcetx6u +## + + +module-whatis {sphinxcontrib-qthelp is a sphinx extension which outputs QtHelp document.} + +proc ModulesHelp { } { + puts stderr {Name : py-sphinxcontrib-qthelp} + puts stderr {Version: 2.0.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {sphinxcontrib-qthelp is a sphinx extension which outputs QtHelp} + puts stderr {document.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-sphinxcontrib-qthelp + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-sphinxcontrib-qthelp-2.0.0-lcetx6uvds4cfqgtnqzrjv5uqiexlxwy/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-sphinxcontrib-qthelp-2.0.0-lcetx6uvds4cfqgtnqzrjv5uqiexlxwy/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-sphinxcontrib-qthelp-2.0.0-lcetx6uvds4cfqgtnqzrjv5uqiexlxwy/lib/python3.11/site-packages} +setenv PY_SPHINXCONTRIB_QTHELP_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-sphinxcontrib-qthelp-2.0.0-lcetx6uvds4cfqgtnqzrjv5uqiexlxwy} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-sphinxcontrib-serializinghtml/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-sphinxcontrib-serializinghtml/.modulerc new file mode 100644 index 00000000..d87f2288 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-sphinxcontrib-serializinghtml/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-sphinxcontrib-serializinghtml/1.1.9-bpneol7 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-sphinxcontrib-serializinghtml/1.1.9-bpneol7 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-sphinxcontrib-serializinghtml/1.1.9-bpneol7 new file mode 100644 index 00000000..53de6a85 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-sphinxcontrib-serializinghtml/1.1.9-bpneol7 @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:49.896208 +## +## py-sphinxcontrib-serializinghtml@1.1.9%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/bpneol7 +## + + +module-whatis {sphinxcontrib-serializinghtml is a sphinx extension which outputs 'serialized' HTML files (json and pickle).} + +proc ModulesHelp { } { + puts stderr {Name : py-sphinxcontrib-serializinghtml} + puts stderr {Version: 1.1.9} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {sphinxcontrib-serializinghtml is a sphinx extension which outputs} + puts stderr {"serialized" HTML files (json and pickle).} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-sphinxcontrib-serializinghtml + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-sphinxcontrib-serializinghtml-1.1.9-bpneol7md64gapdebmktvygcsyu23wzv/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-sphinxcontrib-serializinghtml-1.1.9-bpneol7md64gapdebmktvygcsyu23wzv/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-sphinxcontrib-serializinghtml-1.1.9-bpneol7md64gapdebmktvygcsyu23wzv/lib/python3.11/site-packages} +setenv PY_SPHINXCONTRIB_SERIALIZINGHTML_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-sphinxcontrib-serializinghtml-1.1.9-bpneol7md64gapdebmktvygcsyu23wzv} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-stack-data/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-stack-data/.modulerc new file mode 100644 index 00000000..2ebff64b --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-stack-data/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-stack-data/0.6.2-x7svjdg diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-stack-data/0.6.2-x7svjdg b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-stack-data/0.6.2-x7svjdg new file mode 100644 index 00000000..ff253ac1 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-stack-data/0.6.2-x7svjdg @@ -0,0 +1,77 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:50.014737 +## +## py-stack-data@0.6.2%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/x7svjdg +## + + +module-whatis {Extract data from python stack frames and tracebacks for informative displays.} + +proc ModulesHelp { } { + puts stderr {Name : py-stack-data} + puts stderr {Version: 0.6.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Extract data from python stack frames and tracebacks for informative} + puts stderr {displays.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-asttokens/2.4.0-xt7m5an + module load py-executing/1.2.0-k62qakq + module load py-pure-eval/0.2.2-tnyy4xq + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-asttokens/2.4.0-xt7m5an + depends-on py-executing/1.2.0-k62qakq + depends-on py-pure-eval/0.2.2-tnyy4xq + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-stack-data + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-stack-data-0.6.2-x7svjdg2dh2fbcfwvcym72qcm3zazxfx/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-stack-data-0.6.2-x7svjdg2dh2fbcfwvcym72qcm3zazxfx/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-stack-data-0.6.2-x7svjdg2dh2fbcfwvcym72qcm3zazxfx/lib/python3.11/site-packages} +setenv PY_STACK_DATA_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-stack-data-0.6.2-x7svjdg2dh2fbcfwvcym72qcm3zazxfx} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-tabulate/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-tabulate/.modulerc new file mode 100644 index 00000000..53938b44 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-tabulate/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-tabulate/0.9.0-opjm7kk diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-tabulate/0.9.0-opjm7kk b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-tabulate/0.9.0-opjm7kk new file mode 100644 index 00000000..836d5cfc --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-tabulate/0.9.0-opjm7kk @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:50.317844 +## +## py-tabulate@0.9.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/opjm7kk +## + + +module-whatis {Pretty-print tabular data} + +proc ModulesHelp { } { + puts stderr {Name : py-tabulate} + puts stderr {Version: 0.9.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Pretty-print tabular data} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-tabulate + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-tabulate-0.9.0-opjm7kkq54mfjo5kowaxi5dlt6pn2gws/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-tabulate-0.9.0-opjm7kkq54mfjo5kowaxi5dlt6pn2gws/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-tabulate-0.9.0-opjm7kkq54mfjo5kowaxi5dlt6pn2gws/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-tabulate-0.9.0-opjm7kkq54mfjo5kowaxi5dlt6pn2gws/lib/python3.11/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-tabulate-0.9.0-opjm7kkq54mfjo5kowaxi5dlt6pn2gws/bin} +setenv PY_TABULATE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-tabulate-0.9.0-opjm7kkq54mfjo5kowaxi5dlt6pn2gws} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-tenacity/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-tenacity/.modulerc new file mode 100644 index 00000000..1ac788fb --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-tenacity/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-tenacity/8.2.2-ikjmwyn diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-tenacity/8.2.2-ikjmwyn b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-tenacity/8.2.2-ikjmwyn new file mode 100644 index 00000000..41e9d0c0 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-tenacity/8.2.2-ikjmwyn @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:50.436432 +## +## py-tenacity@8.2.2%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/ikjmwyn +## + + +module-whatis {Retrying library for Python} + +proc ModulesHelp { } { + puts stderr {Name : py-tenacity} + puts stderr {Version: 8.2.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Retrying library for Python} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-tenacity + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-tenacity-8.2.2-ikjmwyno2ojifdeihrrd44t5ztixtvkf/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-tenacity-8.2.2-ikjmwyno2ojifdeihrrd44t5ztixtvkf/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-tenacity-8.2.2-ikjmwyno2ojifdeihrrd44t5ztixtvkf/lib/python3.11/site-packages} +setenv PY_TENACITY_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-tenacity-8.2.2-ikjmwyno2ojifdeihrrd44t5ztixtvkf} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-tensorboard-data-server/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-tensorboard-data-server/.modulerc new file mode 100644 index 00000000..17238ef4 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-tensorboard-data-server/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-tensorboard-data-server/0.7.0-7ftpby4 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-tensorboard-data-server/0.7.0-7ftpby4 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-tensorboard-data-server/0.7.0-7ftpby4 new file mode 100644 index 00000000..14916820 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-tensorboard-data-server/0.7.0-7ftpby4 @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:51.238681 +## +## py-tensorboard-data-server@0.7.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/7ftpby4 +## + + +module-whatis {Fast data loading for TensorBoard} + +proc ModulesHelp { } { + puts stderr {Name : py-tensorboard-data-server} + puts stderr {Version: 0.7.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Fast data loading for TensorBoard} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-tensorboard-data-server + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-tensorboard-data-server-0.7.0-7ftpby4f6kc5ba7ndqnv2scm63fdrbge/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-tensorboard-data-server-0.7.0-7ftpby4f6kc5ba7ndqnv2scm63fdrbge/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-tensorboard-data-server-0.7.0-7ftpby4f6kc5ba7ndqnv2scm63fdrbge/lib/python3.11/site-packages} +setenv PY_TENSORBOARD_DATA_SERVER_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-tensorboard-data-server-0.7.0-7ftpby4f6kc5ba7ndqnv2scm63fdrbge} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-tensorboard/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-tensorboard/.modulerc new file mode 100644 index 00000000..7cafb1ed --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-tensorboard/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-tensorboard/2.17.1-krbkmvm diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-tensorboard/2.17.1-krbkmvm b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-tensorboard/2.17.1-krbkmvm new file mode 100644 index 00000000..3eeecff8 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-tensorboard/2.17.1-krbkmvm @@ -0,0 +1,91 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:50.525490 +## +## py-tensorboard@2.17.1%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/krbkmvm +## + + +module-whatis {TensorBoard is a suite of web applications for inspecting and understanding your TensorFlow runs and graphs.} + +proc ModulesHelp { } { + puts stderr {Name : py-tensorboard} + puts stderr {Version: 2.17.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {TensorBoard is a suite of web applications for inspecting and} + puts stderr {understanding your TensorFlow runs and graphs.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-absl-py/1.4.0-ojr3fkl + module load py-grpcio/1.62.2-y57t6pm + module load py-markdown/3.4.1-tcuvdv4 + module load py-numpy/1.25.2-2wshlgs + module load py-protobuf/4.25.3-b4ekuzd + module load py-setuptools/63.4.3-dk3apgd + module load py-six/1.16.0-i34z4g2 + module load py-tensorboard-data-server/0.7.0-7ftpby4 + module load py-werkzeug/3.0.4-oenqkfk + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-absl-py/1.4.0-ojr3fkl + depends-on py-grpcio/1.62.2-y57t6pm + depends-on py-markdown/3.4.1-tcuvdv4 + depends-on py-numpy/1.25.2-2wshlgs + depends-on py-protobuf/4.25.3-b4ekuzd + depends-on py-setuptools/63.4.3-dk3apgd + depends-on py-six/1.16.0-i34z4g2 + depends-on py-tensorboard-data-server/0.7.0-7ftpby4 + depends-on py-werkzeug/3.0.4-oenqkfk + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-tensorboard + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-tensorboard-2.17.1-krbkmvmw2de5vvb75j6jrdju46yyenrk/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-tensorboard-2.17.1-krbkmvmw2de5vvb75j6jrdju46yyenrk/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-tensorboard-2.17.1-krbkmvmw2de5vvb75j6jrdju46yyenrk/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-tensorboard-2.17.1-krbkmvmw2de5vvb75j6jrdju46yyenrk/lib/python3.11/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-tensorboard-2.17.1-krbkmvmw2de5vvb75j6jrdju46yyenrk/bin} +setenv PY_TENSORBOARD_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-tensorboard-2.17.1-krbkmvmw2de5vvb75j6jrdju46yyenrk} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-tensorflow/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-tensorflow/.modulerc new file mode 100644 index 00000000..de571d16 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-tensorflow/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-tensorflow/2.17.1-y6tqwnx diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-tensorflow/2.17.1-y6tqwnx b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-tensorflow/2.17.1-y6tqwnx new file mode 100644 index 00000000..fe1ad695 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-tensorflow/2.17.1-y6tqwnx @@ -0,0 +1,114 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:51.343374 +## +## py-tensorflow@2.17.1%gcc@13.2.0~android~aws~computecpp+cuda+dynamic_kernels~gcp~gdr~hdfs~ios~jemalloc~mkl~monolithic~mpi+nccl~ngraph~numa~opencl~rocm~tensorrt~verbs+xla build_system=generic cuda_arch=75 patches=2017b3e arch=linux-ubuntu22.04-x86_64_v3/y6tqwnx +## + + +module-whatis {TensorFlow is an open source machine learning framework for everyone.} + +proc ModulesHelp { } { + puts stderr {Name : py-tensorflow} + puts stderr {Version: 2.17.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {TensorFlow is an open source machine learning framework for everyone.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load hdf5/1.14.5-sli27k6 + module load py-absl-py/1.4.0-ojr3fkl + module load py-astunparse/1.6.3-yz5vtol + module load py-flatbuffers/24.3.25-iwol2mw + module load py-gast/0.5.4-an2z5sm + module load py-google-pasta/0.2.0-jebqzhc + module load py-grpcio/1.62.2-y57t6pm + module load py-h5py/3.12.1-uq2r7s6 + module load py-libclang/14.0.6-mgchhw5 + module load py-ml-dtypes/0.4.0-qnl5eqq + module load py-numpy/1.25.2-2wshlgs + module load py-opt-einsum/3.3.0-anjao2l + module load py-packaging/24.1-a36mhum + module load py-protobuf/4.25.3-b4ekuzd + module load py-requests/2.32.3-2wr6uxx + module load py-setuptools/63.4.3-dk3apgd + module load py-six/1.16.0-i34z4g2 + module load py-tensorboard/2.17.1-krbkmvm + module load py-termcolor/1.1.0-q7wwddq + module load py-typing-extensions/4.12.2-h4iey52 + module load py-wrapt/1.15.0-tauzhs6 + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on hdf5/1.14.5-sli27k6 + depends-on py-absl-py/1.4.0-ojr3fkl + depends-on py-astunparse/1.6.3-yz5vtol + depends-on py-flatbuffers/24.3.25-iwol2mw + depends-on py-gast/0.5.4-an2z5sm + depends-on py-google-pasta/0.2.0-jebqzhc + depends-on py-grpcio/1.62.2-y57t6pm + depends-on py-h5py/3.12.1-uq2r7s6 + depends-on py-libclang/14.0.6-mgchhw5 + depends-on py-ml-dtypes/0.4.0-qnl5eqq + depends-on py-numpy/1.25.2-2wshlgs + depends-on py-opt-einsum/3.3.0-anjao2l + depends-on py-packaging/24.1-a36mhum + depends-on py-protobuf/4.25.3-b4ekuzd + depends-on py-requests/2.32.3-2wr6uxx + depends-on py-setuptools/63.4.3-dk3apgd + depends-on py-six/1.16.0-i34z4g2 + depends-on py-tensorboard/2.17.1-krbkmvm + depends-on py-termcolor/1.1.0-q7wwddq + depends-on py-typing-extensions/4.12.2-h4iey52 + depends-on py-wrapt/1.15.0-tauzhs6 + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-tensorflow + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-tensorflow-2.17.1-y6tqwnxojh7j2ubjonjf35ikkqkeqc6a/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-tensorflow-2.17.1-y6tqwnxojh7j2ubjonjf35ikkqkeqc6a/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-tensorflow-2.17.1-y6tqwnxojh7j2ubjonjf35ikkqkeqc6a/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-tensorflow-2.17.1-y6tqwnxojh7j2ubjonjf35ikkqkeqc6a/lib/python3.11/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-tensorflow-2.17.1-y6tqwnxojh7j2ubjonjf35ikkqkeqc6a/bin} +setenv PY_TENSORFLOW_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-tensorflow-2.17.1-y6tqwnxojh7j2ubjonjf35ikkqkeqc6a} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-termcolor/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-termcolor/.modulerc new file mode 100644 index 00000000..5912d641 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-termcolor/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-termcolor/1.1.0-q7wwddq diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-termcolor/1.1.0-q7wwddq b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-termcolor/1.1.0-q7wwddq new file mode 100644 index 00000000..babcb3bf --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-termcolor/1.1.0-q7wwddq @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:52.836689 +## +## py-termcolor@1.1.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/q7wwddq +## + + +module-whatis {ANSII Color formatting for output in terminal.} + +proc ModulesHelp { } { + puts stderr {Name : py-termcolor} + puts stderr {Version: 1.1.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {ANSII Color formatting for output in terminal.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-termcolor + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-termcolor-1.1.0-q7wwddqetqtksxcpfykyi2aetv3ft7nd/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-termcolor-1.1.0-q7wwddqetqtksxcpfykyi2aetv3ft7nd/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-termcolor-1.1.0-q7wwddqetqtksxcpfykyi2aetv3ft7nd/lib/python3.11/site-packages} +setenv PY_TERMCOLOR_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-termcolor-1.1.0-q7wwddqetqtksxcpfykyi2aetv3ft7nd} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-threadpoolctl/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-threadpoolctl/.modulerc new file mode 100644 index 00000000..557c7325 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-threadpoolctl/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-threadpoolctl/3.1.0-vgbbsyq diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-threadpoolctl/3.1.0-vgbbsyq b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-threadpoolctl/3.1.0-vgbbsyq new file mode 100644 index 00000000..ed01022f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-threadpoolctl/3.1.0-vgbbsyq @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:52.948265 +## +## py-threadpoolctl@3.1.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/vgbbsyq +## + + +module-whatis {Python helpers to limit the number of threads used in the threadpool-backed of common native libraries used for scientific computing and data science (e.g. BLAS and OpenMP).} + +proc ModulesHelp { } { + puts stderr {Name : py-threadpoolctl} + puts stderr {Version: 3.1.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Python helpers to limit the number of threads used in the threadpool-} + puts stderr {backed of common native libraries used for scientific computing and data} + puts stderr {science (e.g. BLAS and OpenMP).} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.8.19-dxx3zxu + module load python-venv/1.0-l4mqvrb +} else { + depends-on python/3.8.19-dxx3zxu + depends-on python-venv/1.0-l4mqvrb +} +conflict py-threadpoolctl + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-threadpoolctl-3.1.0-vgbbsyqbzgjcoc4c4nketn4dae4vdt3y/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-threadpoolctl-3.1.0-vgbbsyqbzgjcoc4c4nketn4dae4vdt3y/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-threadpoolctl-3.1.0-vgbbsyqbzgjcoc4c4nketn4dae4vdt3y/lib/python3.8/site-packages} +setenv PY_THREADPOOLCTL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-threadpoolctl-3.1.0-vgbbsyqbzgjcoc4c4nketn4dae4vdt3y} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-tomli/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-tomli/.modulerc new file mode 100644 index 00000000..d7853602 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-tomli/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-tomli/2.0.1-qvzohea +module-hide --soft --hidden-loaded py-tomli/2.0.1-efkxhmu diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-tomli/2.0.1-efkxhmu b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-tomli/2.0.1-efkxhmu new file mode 100644 index 00000000..3fe6c0e4 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-tomli/2.0.1-efkxhmu @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:53.071662 +## +## py-tomli@2.0.1%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/efkxhmu +## + + +module-whatis {Tomli is a Python library for parsing TOML.} + +proc ModulesHelp { } { + puts stderr {Name : py-tomli} + puts stderr {Version: 2.0.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Tomli is a Python library for parsing TOML. Tomli is fully compatible} + puts stderr {with TOML v1.0.0.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.8.19-dxx3zxu + module load python-venv/1.0-l4mqvrb +} else { + depends-on python/3.8.19-dxx3zxu + depends-on python-venv/1.0-l4mqvrb +} +conflict py-tomli + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-tomli-2.0.1-efkxhmuv34xd5w6qytybqassfyqfgrjb/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-tomli-2.0.1-efkxhmuv34xd5w6qytybqassfyqfgrjb/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-tomli-2.0.1-efkxhmuv34xd5w6qytybqassfyqfgrjb/lib/python3.8/site-packages} +setenv PY_TOMLI_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-tomli-2.0.1-efkxhmuv34xd5w6qytybqassfyqfgrjb} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-tomli/2.0.1-qvzohea b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-tomli/2.0.1-qvzohea new file mode 100644 index 00000000..00f5e29e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-tomli/2.0.1-qvzohea @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:53.182756 +## +## py-tomli@2.0.1%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/qvzohea +## + + +module-whatis {Tomli is a Python library for parsing TOML.} + +proc ModulesHelp { } { + puts stderr {Name : py-tomli} + puts stderr {Version: 2.0.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Tomli is a Python library for parsing TOML. Tomli is fully compatible} + puts stderr {with TOML v1.0.0.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-tomli + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-tomli-2.0.1-qvzoheaz4b62lovk3vqlcigmmssrqhkf/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-tomli-2.0.1-qvzoheaz4b62lovk3vqlcigmmssrqhkf/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-tomli-2.0.1-qvzoheaz4b62lovk3vqlcigmmssrqhkf/lib/python3.11/site-packages} +setenv PY_TOMLI_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-tomli-2.0.1-qvzoheaz4b62lovk3vqlcigmmssrqhkf} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-toolz/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-toolz/.modulerc new file mode 100644 index 00000000..247ea4f3 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-toolz/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-toolz/0.12.0-xxsyher diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-toolz/0.12.0-xxsyher b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-toolz/0.12.0-xxsyher new file mode 100644 index 00000000..4b120d00 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-toolz/0.12.0-xxsyher @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:53.288759 +## +## py-toolz@0.12.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/xxsyher +## + + +module-whatis {A set of utility functions for iterators, functions, and dictionaries} + +proc ModulesHelp { } { + puts stderr {Name : py-toolz} + puts stderr {Version: 0.12.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A set of utility functions for iterators, functions, and dictionaries} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-toolz + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-toolz-0.12.0-xxsyherqjfaltmfca76u337xgptsigdc/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-toolz-0.12.0-xxsyherqjfaltmfca76u337xgptsigdc/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-toolz-0.12.0-xxsyherqjfaltmfca76u337xgptsigdc/lib/python3.11/site-packages} +setenv PY_TOOLZ_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-toolz-0.12.0-xxsyherqjfaltmfca76u337xgptsigdc} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-tqdm/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-tqdm/.modulerc new file mode 100644 index 00000000..b3b9d4a8 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-tqdm/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-tqdm/4.66.3-mnhyrue diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-tqdm/4.66.3-mnhyrue b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-tqdm/4.66.3-mnhyrue new file mode 100644 index 00000000..6adcb177 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-tqdm/4.66.3-mnhyrue @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:53.389636 +## +## py-tqdm@4.66.3%gcc@13.2.0~notebook~telegram build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/mnhyrue +## + + +module-whatis {A Fast, Extensible Progress Meter} + +proc ModulesHelp { } { + puts stderr {Name : py-tqdm} + puts stderr {Version: 4.66.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A Fast, Extensible Progress Meter} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-setuptools/69.2.0-rhq2cbb + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-setuptools/69.2.0-rhq2cbb + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-tqdm + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-tqdm-4.66.3-mnhyruexwysvrz6eeqs7xkxkbk6j4oid/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-tqdm-4.66.3-mnhyruexwysvrz6eeqs7xkxkbk6j4oid/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-tqdm-4.66.3-mnhyruexwysvrz6eeqs7xkxkbk6j4oid/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-tqdm-4.66.3-mnhyruexwysvrz6eeqs7xkxkbk6j4oid/lib/python3.11/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-tqdm-4.66.3-mnhyruexwysvrz6eeqs7xkxkbk6j4oid/bin} +setenv PY_TQDM_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-tqdm-4.66.3-mnhyruexwysvrz6eeqs7xkxkbk6j4oid} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-traitlets/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-traitlets/.modulerc new file mode 100644 index 00000000..998e1201 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-traitlets/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-traitlets/5.14.3-k67pwzn diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-traitlets/5.14.3-k67pwzn b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-traitlets/5.14.3-k67pwzn new file mode 100644 index 00000000..c5900e73 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-traitlets/5.14.3-k67pwzn @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:53.535944 +## +## py-traitlets@5.14.3%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/k67pwzn +## + + +module-whatis {Traitlets Python config system} + +proc ModulesHelp { } { + puts stderr {Name : py-traitlets} + puts stderr {Version: 5.14.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Traitlets Python config system} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-traitlets + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-traitlets-5.14.3-k67pwzn4dzuw6ctnxtjsv2w7dpju7x5m/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-traitlets-5.14.3-k67pwzn4dzuw6ctnxtjsv2w7dpju7x5m/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-traitlets-5.14.3-k67pwzn4dzuw6ctnxtjsv2w7dpju7x5m/lib/python3.11/site-packages} +setenv PY_TRAITLETS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-traitlets-5.14.3-k67pwzn4dzuw6ctnxtjsv2w7dpju7x5m} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-trove-classifiers/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-trove-classifiers/.modulerc new file mode 100644 index 00000000..e6643712 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-trove-classifiers/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-trove-classifiers/2023.8.7-5aaxcgp diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-trove-classifiers/2023.8.7-5aaxcgp b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-trove-classifiers/2023.8.7-5aaxcgp new file mode 100644 index 00000000..15dff7f7 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-trove-classifiers/2023.8.7-5aaxcgp @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:53.634947 +## +## py-trove-classifiers@2023.8.7%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/5aaxcgp +## + + +module-whatis {The trove-classifiers pacakge is the canonical source for classifiers on PyPI. Classifiers categorize projects per PEP 301.} + +proc ModulesHelp { } { + puts stderr {Name : py-trove-classifiers} + puts stderr {Version: 2023.8.7} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The trove-classifiers pacakge is the canonical source for classifiers on} + puts stderr {PyPI. Classifiers categorize projects per PEP 301.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-trove-classifiers + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-trove-classifiers-2023.8.7-5aaxcgpjrcqa3fuwfkasdcnhpxrxl6hg/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-trove-classifiers-2023.8.7-5aaxcgpjrcqa3fuwfkasdcnhpxrxl6hg/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-trove-classifiers-2023.8.7-5aaxcgpjrcqa3fuwfkasdcnhpxrxl6hg/lib/python3.11/site-packages} +setenv PY_TROVE_CLASSIFIERS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-trove-classifiers-2023.8.7-5aaxcgpjrcqa3fuwfkasdcnhpxrxl6hg} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-typeguard/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-typeguard/.modulerc new file mode 100644 index 00000000..b4899730 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-typeguard/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-typeguard/3.0.2-2o5k3sy diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-typeguard/3.0.2-2o5k3sy b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-typeguard/3.0.2-2o5k3sy new file mode 100644 index 00000000..61a46874 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-typeguard/3.0.2-2o5k3sy @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:53.742751 +## +## py-typeguard@3.0.2%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/2o5k3sy +## + + +module-whatis { Run-time type checker for Python. } + +proc ModulesHelp { } { + puts stderr {Name : py-typeguard} + puts stderr {Version: 3.0.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr { Run-time type checker for Python.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-typeguard + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-typeguard-3.0.2-2o5k3syzantofxmr2fslw2vdigr3kwcy/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-typeguard-3.0.2-2o5k3syzantofxmr2fslw2vdigr3kwcy/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-typeguard-3.0.2-2o5k3syzantofxmr2fslw2vdigr3kwcy/lib/python3.11/site-packages} +setenv PY_TYPEGUARD_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-typeguard-3.0.2-2o5k3syzantofxmr2fslw2vdigr3kwcy} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-typing-extensions/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-typing-extensions/.modulerc new file mode 100644 index 00000000..b19a7c29 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-typing-extensions/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-typing-extensions/4.12.2-h4iey52 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-typing-extensions/4.12.2-h4iey52 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-typing-extensions/4.12.2-h4iey52 new file mode 100644 index 00000000..f8b3f0ab --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-typing-extensions/4.12.2-h4iey52 @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:53.865292 +## +## py-typing-extensions@4.12.2%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/h4iey52 +## + + +module-whatis {The typing_extensions module contains both backports of these changes as well as experimental types that will eventually be added to the typing module, such as Protocol (see PEP 544 for details about protocols and static duck typing).} + +proc ModulesHelp { } { + puts stderr {Name : py-typing-extensions} + puts stderr {Version: 4.12.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The typing_extensions module contains both backports of these changes as} + puts stderr {well as experimental types that will eventually be added to the typing} + puts stderr {module, such as Protocol (see PEP 544 for details about protocols and} + puts stderr {static duck typing).} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-typing-extensions + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-typing-extensions-4.12.2-h4iey52wgfy5sksyjzut6yc7x2u32p5z/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-typing-extensions-4.12.2-h4iey52wgfy5sksyjzut6yc7x2u32p5z/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-typing-extensions-4.12.2-h4iey52wgfy5sksyjzut6yc7x2u32p5z/lib/python3.11/site-packages} +setenv PY_TYPING_EXTENSIONS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-typing-extensions-4.12.2-h4iey52wgfy5sksyjzut6yc7x2u32p5z} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-tzdata/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-tzdata/.modulerc new file mode 100644 index 00000000..cc377edf --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-tzdata/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-tzdata/2023.3-dlicjx2 +module-hide --soft --hidden-loaded py-tzdata/2023.3-otrhf6b diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-tzdata/2023.3-dlicjx2 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-tzdata/2023.3-dlicjx2 new file mode 100644 index 00000000..e94fada3 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-tzdata/2023.3-dlicjx2 @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:53.984031 +## +## py-tzdata@2023.3%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/dlicjx2 +## + + +module-whatis {Provider of IANA time zone data.} + +proc ModulesHelp { } { + puts stderr {Name : py-tzdata} + puts stderr {Version: 2023.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Provider of IANA time zone data.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-tzdata + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-tzdata-2023.3-dlicjx2qaaldzm5mv5kjlr25s7bfm5xq/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-tzdata-2023.3-dlicjx2qaaldzm5mv5kjlr25s7bfm5xq/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-tzdata-2023.3-dlicjx2qaaldzm5mv5kjlr25s7bfm5xq/lib/python3.11/site-packages} +setenv PY_TZDATA_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-tzdata-2023.3-dlicjx2qaaldzm5mv5kjlr25s7bfm5xq} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-tzdata/2023.3-otrhf6b b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-tzdata/2023.3-otrhf6b new file mode 100644 index 00000000..1716981e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-tzdata/2023.3-otrhf6b @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:54.096590 +## +## py-tzdata@2023.3%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/otrhf6b +## + + +module-whatis {Provider of IANA time zone data.} + +proc ModulesHelp { } { + puts stderr {Name : py-tzdata} + puts stderr {Version: 2023.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Provider of IANA time zone data.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-tzdata + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-tzdata-2023.3-otrhf6bc3vjo33wowsyztd7phhgx3hwv/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-tzdata-2023.3-otrhf6bc3vjo33wowsyztd7phhgx3hwv/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-tzdata-2023.3-otrhf6bc3vjo33wowsyztd7phhgx3hwv/lib/python3.11/site-packages} +setenv PY_TZDATA_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-tzdata-2023.3-otrhf6bc3vjo33wowsyztd7phhgx3hwv} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-urllib3/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-urllib3/.modulerc new file mode 100644 index 00000000..439eef87 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-urllib3/.modulerc @@ -0,0 +1,5 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-urllib3/1.26.20-lpg4spj +module-hide --soft --hidden-loaded py-urllib3/1.26.20-xzn4wsh +module-hide --soft --hidden-loaded py-urllib3/2.1.0-563wyo5 +module-hide --soft --hidden-loaded py-urllib3/2.1.0-2lr244r diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-urllib3/1.26.20-lpg4spj b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-urllib3/1.26.20-lpg4spj new file mode 100644 index 00000000..584702d2 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-urllib3/1.26.20-lpg4spj @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:54.210485 +## +## py-urllib3@1.26.20%gcc@13.2.0~brotli~secure~socks build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/lpg4spj +## + + +module-whatis {HTTP library with thread-safe connection pooling, file post, and more.} + +proc ModulesHelp { } { + puts stderr {Name : py-urllib3} + puts stderr {Version: 1.26.20} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {HTTP library with thread-safe connection pooling, file post, and more.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.13.0-xf4zxxe + module load python-venv/1.0-6mlwnfu +} else { + depends-on python/3.13.0-xf4zxxe + depends-on python-venv/1.0-6mlwnfu +} +conflict py-urllib3 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-urllib3-1.26.20-lpg4spjbut3thoffxqssylnms4wjvcoh/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-urllib3-1.26.20-lpg4spjbut3thoffxqssylnms4wjvcoh/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-urllib3-1.26.20-lpg4spjbut3thoffxqssylnms4wjvcoh/lib/python3.13/site-packages} +setenv PY_URLLIB3_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-urllib3-1.26.20-lpg4spjbut3thoffxqssylnms4wjvcoh} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-urllib3/1.26.20-xzn4wsh b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-urllib3/1.26.20-xzn4wsh new file mode 100644 index 00000000..2de9d7f4 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-urllib3/1.26.20-xzn4wsh @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:54.355589 +## +## py-urllib3@1.26.20%gcc@13.2.0~brotli~secure~socks build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/xzn4wsh +## + + +module-whatis {HTTP library with thread-safe connection pooling, file post, and more.} + +proc ModulesHelp { } { + puts stderr {Name : py-urllib3} + puts stderr {Version: 1.26.20} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {HTTP library with thread-safe connection pooling, file post, and more.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9-itykk2n + module load python-venv/1.0-okrhcwx +} else { + depends-on python/3.11.9-itykk2n + depends-on python-venv/1.0-okrhcwx +} +conflict py-urllib3 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-urllib3-1.26.20-xzn4wshncs2l263jvnxmynnqk73wg4ve/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-urllib3-1.26.20-xzn4wshncs2l263jvnxmynnqk73wg4ve/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-urllib3-1.26.20-xzn4wshncs2l263jvnxmynnqk73wg4ve/lib/python3.11/site-packages} +setenv PY_URLLIB3_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-urllib3-1.26.20-xzn4wshncs2l263jvnxmynnqk73wg4ve} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-urllib3/2.1.0-2lr244r b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-urllib3/2.1.0-2lr244r new file mode 100644 index 00000000..04087551 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-urllib3/2.1.0-2lr244r @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:54.610249 +## +## py-urllib3@2.1.0%gcc@13.2.0~brotli~socks build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/2lr244r +## + + +module-whatis {HTTP library with thread-safe connection pooling, file post, and more.} + +proc ModulesHelp { } { + puts stderr {Name : py-urllib3} + puts stderr {Version: 2.1.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {HTTP library with thread-safe connection pooling, file post, and more.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-urllib3 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-urllib3-2.1.0-2lr244rjnzbg6vonkjwu6vzxfohkasly/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-urllib3-2.1.0-2lr244rjnzbg6vonkjwu6vzxfohkasly/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-urllib3-2.1.0-2lr244rjnzbg6vonkjwu6vzxfohkasly/lib/python3.11/site-packages} +setenv PY_URLLIB3_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-urllib3-2.1.0-2lr244rjnzbg6vonkjwu6vzxfohkasly} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-urllib3/2.1.0-563wyo5 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-urllib3/2.1.0-563wyo5 new file mode 100644 index 00000000..d712d265 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-urllib3/2.1.0-563wyo5 @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:54.484226 +## +## py-urllib3@2.1.0%gcc@13.2.0~brotli~socks build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/563wyo5 +## + + +module-whatis {HTTP library with thread-safe connection pooling, file post, and more.} + +proc ModulesHelp { } { + puts stderr {Name : py-urllib3} + puts stderr {Version: 2.1.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {HTTP library with thread-safe connection pooling, file post, and more.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-urllib3 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-urllib3-2.1.0-563wyo5fshrztujnwmqudmo3f2nookw7/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-urllib3-2.1.0-563wyo5fshrztujnwmqudmo3f2nookw7/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-urllib3-2.1.0-563wyo5fshrztujnwmqudmo3f2nookw7/lib/python3.11/site-packages} +setenv PY_URLLIB3_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-urllib3-2.1.0-563wyo5fshrztujnwmqudmo3f2nookw7} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-wcwidth/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-wcwidth/.modulerc new file mode 100644 index 00000000..bb133d0a --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-wcwidth/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-wcwidth/0.2.7-q5fv7km +module-hide --soft --hidden-loaded py-wcwidth/0.2.7-xb5en4c diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-wcwidth/0.2.7-q5fv7km b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-wcwidth/0.2.7-q5fv7km new file mode 100644 index 00000000..9b2cd4f5 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-wcwidth/0.2.7-q5fv7km @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:54.747495 +## +## py-wcwidth@0.2.7%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/q5fv7km +## + + +module-whatis {Measures number of Terminal column cells of wide-character codes} + +proc ModulesHelp { } { + puts stderr {Name : py-wcwidth} + puts stderr {Version: 0.2.7} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Measures number of Terminal column cells of wide-character codes} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-wcwidth + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-wcwidth-0.2.7-q5fv7kmlc7er46eliior3wmfskqmfpak/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-wcwidth-0.2.7-q5fv7kmlc7er46eliior3wmfskqmfpak/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-wcwidth-0.2.7-q5fv7kmlc7er46eliior3wmfskqmfpak/lib/python3.11/site-packages} +setenv PY_WCWIDTH_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-wcwidth-0.2.7-q5fv7kmlc7er46eliior3wmfskqmfpak} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-wcwidth/0.2.7-xb5en4c b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-wcwidth/0.2.7-xb5en4c new file mode 100644 index 00000000..1f2836f5 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-wcwidth/0.2.7-xb5en4c @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:54.881881 +## +## py-wcwidth@0.2.7%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/xb5en4c +## + + +module-whatis {Measures number of Terminal column cells of wide-character codes} + +proc ModulesHelp { } { + puts stderr {Name : py-wcwidth} + puts stderr {Version: 0.2.7} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Measures number of Terminal column cells of wide-character codes} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9-itykk2n + module load python-venv/1.0-okrhcwx +} else { + depends-on python/3.11.9-itykk2n + depends-on python-venv/1.0-okrhcwx +} +conflict py-wcwidth + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-wcwidth-0.2.7-xb5en4c6gx6qjlps5atstttaweivs6kw/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-wcwidth-0.2.7-xb5en4c6gx6qjlps5atstttaweivs6kw/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-wcwidth-0.2.7-xb5en4c6gx6qjlps5atstttaweivs6kw/lib/python3.11/site-packages} +setenv PY_WCWIDTH_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-wcwidth-0.2.7-xb5en4c6gx6qjlps5atstttaweivs6kw} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-websocket-client/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-websocket-client/.modulerc new file mode 100644 index 00000000..e37cc19f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-websocket-client/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-websocket-client/1.8.0-ofzwyw2 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-websocket-client/1.8.0-ofzwyw2 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-websocket-client/1.8.0-ofzwyw2 new file mode 100644 index 00000000..add15616 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-websocket-client/1.8.0-ofzwyw2 @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:55.010929 +## +## py-websocket-client@1.8.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/ofzwyw2 +## + + +module-whatis {WebSocket client for Python. hybi13 is supported.} + +proc ModulesHelp { } { + puts stderr {Name : py-websocket-client} + puts stderr {Version: 1.8.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {WebSocket client for Python. hybi13 is supported.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-websocket-client + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-websocket-client-1.8.0-ofzwyw25yg4jsjxvu4y4whrkrb6pugpq/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-websocket-client-1.8.0-ofzwyw25yg4jsjxvu4y4whrkrb6pugpq/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-websocket-client-1.8.0-ofzwyw25yg4jsjxvu4y4whrkrb6pugpq/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-websocket-client-1.8.0-ofzwyw25yg4jsjxvu4y4whrkrb6pugpq/lib/python3.11/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-websocket-client-1.8.0-ofzwyw25yg4jsjxvu4y4whrkrb6pugpq/bin} +setenv PY_WEBSOCKET_CLIENT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-websocket-client-1.8.0-ofzwyw25yg4jsjxvu4y4whrkrb6pugpq} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-werkzeug/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-werkzeug/.modulerc new file mode 100644 index 00000000..dafbb03e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-werkzeug/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-werkzeug/3.0.4-oenqkfk diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-werkzeug/3.0.4-oenqkfk b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-werkzeug/3.0.4-oenqkfk new file mode 100644 index 00000000..61c223d5 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-werkzeug/3.0.4-oenqkfk @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:55.140302 +## +## py-werkzeug@3.0.4%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/oenqkfk +## + + +module-whatis {The Swiss Army knife of Python web development} + +proc ModulesHelp { } { + puts stderr {Name : py-werkzeug} + puts stderr {Version: 3.0.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The Swiss Army knife of Python web development} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-markupsafe/2.1.3-ve7nwa6 + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-markupsafe/2.1.3-ve7nwa6 + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-werkzeug + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-werkzeug-3.0.4-oenqkfktx7hs3u5qe7bpudfgqcam4fr5/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-werkzeug-3.0.4-oenqkfktx7hs3u5qe7bpudfgqcam4fr5/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-werkzeug-3.0.4-oenqkfktx7hs3u5qe7bpudfgqcam4fr5/lib/python3.11/site-packages} +setenv PY_WERKZEUG_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-werkzeug-3.0.4-oenqkfktx7hs3u5qe7bpudfgqcam4fr5} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-wheel/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-wheel/.modulerc new file mode 100644 index 00000000..774b9b14 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-wheel/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-wheel/0.41.2-c5gnlxv +module-hide --soft --hidden-loaded py-wheel/0.41.2-zcrjvkt diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-wheel/0.41.2-c5gnlxv b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-wheel/0.41.2-c5gnlxv new file mode 100644 index 00000000..851239f7 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-wheel/0.41.2-c5gnlxv @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:55.313449 +## +## py-wheel@0.41.2%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/c5gnlxv +## + + +module-whatis {A built-package format for Python.} + +proc ModulesHelp { } { + puts stderr {Name : py-wheel} + puts stderr {Version: 0.41.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A built-package format for Python.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-wheel + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-wheel-0.41.2-c5gnlxvjvg7pdoaqrrhk3a7h6c37ex7t/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-wheel-0.41.2-c5gnlxvjvg7pdoaqrrhk3a7h6c37ex7t/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-wheel-0.41.2-c5gnlxvjvg7pdoaqrrhk3a7h6c37ex7t/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-wheel-0.41.2-c5gnlxvjvg7pdoaqrrhk3a7h6c37ex7t/lib/python3.11/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-wheel-0.41.2-c5gnlxvjvg7pdoaqrrhk3a7h6c37ex7t/bin} +setenv PY_WHEEL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-wheel-0.41.2-c5gnlxvjvg7pdoaqrrhk3a7h6c37ex7t} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-wheel/0.41.2-zcrjvkt b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-wheel/0.41.2-zcrjvkt new file mode 100644 index 00000000..e34df4f8 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-wheel/0.41.2-zcrjvkt @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:55.433272 +## +## py-wheel@0.41.2%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/zcrjvkt +## + + +module-whatis {A built-package format for Python.} + +proc ModulesHelp { } { + puts stderr {Name : py-wheel} + puts stderr {Version: 0.41.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A built-package format for Python.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.8.19-dxx3zxu + module load python-venv/1.0-l4mqvrb +} else { + depends-on python/3.8.19-dxx3zxu + depends-on python-venv/1.0-l4mqvrb +} +conflict py-wheel + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-wheel-0.41.2-zcrjvktdgm25ntx73rjggf7gmztyykvk/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-wheel-0.41.2-zcrjvktdgm25ntx73rjggf7gmztyykvk/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-wheel-0.41.2-zcrjvktdgm25ntx73rjggf7gmztyykvk/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-wheel-0.41.2-zcrjvktdgm25ntx73rjggf7gmztyykvk/lib/python3.8/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-wheel-0.41.2-zcrjvktdgm25ntx73rjggf7gmztyykvk/bin} +setenv PY_WHEEL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-wheel-0.41.2-zcrjvktdgm25ntx73rjggf7gmztyykvk} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-wrapt/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-wrapt/.modulerc new file mode 100644 index 00000000..af713b00 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-wrapt/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-wrapt/1.15.0-tauzhs6 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-wrapt/1.15.0-tauzhs6 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-wrapt/1.15.0-tauzhs6 new file mode 100644 index 00000000..9a09208f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-wrapt/1.15.0-tauzhs6 @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:55.556846 +## +## py-wrapt@1.15.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/tauzhs6 +## + + +module-whatis {Module for decorators, wrappers and monkey patching.} + +proc ModulesHelp { } { + puts stderr {Name : py-wrapt} + puts stderr {Version: 1.15.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Module for decorators, wrappers and monkey patching.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-wrapt + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-wrapt-1.15.0-tauzhs6i7g3bgnf2xsjhhwgrqw32qojf/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-wrapt-1.15.0-tauzhs6i7g3bgnf2xsjhhwgrqw32qojf/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-wrapt-1.15.0-tauzhs6i7g3bgnf2xsjhhwgrqw32qojf/lib/python3.11/site-packages} +setenv PY_WRAPT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-wrapt-1.15.0-tauzhs6i7g3bgnf2xsjhhwgrqw32qojf} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-xopen/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-xopen/.modulerc new file mode 100644 index 00000000..9334a83f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-xopen/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-xopen/1.6.0-bn276mo diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-xopen/1.6.0-bn276mo b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-xopen/1.6.0-bn276mo new file mode 100644 index 00000000..f354cfb9 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-xopen/1.6.0-bn276mo @@ -0,0 +1,75 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:55.651265 +## +## py-xopen@1.6.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/bn276mo +## + + +module-whatis {This small Python module provides a xopen function that works like the built-in open function, but can also deal with compressed files. Supported compression formats are gzip, bzip2 and xz. They are automatically recognized by their file extensions .gz, .bz2 or .xz.} + +proc ModulesHelp { } { + puts stderr {Name : py-xopen} + puts stderr {Version: 1.6.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {This small Python module provides a xopen function that works like the} + puts stderr {built-in open function, but can also deal with compressed files.} + puts stderr {Supported compression formats are gzip, bzip2 and xz. They are} + puts stderr {automatically recognized by their file extensions .gz, .bz2 or .xz.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-isal/1.1.0-yawdljx + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on py-isal/1.1.0-yawdljx + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-xopen + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-xopen-1.6.0-bn276moezeqlnjidcoqhjnrt5vcv3lyi/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-xopen-1.6.0-bn276moezeqlnjidcoqhjnrt5vcv3lyi/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-xopen-1.6.0-bn276moezeqlnjidcoqhjnrt5vcv3lyi/lib/python3.11/site-packages} +setenv PY_XOPEN_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-xopen-1.6.0-bn276moezeqlnjidcoqhjnrt5vcv3lyi} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-zipp/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-zipp/.modulerc new file mode 100644 index 00000000..3680c21e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-zipp/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-zipp/3.17.0-ej7x67s diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-zipp/3.17.0-ej7x67s b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-zipp/3.17.0-ej7x67s new file mode 100644 index 00000000..ccc0b449 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/py-zipp/3.17.0-ej7x67s @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:55.801471 +## +## py-zipp@3.17.0%gcc@13.2.0 build_system=python_pip arch=linux-ubuntu22.04-x86_64_v3/ej7x67s +## + + +module-whatis {Backport of pathlib-compatible object wrapper for zip files.} + +proc ModulesHelp { } { + puts stderr {Name : py-zipp} + puts stderr {Version: 3.17.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Backport of pathlib-compatible object wrapper for zip files.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 + module load python-venv/1.0-ed2nmwx +} else { + depends-on python/3.11.9 + depends-on python-venv/1.0-ed2nmwx +} +conflict py-zipp + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-zipp-3.17.0-ej7x67sr26atnhwmlhblyn74f4lo6srv/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-zipp-3.17.0-ej7x67sr26atnhwmlhblyn74f4lo6srv/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-zipp-3.17.0-ej7x67sr26atnhwmlhblyn74f4lo6srv/lib/python3.11/site-packages} +setenv PY_ZIPP_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/py-zipp-3.17.0-ej7x67sr26atnhwmlhblyn74f4lo6srv} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pythia6/6.4.28 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pythia6/6.4.28 new file mode 100644 index 00000000..86dcb1cb --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pythia6/6.4.28 @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:55.930129 +## +## pythia6@6.4.28%gcc@13.2.0~ipo~root build_system=cmake build_type=Release generator=make nmxhep=4000 patches=d081752 arch=linux-ubuntu22.04-x86_64_v3/xrvsmj6 +## +## Configure options: -DPYTHIA6_VERSION=6.4.28 +## + + +module-whatis {PYTHIA is a program for the generation of high-energy physics events, i.e. for the description of collisions at high energies between elementary particles such as e+, e-, p and pbar in various combinations.} + +proc ModulesHelp { } { + puts stderr {Name : pythia6} + puts stderr {Version: 6.4.28} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {PYTHIA is a program for the generation of high-energy physics events,} + puts stderr {i.e. for the description of collisions at high energies between} + puts stderr {elementary particles such as e+, e-, p and pbar in various combinations.} + puts stderr {PYTHIA6 is a Fortran package which is no longer maintained: new} + puts stderr {prospective users should use Pythia8 instead. This recipe includes} + puts stderr {patches required to interoperate with Root.} +} + +conflict pythia6 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/pythia6-6.4.28/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/pythia6-6.4.28/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/pythia6-6.4.28/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/pythia6-6.4.28/include} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/pythia6-6.4.28/.} +setenv PYTHIA6_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pythia6-6.4.28-xrvsmj6iyexvw5lf5jvoamuebptrboqb} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pythia8/8.310 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pythia8/8.310 new file mode 100644 index 00000000..33499e91 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/pythia8/8.310 @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:55.971830 +## +## pythia8@8.310%gcc@13.2.0~evtgen~fastjet~gzip~hdf5+hepmc+hepmc3~lhapdf~madgraph5amc~mpich~openmpi~python~rivet~root+shared build_system=autotools cxxstd=11 arch=linux-ubuntu22.04-x86_64_v3/izwdd4t +## +## Configure options: --with-hepmc2=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/hepmc-2.06.11-llmnljlprnehj6rzr7sukkby3k667swn --with-hepmc3=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/hepmc3-3.3.0-jwje3nybnbzyatcbhjju5xzdgayhhgzh --without-evtgen --without-root --without-rivet --without-python --without-openmp --without-mpich --without-hdf5 --without-gzip +## + + +module-whatis {The Pythia program is a standard tool for the generation of events in high-energy collisions, comprising a coherent set of physics models for the evolution from a few-body hard process to a complex multiparticle final state.} + +proc ModulesHelp { } { + puts stderr {Name : pythia8} + puts stderr {Version: 8.310} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The Pythia program is a standard tool for the generation of events in} + puts stderr {high-energy collisions, comprising a coherent set of physics models for} + puts stderr {the evolution from a few-body hard process to a complex multiparticle} + puts stderr {final state.} +} + +conflict pythia8 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/pythia8-8.310/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/pythia8-8.310/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/pythia8-8.310/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/pythia8-8.310/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/pythia8-8.310/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/pythia8-8.310/.} +setenv PYTHIA8_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pythia8-8.310-izwdd4tlglqr6vzrdxledpunfcjjvqb3} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/python-venv/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/python-venv/.modulerc new file mode 100644 index 00000000..82d70ef2 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/python-venv/.modulerc @@ -0,0 +1,5 @@ +#%Module4.7 +module-hide --soft --hidden-loaded python-venv/1.0-6mlwnfu +module-hide --soft --hidden-loaded python-venv/1.0-okrhcwx +module-hide --soft --hidden-loaded python-venv/1.0-ed2nmwx +module-hide --soft --hidden-loaded python-venv/1.0-l4mqvrb diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/python-venv/1.0-6mlwnfu b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/python-venv/1.0-6mlwnfu new file mode 100644 index 00000000..e7cde1e9 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/python-venv/1.0-6mlwnfu @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:56.175450 +## +## python-venv@1.0%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/6mlwnfu +## + + +module-whatis {A Spack managed Python virtual environment} + +proc ModulesHelp { } { + puts stderr {Name : python-venv} + puts stderr {Version: 1.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A Spack managed Python virtual environment} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.13.0-xf4zxxe +} else { + depends-on python/3.13.0-xf4zxxe +} +conflict python-venv + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-venv-1.0-6mlwnfu6lxyeohmp53yw6zvehwfbpvvh/lib64} +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-venv-1.0-6mlwnfu6lxyeohmp53yw6zvehwfbpvvh/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-venv-1.0-6mlwnfu6lxyeohmp53yw6zvehwfbpvvh/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-venv-1.0-6mlwnfu6lxyeohmp53yw6zvehwfbpvvh/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-venv-1.0-6mlwnfu6lxyeohmp53yw6zvehwfbpvvh/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-venv-1.0-6mlwnfu6lxyeohmp53yw6zvehwfbpvvh/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-venv-1.0-6mlwnfu6lxyeohmp53yw6zvehwfbpvvh/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-venv-1.0-6mlwnfu6lxyeohmp53yw6zvehwfbpvvh/lib/python3.13/site-packages} +setenv PYTHON_VENV_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-venv-1.0-6mlwnfu6lxyeohmp53yw6zvehwfbpvvh} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/python-venv/1.0-ed2nmwx b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/python-venv/1.0-ed2nmwx new file mode 100644 index 00000000..90cf09aa --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/python-venv/1.0-ed2nmwx @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:56.223367 +## +## python-venv@1.0%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/ed2nmwx +## + + +module-whatis {A Spack managed Python virtual environment} + +proc ModulesHelp { } { + puts stderr {Name : python-venv} + puts stderr {Version: 1.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A Spack managed Python virtual environment} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9 +} else { + depends-on python/3.11.9 +} +conflict python-venv + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-venv-1.0-ed2nmwx63ntedsv7juh4s7czltxnv5kz/lib64} +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-venv-1.0-ed2nmwx63ntedsv7juh4s7czltxnv5kz/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-venv-1.0-ed2nmwx63ntedsv7juh4s7czltxnv5kz/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-venv-1.0-ed2nmwx63ntedsv7juh4s7czltxnv5kz/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-venv-1.0-ed2nmwx63ntedsv7juh4s7czltxnv5kz/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-venv-1.0-ed2nmwx63ntedsv7juh4s7czltxnv5kz/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-venv-1.0-ed2nmwx63ntedsv7juh4s7czltxnv5kz/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-venv-1.0-ed2nmwx63ntedsv7juh4s7czltxnv5kz/lib/python3.11/site-packages} +setenv PYTHON_VENV_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-venv-1.0-ed2nmwx63ntedsv7juh4s7czltxnv5kz} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/python-venv/1.0-l4mqvrb b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/python-venv/1.0-l4mqvrb new file mode 100644 index 00000000..b9e554f2 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/python-venv/1.0-l4mqvrb @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:56.207218 +## +## python-venv@1.0%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/l4mqvrb +## + + +module-whatis {A Spack managed Python virtual environment} + +proc ModulesHelp { } { + puts stderr {Name : python-venv} + puts stderr {Version: 1.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A Spack managed Python virtual environment} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.8.19-dxx3zxu +} else { + depends-on python/3.8.19-dxx3zxu +} +conflict python-venv + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-venv-1.0-l4mqvrbmjbzffvcagcnyfvlukcvwkoz6/lib64} +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-venv-1.0-l4mqvrbmjbzffvcagcnyfvlukcvwkoz6/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-venv-1.0-l4mqvrbmjbzffvcagcnyfvlukcvwkoz6/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-venv-1.0-l4mqvrbmjbzffvcagcnyfvlukcvwkoz6/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-venv-1.0-l4mqvrbmjbzffvcagcnyfvlukcvwkoz6/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-venv-1.0-l4mqvrbmjbzffvcagcnyfvlukcvwkoz6/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-venv-1.0-l4mqvrbmjbzffvcagcnyfvlukcvwkoz6/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-venv-1.0-l4mqvrbmjbzffvcagcnyfvlukcvwkoz6/lib/python3.8/site-packages} +setenv PYTHON_VENV_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-venv-1.0-l4mqvrbmjbzffvcagcnyfvlukcvwkoz6} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/python-venv/1.0-okrhcwx b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/python-venv/1.0-okrhcwx new file mode 100644 index 00000000..7987ed3a --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/python-venv/1.0-okrhcwx @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:56.191188 +## +## python-venv@1.0%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/okrhcwx +## + + +module-whatis {A Spack managed Python virtual environment} + +proc ModulesHelp { } { + puts stderr {Name : python-venv} + puts stderr {Version: 1.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A Spack managed Python virtual environment} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9-itykk2n +} else { + depends-on python/3.11.9-itykk2n +} +conflict python-venv + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-venv-1.0-okrhcwxjv63mpxqzllqoyswayywbheks/lib64} +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-venv-1.0-okrhcwxjv63mpxqzllqoyswayywbheks/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-venv-1.0-okrhcwxjv63mpxqzllqoyswayywbheks/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-venv-1.0-okrhcwxjv63mpxqzllqoyswayywbheks/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-venv-1.0-okrhcwxjv63mpxqzllqoyswayywbheks/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-venv-1.0-okrhcwxjv63mpxqzllqoyswayywbheks/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-venv-1.0-okrhcwxjv63mpxqzllqoyswayywbheks/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-venv-1.0-okrhcwxjv63mpxqzllqoyswayywbheks/lib/python3.11/site-packages} +setenv PYTHON_VENV_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-venv-1.0-okrhcwxjv63mpxqzllqoyswayywbheks} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/python/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/python/.modulerc new file mode 100644 index 00000000..2150a0bf --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/python/.modulerc @@ -0,0 +1,9 @@ +#%Module4.7 +module-hide --soft --hidden-loaded python/3.11.9-wlce6b7 +module-hide --soft --hidden-loaded python/3.11.9-i64b36b +module-hide --soft --hidden-loaded python/3.11.9-itykk2n +module-hide --soft --hidden-loaded python/3.13.0-67ujzlz +module-hide --soft --hidden-loaded python/3.13.0-xf4zxxe +module-hide --soft --hidden-loaded python/3.13.0-ev3dbxe +module-hide --soft --hidden-loaded python/3.8.19-dxx3zxu +module-hide --soft --hidden-loaded python/3.13.0-cdvxgi4 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/python/3.11.9 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/python/3.11.9 new file mode 100644 index 00000000..7a7117ee --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/python/3.11.9 @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:56.032832 +## +## python@3.11.9%gcc@13.2.0+bz2+crypt+ctypes+dbm~debug+libxml2+lzma~nis~optimizations+pic+pyexpat+pythoncmd+readline+shared+sqlite3+ssl~tkinter+uuid+zlib build_system=generic patches=13fa8bf,b0615b2,ebdca64,f2fd060 arch=linux-ubuntu22.04-x86_64_v3/i64b36b +## +## Configure options: CPPFLAGS=-I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/bzip2-1.0.8-qknztbakgnayrsc4iql53yss5tv4yslr/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/expat-2.6.4-zrieukekssfaket6eoftkam5jh6n2w23/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gcc-runtime-13.2.0-y4ja4trdxkpuyidxmq3vwsmylih2czjs/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gdbm-1.23-2cugdkieyw4a3tx42jdsf2defuvn2xxb/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gettext-0.22.5-rwigy6xo43decqeaw4y2wdvw3phgi6ru/include -I/usr/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libffi-3.4.6-b4gt4pey3o47maqabjqfb5baiuz2a5my/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxcrypt-4.4.35-adkk6fx23wglhmr54zdgysteopagasbp/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/ncurses-6.5-4bsaj3qsakrcn3dbkfanz4t4n2meljzs/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.4.0/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/readline-8.2-npf2hbnhgb32jgedfuudnsbukmgwmln2/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/sqlite-3.46.0-go2y7kloctyd5qsvl6hupdptr5hsukp3/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/util-linux-uuid-2.40.2-ipinsoz7risgjpsvpf4ocxhr3rdey5li/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xz-5.4.6-szk4ytk6wy4nan4q4ep7zhdcoavftlct/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zlib-ng-2.2.1-ci2x2tjfpbdihazwtuwsat2anrc47e6u/include LDFLAGS=-L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/bzip2-1.0.8-qknztbakgnayrsc4iql53yss5tv4yslr/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/expat-2.6.4-zrieukekssfaket6eoftkam5jh6n2w23/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gdbm-1.23-2cugdkieyw4a3tx42jdsf2defuvn2xxb/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gettext-0.22.5-rwigy6xo43decqeaw4y2wdvw3phgi6ru/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libffi-3.4.6-b4gt4pey3o47maqabjqfb5baiuz2a5my/lib64 -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxcrypt-4.4.35-adkk6fx23wglhmr54zdgysteopagasbp/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/ncurses-6.5-4bsaj3qsakrcn3dbkfanz4t4n2meljzs/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.4.0/lib64 -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/readline-8.2-npf2hbnhgb32jgedfuudnsbukmgwmln2/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/sqlite-3.46.0-go2y7kloctyd5qsvl6hupdptr5hsukp3/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/util-linux-uuid-2.40.2-ipinsoz7risgjpsvpf4ocxhr3rdey5li/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xz-5.4.6-szk4ytk6wy4nan4q4ep7zhdcoavftlct/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zlib-ng-2.2.1-ci2x2tjfpbdihazwtuwsat2anrc47e6u/lib --without-pydebug --enable-shared --without-ensurepip --with-openssl=/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.4.0 --with-dbmliborder=gdbm --with-system-expat --with-system-ffi --enable-loadable-sqlite-extensions CFLAGS=-fPIC +## + + +module-whatis {The Python programming language.} + +proc ModulesHelp { } { + puts stderr {Name : python} + puts stderr {Version: 3.11.9} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The Python programming language.} +} + +conflict python + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/python-3.11.9/.} +setenv PYTHON_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.11.9-i64b36bczyoqks4r3uwbdvxfgg6xbt3n} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/python/3.11.9-i64b36b b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/python/3.11.9-i64b36b new file mode 100644 index 00000000..31935b50 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/python/3.11.9-i64b36b @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 13:39:04.646548 +## +## python@3.11.9%gcc@13.2.0+bz2+crypt+ctypes+dbm~debug+libxml2+lzma~nis~optimizations+pic+pyexpat+pythoncmd+readline+shared+sqlite3+ssl~tkinter+uuid+zlib build_system=generic patches=13fa8bf,b0615b2,ebdca64,f2fd060 arch=linux-ubuntu22.04-x86_64_v3/i64b36b +## +## Configure options: CPPFLAGS=-I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/bzip2-1.0.8-qknztbakgnayrsc4iql53yss5tv4yslr/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/expat-2.6.4-zrieukekssfaket6eoftkam5jh6n2w23/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gcc-runtime-13.2.0-y4ja4trdxkpuyidxmq3vwsmylih2czjs/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gdbm-1.23-2cugdkieyw4a3tx42jdsf2defuvn2xxb/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gettext-0.22.5-rwigy6xo43decqeaw4y2wdvw3phgi6ru/include -I/usr/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libffi-3.4.6-b4gt4pey3o47maqabjqfb5baiuz2a5my/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxcrypt-4.4.35-adkk6fx23wglhmr54zdgysteopagasbp/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/ncurses-6.5-4bsaj3qsakrcn3dbkfanz4t4n2meljzs/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.4.0/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/readline-8.2-npf2hbnhgb32jgedfuudnsbukmgwmln2/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/sqlite-3.46.0-go2y7kloctyd5qsvl6hupdptr5hsukp3/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/util-linux-uuid-2.40.2-ipinsoz7risgjpsvpf4ocxhr3rdey5li/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xz-5.4.6-szk4ytk6wy4nan4q4ep7zhdcoavftlct/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zlib-ng-2.2.1-ci2x2tjfpbdihazwtuwsat2anrc47e6u/include LDFLAGS=-L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/bzip2-1.0.8-qknztbakgnayrsc4iql53yss5tv4yslr/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/expat-2.6.4-zrieukekssfaket6eoftkam5jh6n2w23/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gdbm-1.23-2cugdkieyw4a3tx42jdsf2defuvn2xxb/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gettext-0.22.5-rwigy6xo43decqeaw4y2wdvw3phgi6ru/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libffi-3.4.6-b4gt4pey3o47maqabjqfb5baiuz2a5my/lib64 -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxcrypt-4.4.35-adkk6fx23wglhmr54zdgysteopagasbp/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/ncurses-6.5-4bsaj3qsakrcn3dbkfanz4t4n2meljzs/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.4.0/lib64 -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/readline-8.2-npf2hbnhgb32jgedfuudnsbukmgwmln2/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/sqlite-3.46.0-go2y7kloctyd5qsvl6hupdptr5hsukp3/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/util-linux-uuid-2.40.2-ipinsoz7risgjpsvpf4ocxhr3rdey5li/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xz-5.4.6-szk4ytk6wy4nan4q4ep7zhdcoavftlct/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zlib-ng-2.2.1-ci2x2tjfpbdihazwtuwsat2anrc47e6u/lib --without-pydebug --enable-shared --without-ensurepip --with-openssl=/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.4.0 --with-dbmliborder=gdbm --with-system-expat --with-system-ffi --enable-loadable-sqlite-extensions CFLAGS=-fPIC +## + + +module-whatis {The Python programming language.} + +proc ModulesHelp { } { + puts stderr {Name : python} + puts stderr {Version: 3.11.9} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The Python programming language.} +} + +conflict python + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.11.9-i64b36bczyoqks4r3uwbdvxfgg6xbt3n/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.11.9-i64b36bczyoqks4r3uwbdvxfgg6xbt3n/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.11.9-i64b36bczyoqks4r3uwbdvxfgg6xbt3n/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.11.9-i64b36bczyoqks4r3uwbdvxfgg6xbt3n/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.11.9-i64b36bczyoqks4r3uwbdvxfgg6xbt3n/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.11.9-i64b36bczyoqks4r3uwbdvxfgg6xbt3n/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.11.9-i64b36bczyoqks4r3uwbdvxfgg6xbt3n/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.11.9-i64b36bczyoqks4r3uwbdvxfgg6xbt3n/.} +setenv PYTHON_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.11.9-i64b36bczyoqks4r3uwbdvxfgg6xbt3n} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/python/3.11.9-itykk2n b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/python/3.11.9-itykk2n new file mode 100644 index 00000000..ee73c49a --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/python/3.11.9-itykk2n @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:56.066965 +## +## python@3.11.9%gcc@13.2.0+bz2+crypt+ctypes+dbm~debug+libxml2+lzma~nis~optimizations+pic+pyexpat+pythoncmd+readline+shared+sqlite3+ssl~tkinter+uuid+zlib build_system=generic patches=13fa8bf,b0615b2,ebdca64,f2fd060 arch=linux-ubuntu22.04-x86_64_v3/itykk2n +## +## Configure options: CPPFLAGS=-I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/bzip2-1.0.8-qknztbakgnayrsc4iql53yss5tv4yslr/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/expat-2.6.4-zrieukekssfaket6eoftkam5jh6n2w23/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gcc-runtime-13.2.0-vo5ffgytselabaupmqjm6aqrb27hqsdk/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gdbm-1.23-2cugdkieyw4a3tx42jdsf2defuvn2xxb/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gettext-0.22.5-rwigy6xo43decqeaw4y2wdvw3phgi6ru/include -I/usr/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libffi-3.4.6-b4gt4pey3o47maqabjqfb5baiuz2a5my/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxcrypt-4.4.35-yjmurvgfmpmhmmng7uzmnai5omtnfnj5/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/ncurses-6.5-4bsaj3qsakrcn3dbkfanz4t4n2meljzs/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.2.3/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/readline-8.2-npf2hbnhgb32jgedfuudnsbukmgwmln2/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/sqlite-3.46.0-go2y7kloctyd5qsvl6hupdptr5hsukp3/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/util-linux-uuid-2.40.2-ipinsoz7risgjpsvpf4ocxhr3rdey5li/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xz-5.4.6-szk4ytk6wy4nan4q4ep7zhdcoavftlct/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zlib-ng-2.2.1-ci2x2tjfpbdihazwtuwsat2anrc47e6u/include LDFLAGS=-L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/bzip2-1.0.8-qknztbakgnayrsc4iql53yss5tv4yslr/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/expat-2.6.4-zrieukekssfaket6eoftkam5jh6n2w23/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gdbm-1.23-2cugdkieyw4a3tx42jdsf2defuvn2xxb/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gettext-0.22.5-rwigy6xo43decqeaw4y2wdvw3phgi6ru/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libffi-3.4.6-b4gt4pey3o47maqabjqfb5baiuz2a5my/lib64 -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxcrypt-4.4.35-yjmurvgfmpmhmmng7uzmnai5omtnfnj5/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/ncurses-6.5-4bsaj3qsakrcn3dbkfanz4t4n2meljzs/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.2.3/lib64 -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/readline-8.2-npf2hbnhgb32jgedfuudnsbukmgwmln2/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/sqlite-3.46.0-go2y7kloctyd5qsvl6hupdptr5hsukp3/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/util-linux-uuid-2.40.2-ipinsoz7risgjpsvpf4ocxhr3rdey5li/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xz-5.4.6-szk4ytk6wy4nan4q4ep7zhdcoavftlct/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zlib-ng-2.2.1-ci2x2tjfpbdihazwtuwsat2anrc47e6u/lib --without-pydebug --enable-shared --without-ensurepip --with-openssl=/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.2.3 --with-dbmliborder=gdbm --with-system-expat --with-system-ffi --enable-loadable-sqlite-extensions CFLAGS=-fPIC +## + + +module-whatis {The Python programming language.} + +proc ModulesHelp { } { + puts stderr {Name : python} + puts stderr {Version: 3.11.9} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The Python programming language.} +} + +conflict python + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.11.9-itykk2ne5o3diuunjuvmtzx35qfjt55p/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.11.9-itykk2ne5o3diuunjuvmtzx35qfjt55p/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.11.9-itykk2ne5o3diuunjuvmtzx35qfjt55p/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.11.9-itykk2ne5o3diuunjuvmtzx35qfjt55p/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.11.9-itykk2ne5o3diuunjuvmtzx35qfjt55p/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.11.9-itykk2ne5o3diuunjuvmtzx35qfjt55p/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.11.9-itykk2ne5o3diuunjuvmtzx35qfjt55p/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.11.9-itykk2ne5o3diuunjuvmtzx35qfjt55p/.} +setenv PYTHON_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.11.9-itykk2ne5o3diuunjuvmtzx35qfjt55p} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/python/3.11.9-wlce6b7 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/python/3.11.9-wlce6b7 new file mode 100644 index 00000000..f1fdf7b3 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/python/3.11.9-wlce6b7 @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:56.016566 +## +## python@3.11.9%gcc@13.2.0+bz2+crypt+ctypes+dbm~debug+libxml2+lzma~nis~optimizations+pic+pyexpat+pythoncmd+readline+shared+sqlite3+ssl~tkinter+uuid+zlib build_system=generic patches=13fa8bf,b0615b2,ebdca64,f2fd060 arch=linux-ubuntu22.04-x86_64_v3/wlce6b7 +## +## Configure options: CPPFLAGS=-I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/bzip2-1.0.8-qknztbakgnayrsc4iql53yss5tv4yslr/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/expat-2.6.4-zrieukekssfaket6eoftkam5jh6n2w23/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gcc-runtime-13.2.0-y4ja4trdxkpuyidxmq3vwsmylih2czjs/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gdbm-1.23-2cugdkieyw4a3tx42jdsf2defuvn2xxb/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gettext-0.22.5-rwigy6xo43decqeaw4y2wdvw3phgi6ru/include -I/usr/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libffi-3.4.6-b4gt4pey3o47maqabjqfb5baiuz2a5my/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxcrypt-4.4.35-adkk6fx23wglhmr54zdgysteopagasbp/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/ncurses-6.5-4bsaj3qsakrcn3dbkfanz4t4n2meljzs/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-1.1.1w/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/readline-8.2-npf2hbnhgb32jgedfuudnsbukmgwmln2/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/sqlite-3.46.0-go2y7kloctyd5qsvl6hupdptr5hsukp3/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/util-linux-uuid-2.40.2-ipinsoz7risgjpsvpf4ocxhr3rdey5li/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xz-5.4.6-szk4ytk6wy4nan4q4ep7zhdcoavftlct/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zlib-ng-2.2.1-ci2x2tjfpbdihazwtuwsat2anrc47e6u/include LDFLAGS=-L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/bzip2-1.0.8-qknztbakgnayrsc4iql53yss5tv4yslr/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/expat-2.6.4-zrieukekssfaket6eoftkam5jh6n2w23/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gdbm-1.23-2cugdkieyw4a3tx42jdsf2defuvn2xxb/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gettext-0.22.5-rwigy6xo43decqeaw4y2wdvw3phgi6ru/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libffi-3.4.6-b4gt4pey3o47maqabjqfb5baiuz2a5my/lib64 -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxcrypt-4.4.35-adkk6fx23wglhmr54zdgysteopagasbp/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/ncurses-6.5-4bsaj3qsakrcn3dbkfanz4t4n2meljzs/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-1.1.1w/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/readline-8.2-npf2hbnhgb32jgedfuudnsbukmgwmln2/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/sqlite-3.46.0-go2y7kloctyd5qsvl6hupdptr5hsukp3/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/util-linux-uuid-2.40.2-ipinsoz7risgjpsvpf4ocxhr3rdey5li/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xz-5.4.6-szk4ytk6wy4nan4q4ep7zhdcoavftlct/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zlib-ng-2.2.1-ci2x2tjfpbdihazwtuwsat2anrc47e6u/lib --without-pydebug --enable-shared --without-ensurepip --with-openssl=/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-1.1.1w --with-dbmliborder=gdbm --with-system-expat --with-system-ffi --enable-loadable-sqlite-extensions CFLAGS=-fPIC +## + + +module-whatis {The Python programming language.} + +proc ModulesHelp { } { + puts stderr {Name : python} + puts stderr {Version: 3.11.9} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The Python programming language.} +} + +conflict python + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.11.9-wlce6b7jcdbqpur7mn77yzjb6nto2ami/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.11.9-wlce6b7jcdbqpur7mn77yzjb6nto2ami/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.11.9-wlce6b7jcdbqpur7mn77yzjb6nto2ami/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.11.9-wlce6b7jcdbqpur7mn77yzjb6nto2ami/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.11.9-wlce6b7jcdbqpur7mn77yzjb6nto2ami/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.11.9-wlce6b7jcdbqpur7mn77yzjb6nto2ami/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.11.9-wlce6b7jcdbqpur7mn77yzjb6nto2ami/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.11.9-wlce6b7jcdbqpur7mn77yzjb6nto2ami/.} +setenv PYTHON_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.11.9-wlce6b7jcdbqpur7mn77yzjb6nto2ami} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/python/3.13.0-67ujzlz b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/python/3.13.0-67ujzlz new file mode 100644 index 00000000..ba484408 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/python/3.13.0-67ujzlz @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:56.128933 +## +## python@3.13.0%gcc@13.2.0+bz2+ctypes+dbm~debug+libxml2+lzma~nis~optimizations+pic+pyexpat+pythoncmd+readline+shared+sqlite3+ssl~tkinter+uuid+zlib build_system=generic arch=linux-ubuntu22.04-x86_64_v3/67ujzlz +## +## Configure options: CPPFLAGS=-I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/bzip2-1.0.8-qknztbakgnayrsc4iql53yss5tv4yslr/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/expat-2.6.4-zrieukekssfaket6eoftkam5jh6n2w23/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gcc-runtime-13.2.0-y4ja4trdxkpuyidxmq3vwsmylih2czjs/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gdbm-1.24-35d2c4n7bb3h4mvlrzayio5mb6w55brf/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gettext-0.22.5-rwigy6xo43decqeaw4y2wdvw3phgi6ru/include -I/usr/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libffi-3.4.6-b4gt4pey3o47maqabjqfb5baiuz2a5my/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/ncurses-6.5-4bsaj3qsakrcn3dbkfanz4t4n2meljzs/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.4.0/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/readline-8.2-npf2hbnhgb32jgedfuudnsbukmgwmln2/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/sqlite-3.46.0-go2y7kloctyd5qsvl6hupdptr5hsukp3/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/util-linux-uuid-2.40.2-ipinsoz7risgjpsvpf4ocxhr3rdey5li/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xz-5.4.6-szk4ytk6wy4nan4q4ep7zhdcoavftlct/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zlib-ng-2.2.1-ci2x2tjfpbdihazwtuwsat2anrc47e6u/include LDFLAGS=-L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/bzip2-1.0.8-qknztbakgnayrsc4iql53yss5tv4yslr/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/expat-2.6.4-zrieukekssfaket6eoftkam5jh6n2w23/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gdbm-1.24-35d2c4n7bb3h4mvlrzayio5mb6w55brf/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gettext-0.22.5-rwigy6xo43decqeaw4y2wdvw3phgi6ru/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libffi-3.4.6-b4gt4pey3o47maqabjqfb5baiuz2a5my/lib64 -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/ncurses-6.5-4bsaj3qsakrcn3dbkfanz4t4n2meljzs/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.4.0/lib64 -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/readline-8.2-npf2hbnhgb32jgedfuudnsbukmgwmln2/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/sqlite-3.46.0-go2y7kloctyd5qsvl6hupdptr5hsukp3/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/util-linux-uuid-2.40.2-ipinsoz7risgjpsvpf4ocxhr3rdey5li/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xz-5.4.6-szk4ytk6wy4nan4q4ep7zhdcoavftlct/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zlib-ng-2.2.1-ci2x2tjfpbdihazwtuwsat2anrc47e6u/lib --without-pydebug --enable-shared --without-ensurepip --with-openssl=/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.4.0 --with-dbmliborder=gdbm --with-system-expat --enable-loadable-sqlite-extensions CFLAGS=-fPIC +## + + +module-whatis {The Python programming language.} + +proc ModulesHelp { } { + puts stderr {Name : python} + puts stderr {Version: 3.13.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The Python programming language.} +} + +conflict python + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.13.0-67ujzlzq64rzoygyow4xsgy4krq75bks/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.13.0-67ujzlzq64rzoygyow4xsgy4krq75bks/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.13.0-67ujzlzq64rzoygyow4xsgy4krq75bks/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.13.0-67ujzlzq64rzoygyow4xsgy4krq75bks/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.13.0-67ujzlzq64rzoygyow4xsgy4krq75bks/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.13.0-67ujzlzq64rzoygyow4xsgy4krq75bks/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.13.0-67ujzlzq64rzoygyow4xsgy4krq75bks/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.13.0-67ujzlzq64rzoygyow4xsgy4krq75bks/.} +setenv PYTHON_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.13.0-67ujzlzq64rzoygyow4xsgy4krq75bks} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/python/3.13.0-cdvxgi4 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/python/3.13.0-cdvxgi4 new file mode 100644 index 00000000..69884f42 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/python/3.13.0-cdvxgi4 @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:56.114928 +## +## python@3.13.0%gcc@7.5.0+bz2+ctypes+dbm~debug+libxml2+lzma~nis~optimizations+pic+pyexpat+pythoncmd+readline+shared+sqlite3+ssl~tkinter+uuid+zlib build_system=generic arch=linux-ubuntu22.04-x86_64_v3/cdvxgi4 +## +## Configure options: CPPFLAGS=-I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/bzip2-1.0.8-vgm6cfwk2ynkxdutptxddhik5syqzoqk/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/expat-2.6.4-dkfj5slnwosbrhrz7uuxf7iitlenvuda/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/gcc-runtime-7.5.0-af2jk6hkvq6mgi33pe4szgsamlivkb6x/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/gdbm-1.24-mj6gey4c67kemgwcveb7bg77utshk675/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/gettext-0.22.5-gdewofhhvusryzxmjbyckfcnhskf4zzj/include -I/usr/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/libffi-3.4.6-uwa3bcijsnblbhytwtprqxn7m7jhykce/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/ncurses-6.5-khahbv4vwhtfrgl6cg2zodxgg6eggrbv/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.4.0/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/readline-8.2-3pxlh6m6meroydistmy7eygka25g5hk2/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/sqlite-3.46.0-6waswml6yqlghm4itzbsqon63x2cycvp/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/util-linux-uuid-2.40.2-otzhfpvbzlokpfvcbkgejxhn2x5dszp2/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/xz-5.4.6-2h4py3l5ynpwunvim6rsujz6rftq3zqx/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/zlib-ng-2.2.1-xc6bedml5mamyuogenqxaddzhno6q3zl/include LDFLAGS=-L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/bzip2-1.0.8-vgm6cfwk2ynkxdutptxddhik5syqzoqk/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/expat-2.6.4-dkfj5slnwosbrhrz7uuxf7iitlenvuda/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/gdbm-1.24-mj6gey4c67kemgwcveb7bg77utshk675/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/gettext-0.22.5-gdewofhhvusryzxmjbyckfcnhskf4zzj/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/libffi-3.4.6-uwa3bcijsnblbhytwtprqxn7m7jhykce/lib64 -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/ncurses-6.5-khahbv4vwhtfrgl6cg2zodxgg6eggrbv/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.4.0/lib64 -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/readline-8.2-3pxlh6m6meroydistmy7eygka25g5hk2/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/sqlite-3.46.0-6waswml6yqlghm4itzbsqon63x2cycvp/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/util-linux-uuid-2.40.2-otzhfpvbzlokpfvcbkgejxhn2x5dszp2/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/xz-5.4.6-2h4py3l5ynpwunvim6rsujz6rftq3zqx/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/zlib-ng-2.2.1-xc6bedml5mamyuogenqxaddzhno6q3zl/lib --without-pydebug --enable-shared --without-ensurepip --with-openssl=/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.4.0 --with-dbmliborder=gdbm --with-system-expat --enable-loadable-sqlite-extensions CFLAGS=-fPIC +## + + +module-whatis {The Python programming language.} + +proc ModulesHelp { } { + puts stderr {Name : python} + puts stderr {Version: 3.13.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The Python programming language.} +} + +conflict python + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/python-3.13.0-cdvxgi4v4zolfe5ybwqnuoz45h6klghh/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/python-3.13.0-cdvxgi4v4zolfe5ybwqnuoz45h6klghh/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/python-3.13.0-cdvxgi4v4zolfe5ybwqnuoz45h6klghh/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/python-3.13.0-cdvxgi4v4zolfe5ybwqnuoz45h6klghh/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/python-3.13.0-cdvxgi4v4zolfe5ybwqnuoz45h6klghh/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/python-3.13.0-cdvxgi4v4zolfe5ybwqnuoz45h6klghh/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/python-3.13.0-cdvxgi4v4zolfe5ybwqnuoz45h6klghh/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/python-3.13.0-cdvxgi4v4zolfe5ybwqnuoz45h6klghh/.} +setenv PYTHON_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/python-3.13.0-cdvxgi4v4zolfe5ybwqnuoz45h6klghh} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/python/3.13.0-ev3dbxe b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/python/3.13.0-ev3dbxe new file mode 100644 index 00000000..e87db296 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/python/3.13.0-ev3dbxe @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:56.160264 +## +## python@3.13.0%gcc@13.2.0+bz2+ctypes+dbm~debug+libxml2+lzma~nis~optimizations+pic+pyexpat+pythoncmd+readline+shared+sqlite3+ssl~tkinter+uuid+zlib build_system=generic arch=linux-ubuntu22.04-x86_64_v3/ev3dbxe +## +## Configure options: CPPFLAGS=-I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/bzip2-1.0.8-qknztbakgnayrsc4iql53yss5tv4yslr/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/expat-2.6.4-zrieukekssfaket6eoftkam5jh6n2w23/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gcc-runtime-13.2.0-y4ja4trdxkpuyidxmq3vwsmylih2czjs/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gdbm-1.23-2cugdkieyw4a3tx42jdsf2defuvn2xxb/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gettext-0.22.5-hensnaykxxlmiwo7x62bjgpvj5yutmkm/include -I/usr/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libffi-3.4.6-b4gt4pey3o47maqabjqfb5baiuz2a5my/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/ncurses-6.5-4bsaj3qsakrcn3dbkfanz4t4n2meljzs/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.4.0/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/readline-8.2-npf2hbnhgb32jgedfuudnsbukmgwmln2/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/sqlite-3.46.0-pqnanfgvatmuxqe66tvfwlubzpoq6fww/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/util-linux-uuid-2.40.2-ipinsoz7risgjpsvpf4ocxhr3rdey5li/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xz-5.4.6-szk4ytk6wy4nan4q4ep7zhdcoavftlct/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zlib-1.3.1-3zms6n7vboobgjug2zpjyu7niasebcuu/include LDFLAGS=-L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/bzip2-1.0.8-qknztbakgnayrsc4iql53yss5tv4yslr/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/expat-2.6.4-zrieukekssfaket6eoftkam5jh6n2w23/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gdbm-1.23-2cugdkieyw4a3tx42jdsf2defuvn2xxb/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gettext-0.22.5-hensnaykxxlmiwo7x62bjgpvj5yutmkm/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libffi-3.4.6-b4gt4pey3o47maqabjqfb5baiuz2a5my/lib64 -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/ncurses-6.5-4bsaj3qsakrcn3dbkfanz4t4n2meljzs/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.4.0/lib64 -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/readline-8.2-npf2hbnhgb32jgedfuudnsbukmgwmln2/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/sqlite-3.46.0-pqnanfgvatmuxqe66tvfwlubzpoq6fww/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/util-linux-uuid-2.40.2-ipinsoz7risgjpsvpf4ocxhr3rdey5li/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xz-5.4.6-szk4ytk6wy4nan4q4ep7zhdcoavftlct/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zlib-1.3.1-3zms6n7vboobgjug2zpjyu7niasebcuu/lib --without-pydebug --enable-shared --without-ensurepip --with-openssl=/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.4.0 --with-dbmliborder=gdbm --with-system-expat --enable-loadable-sqlite-extensions CFLAGS=-fPIC +## + + +module-whatis {The Python programming language.} + +proc ModulesHelp { } { + puts stderr {Name : python} + puts stderr {Version: 3.13.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The Python programming language.} +} + +conflict python + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.13.0-ev3dbxedp45yyrqka736zsqwlxlxns2g/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.13.0-ev3dbxedp45yyrqka736zsqwlxlxns2g/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.13.0-ev3dbxedp45yyrqka736zsqwlxlxns2g/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.13.0-ev3dbxedp45yyrqka736zsqwlxlxns2g/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.13.0-ev3dbxedp45yyrqka736zsqwlxlxns2g/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.13.0-ev3dbxedp45yyrqka736zsqwlxlxns2g/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.13.0-ev3dbxedp45yyrqka736zsqwlxlxns2g/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.13.0-ev3dbxedp45yyrqka736zsqwlxlxns2g/.} +setenv PYTHON_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.13.0-ev3dbxedp45yyrqka736zsqwlxlxns2g} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/python/3.13.0-xf4zxxe b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/python/3.13.0-xf4zxxe new file mode 100644 index 00000000..0ee269ab --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/python/3.13.0-xf4zxxe @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:56.144789 +## +## python@3.13.0%gcc@13.2.0+bz2+ctypes+dbm~debug+libxml2+lzma~nis~optimizations+pic+pyexpat+pythoncmd+readline+shared+sqlite3+ssl~tkinter+uuid+zlib build_system=generic arch=linux-ubuntu22.04-x86_64_v3/xf4zxxe +## +## Configure options: CPPFLAGS=-I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/bzip2-1.0.8-qknztbakgnayrsc4iql53yss5tv4yslr/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/expat-2.6.4-zrieukekssfaket6eoftkam5jh6n2w23/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gcc-runtime-13.2.0-y4ja4trdxkpuyidxmq3vwsmylih2czjs/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gdbm-1.23-2cugdkieyw4a3tx42jdsf2defuvn2xxb/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gettext-0.22.5-rwigy6xo43decqeaw4y2wdvw3phgi6ru/include -I/usr/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libffi-3.4.6-b4gt4pey3o47maqabjqfb5baiuz2a5my/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/ncurses-6.5-4bsaj3qsakrcn3dbkfanz4t4n2meljzs/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.4.0/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/readline-8.2-npf2hbnhgb32jgedfuudnsbukmgwmln2/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/sqlite-3.46.0-go2y7kloctyd5qsvl6hupdptr5hsukp3/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/util-linux-uuid-2.40.2-ipinsoz7risgjpsvpf4ocxhr3rdey5li/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xz-5.4.6-szk4ytk6wy4nan4q4ep7zhdcoavftlct/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zlib-ng-2.2.1-ci2x2tjfpbdihazwtuwsat2anrc47e6u/include LDFLAGS=-L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/bzip2-1.0.8-qknztbakgnayrsc4iql53yss5tv4yslr/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/expat-2.6.4-zrieukekssfaket6eoftkam5jh6n2w23/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gdbm-1.23-2cugdkieyw4a3tx42jdsf2defuvn2xxb/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gettext-0.22.5-rwigy6xo43decqeaw4y2wdvw3phgi6ru/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libffi-3.4.6-b4gt4pey3o47maqabjqfb5baiuz2a5my/lib64 -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/ncurses-6.5-4bsaj3qsakrcn3dbkfanz4t4n2meljzs/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.4.0/lib64 -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/readline-8.2-npf2hbnhgb32jgedfuudnsbukmgwmln2/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/sqlite-3.46.0-go2y7kloctyd5qsvl6hupdptr5hsukp3/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/util-linux-uuid-2.40.2-ipinsoz7risgjpsvpf4ocxhr3rdey5li/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xz-5.4.6-szk4ytk6wy4nan4q4ep7zhdcoavftlct/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zlib-ng-2.2.1-ci2x2tjfpbdihazwtuwsat2anrc47e6u/lib --without-pydebug --enable-shared --without-ensurepip --with-openssl=/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.4.0 --with-dbmliborder=gdbm --with-system-expat --enable-loadable-sqlite-extensions CFLAGS=-fPIC +## + + +module-whatis {The Python programming language.} + +proc ModulesHelp { } { + puts stderr {Name : python} + puts stderr {Version: 3.13.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The Python programming language.} +} + +conflict python + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.13.0-xf4zxxehbju3guxomp4iri3t36hkjjzo/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.13.0-xf4zxxehbju3guxomp4iri3t36hkjjzo/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.13.0-xf4zxxehbju3guxomp4iri3t36hkjjzo/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.13.0-xf4zxxehbju3guxomp4iri3t36hkjjzo/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.13.0-xf4zxxehbju3guxomp4iri3t36hkjjzo/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.13.0-xf4zxxehbju3guxomp4iri3t36hkjjzo/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.13.0-xf4zxxehbju3guxomp4iri3t36hkjjzo/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.13.0-xf4zxxehbju3guxomp4iri3t36hkjjzo/.} +setenv PYTHON_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.13.0-xf4zxxehbju3guxomp4iri3t36hkjjzo} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/python/3.8.19-dxx3zxu b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/python/3.8.19-dxx3zxu new file mode 100644 index 00000000..5606bcfc --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/python/3.8.19-dxx3zxu @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:56.000513 +## +## python@3.8.19%gcc@13.2.0+bz2+crypt+ctypes+dbm~debug+libxml2+lzma~nis~optimizations+pic+pyexpat+pythoncmd+readline+shared+sqlite3+ssl~tkinter+uuid+zlib build_system=generic patches=0d98e93,4c24573,ebdca64,f2fd060 arch=linux-ubuntu22.04-x86_64_v3/dxx3zxu +## +## Configure options: CPPFLAGS=-I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/bzip2-1.0.8-qknztbakgnayrsc4iql53yss5tv4yslr/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/expat-2.6.4-zrieukekssfaket6eoftkam5jh6n2w23/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gcc-runtime-13.2.0-y4ja4trdxkpuyidxmq3vwsmylih2czjs/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gdbm-1.24-35d2c4n7bb3h4mvlrzayio5mb6w55brf/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gettext-0.22.5-hensnaykxxlmiwo7x62bjgpvj5yutmkm/include -I/usr/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libffi-3.4.6-b4gt4pey3o47maqabjqfb5baiuz2a5my/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxcrypt-4.4.35-yjmurvgfmpmhmmng7uzmnai5omtnfnj5/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/ncurses-6.5-4bsaj3qsakrcn3dbkfanz4t4n2meljzs/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.4.0/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/readline-8.2-npf2hbnhgb32jgedfuudnsbukmgwmln2/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/sqlite-3.46.0-pqnanfgvatmuxqe66tvfwlubzpoq6fww/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/util-linux-uuid-2.40.2-ipinsoz7risgjpsvpf4ocxhr3rdey5li/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xz-5.4.6-szk4ytk6wy4nan4q4ep7zhdcoavftlct/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zlib-1.3.1-3zms6n7vboobgjug2zpjyu7niasebcuu/include LDFLAGS=-L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/bzip2-1.0.8-qknztbakgnayrsc4iql53yss5tv4yslr/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/expat-2.6.4-zrieukekssfaket6eoftkam5jh6n2w23/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gdbm-1.24-35d2c4n7bb3h4mvlrzayio5mb6w55brf/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gettext-0.22.5-hensnaykxxlmiwo7x62bjgpvj5yutmkm/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libffi-3.4.6-b4gt4pey3o47maqabjqfb5baiuz2a5my/lib64 -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libxcrypt-4.4.35-yjmurvgfmpmhmmng7uzmnai5omtnfnj5/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/ncurses-6.5-4bsaj3qsakrcn3dbkfanz4t4n2meljzs/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.4.0/lib64 -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/readline-8.2-npf2hbnhgb32jgedfuudnsbukmgwmln2/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/sqlite-3.46.0-pqnanfgvatmuxqe66tvfwlubzpoq6fww/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/util-linux-uuid-2.40.2-ipinsoz7risgjpsvpf4ocxhr3rdey5li/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xz-5.4.6-szk4ytk6wy4nan4q4ep7zhdcoavftlct/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zlib-1.3.1-3zms6n7vboobgjug2zpjyu7niasebcuu/lib --without-pydebug --enable-shared --without-ensurepip --with-openssl=/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/openssl-3.4.0 --with-dbmliborder=gdbm --with-system-expat --with-system-ffi --enable-loadable-sqlite-extensions CFLAGS=-fPIC +## + + +module-whatis {The Python programming language.} + +proc ModulesHelp { } { + puts stderr {Name : python} + puts stderr {Version: 3.8.19} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The Python programming language.} +} + +conflict python + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.8.19-dxx3zxuu7rurgfw6awjdlkov6t7qjzgc/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.8.19-dxx3zxuu7rurgfw6awjdlkov6t7qjzgc/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.8.19-dxx3zxuu7rurgfw6awjdlkov6t7qjzgc/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.8.19-dxx3zxuu7rurgfw6awjdlkov6t7qjzgc/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.8.19-dxx3zxuu7rurgfw6awjdlkov6t7qjzgc/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.8.19-dxx3zxuu7rurgfw6awjdlkov6t7qjzgc/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.8.19-dxx3zxuu7rurgfw6awjdlkov6t7qjzgc/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.8.19-dxx3zxuu7rurgfw6awjdlkov6t7qjzgc/.} +setenv PYTHON_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/python-3.8.19-dxx3zxuu7rurgfw6awjdlkov6t7qjzgc} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/qhull/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/qhull/.modulerc new file mode 100644 index 00000000..1835d349 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/qhull/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded qhull/2020.2-vc4fjj2 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/qhull/2020.2-vc4fjj2 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/qhull/2020.2-vc4fjj2 new file mode 100644 index 00000000..bf6d5a45 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/qhull/2020.2-vc4fjj2 @@ -0,0 +1,75 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:56.270505 +## +## qhull@2020.2%gcc@13.2.0~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/vc4fjj2 +## + + +module-whatis {Qhull computes the convex hull, Delaunay triangulation, Voronoi diagram, halfspace intersection about a point, furt hest-site Delaunay triangulation, and furthest-site Voronoi diagram. The source code runs in 2-d, 3-d, 4-d, and higher dimensions. Qhull implements the Quickhull algorithm for computing the convex hull. It handles roundoff errors from floating point arithmetic. It computes volumes, surface areas, and approximations to the convex hull.} + +proc ModulesHelp { } { + puts stderr {Name : qhull} + puts stderr {Version: 2020.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Qhull computes the convex hull, Delaunay triangulation, Voronoi diagram,} + puts stderr {halfspace intersection about a point, furt hest-site Delaunay} + puts stderr {triangulation, and furthest-site Voronoi diagram. The source code runs} + puts stderr {in 2-d, 3-d, 4-d, and higher dimensions. Qhull implements the Quickhull} + puts stderr {algorithm for computing the convex hull. It handles roundoff errors from} + puts stderr {floating point arithmetic. It computes volumes, surface areas, and} + puts stderr {approximations to the convex hull.} +} + +conflict qhull + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/qhull-2020.2-vc4fjj2a5ukm6d56k4kfw3bdnm4vjn3i/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/qhull-2020.2-vc4fjj2a5ukm6d56k4kfw3bdnm4vjn3i/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/qhull-2020.2-vc4fjj2a5ukm6d56k4kfw3bdnm4vjn3i/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/qhull-2020.2-vc4fjj2a5ukm6d56k4kfw3bdnm4vjn3i/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/qhull-2020.2-vc4fjj2a5ukm6d56k4kfw3bdnm4vjn3i/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/qhull-2020.2-vc4fjj2a5ukm6d56k4kfw3bdnm4vjn3i/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/qhull-2020.2-vc4fjj2a5ukm6d56k4kfw3bdnm4vjn3i/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/qhull-2020.2-vc4fjj2a5ukm6d56k4kfw3bdnm4vjn3i/.} +setenv QHULL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/qhull-2020.2-vc4fjj2a5ukm6d56k4kfw3bdnm4vjn3i} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/qt/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/qt/.modulerc new file mode 100644 index 00000000..d8f00ebb --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/qt/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded qt/5.15.15-yowy5va +module-hide --soft --hidden-loaded qt/5.15.15-vkv6ax7 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/qt/5.15.15-vkv6ax7 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/qt/5.15.15-vkv6ax7 new file mode 100644 index 00000000..580ec615 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/qt/5.15.15-vkv6ax7 @@ -0,0 +1,79 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2024-12-19 13:37:49.826001 +## +## qt@5.15.15%gcc@13.2.0~dbus~debug~doc~examples~framework~gtk+gui~location~opengl~phonon+shared+sql+ssl+tools~webkit build_system=generic patches=2081e9c,51aeba5,75bcb42,78c70fb,7f34d48,84b0991,9378afd arch=linux-ubuntu22.04-x86_64_v3/vkv6ax7 +## + + +module-whatis {Qt is a comprehensive cross-platform C++ application framework.} + +proc ModulesHelp { } { + puts stderr {Name : qt} + puts stderr {Version: 5.15.15} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Qt is a comprehensive cross-platform C++ application framework.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load sqlite/3.46.0-go2y7kl +} else { + depends-on sqlite/3.46.0-go2y7kl +} +conflict qt + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/qt-5.15.15-vkv6ax7kk2cscf6in26siekogah4l47t/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/qt-5.15.15-vkv6ax7kk2cscf6in26siekogah4l47t/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/qt-5.15.15-vkv6ax7kk2cscf6in26siekogah4l47t/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/qt-5.15.15-vkv6ax7kk2cscf6in26siekogah4l47t/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/qt-5.15.15-vkv6ax7kk2cscf6in26siekogah4l47t/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/qt-5.15.15-vkv6ax7kk2cscf6in26siekogah4l47t/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/qt-5.15.15-vkv6ax7kk2cscf6in26siekogah4l47t/.} +prepend-path XDG_DATA_DIRS {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/harfbuzz-10.0.1-hxxbdd2vjzbz4xxxvgyisshnkwx32hgq/share} +prepend-path GI_TYPELIB_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/harfbuzz-10.0.1-hxxbdd2vjzbz4xxxvgyisshnkwx32hgq/lib/girepository-1.0} +prepend-path XLOCALEDIR {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libx11-1.8.10-dufv2eokil27hgb3ao7tuotsswt65llr/share/X11/locale} +setenv QTDIR {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/qt-5.15.15-vkv6ax7kk2cscf6in26siekogah4l47t} +setenv QTINC {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/qt-5.15.15-vkv6ax7kk2cscf6in26siekogah4l47t/inc} +setenv QTLIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/qt-5.15.15-vkv6ax7kk2cscf6in26siekogah4l47t/lib} +prepend-path QT_PLUGIN_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/qt-5.15.15-vkv6ax7kk2cscf6in26siekogah4l47t/plugins} +setenv QT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/qt-5.15.15-vkv6ax7kk2cscf6in26siekogah4l47t} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/qt/5.15.15-yowy5va b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/qt/5.15.15-yowy5va new file mode 100644 index 00000000..6e5124cc --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/qt/5.15.15-yowy5va @@ -0,0 +1,79 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:56.278974 +## +## qt@5.15.15%gcc@13.2.0~dbus~debug~doc~examples~framework~gtk+gui~location~opengl~phonon+shared+sql+ssl+tools~webkit build_system=generic patches=2081e9c,51aeba5,75bcb42,78c70fb,7f34d48,84b0991,9378afd arch=linux-ubuntu22.04-x86_64_v3/yowy5va +## + + +module-whatis {Qt is a comprehensive cross-platform C++ application framework.} + +proc ModulesHelp { } { + puts stderr {Name : qt} + puts stderr {Version: 5.15.15} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Qt is a comprehensive cross-platform C++ application framework.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load sqlite/3.46.0-go2y7kl +} else { + depends-on sqlite/3.46.0-go2y7kl +} +conflict qt + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/qt-5.15.15-yowy5vap5i5wj6ew5fck2gk3vzoekliw/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/qt-5.15.15-yowy5vap5i5wj6ew5fck2gk3vzoekliw/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/qt-5.15.15-yowy5vap5i5wj6ew5fck2gk3vzoekliw/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/qt-5.15.15-yowy5vap5i5wj6ew5fck2gk3vzoekliw/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/qt-5.15.15-yowy5vap5i5wj6ew5fck2gk3vzoekliw/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/qt-5.15.15-yowy5vap5i5wj6ew5fck2gk3vzoekliw/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/qt-5.15.15-yowy5vap5i5wj6ew5fck2gk3vzoekliw/.} +prepend-path XDG_DATA_DIRS {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/harfbuzz-10.0.1-mw3t2yjersa5j5ylqrqqhnbypdddmh5k/share} +prepend-path GI_TYPELIB_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/harfbuzz-10.0.1-mw3t2yjersa5j5ylqrqqhnbypdddmh5k/lib/girepository-1.0} +prepend-path XLOCALEDIR {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libx11-1.8.10-dufv2eokil27hgb3ao7tuotsswt65llr/share/X11/locale} +setenv QTDIR {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/qt-5.15.15-yowy5vap5i5wj6ew5fck2gk3vzoekliw} +setenv QTINC {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/qt-5.15.15-yowy5vap5i5wj6ew5fck2gk3vzoekliw/inc} +setenv QTLIB {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/qt-5.15.15-yowy5vap5i5wj6ew5fck2gk3vzoekliw/lib} +prepend-path QT_PLUGIN_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/qt-5.15.15-yowy5vap5i5wj6ew5fck2gk3vzoekliw/plugins} +setenv QT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/qt-5.15.15-yowy5vap5i5wj6ew5fck2gk3vzoekliw} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/qualimap/2.3 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/qualimap/2.3 new file mode 100644 index 00000000..14ad6e1a --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/qualimap/2.3 @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:56.314364 +## +## qualimap@2.3%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/i2yglmw +## + + +module-whatis {Qualimap 2 is a platform-independent application written in Java and R that provides both a Graphical User Inteface (GUI) and a command-line interface to facilitate the quality control of alignment sequencing data and its derivatives like feature counts.} + +proc ModulesHelp { } { + puts stderr {Name : qualimap} + puts stderr {Version: 2.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Qualimap 2 is a platform-independent application written in Java and R} + puts stderr {that provides both a Graphical User Inteface (GUI) and a command-line} + puts stderr {interface to facilitate the quality control of alignment sequencing data} + puts stderr {and its derivatives like feature counts.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load openjdk/17.0.11_9 +} else { + depends-on openjdk/17.0.11_9 +} +conflict qualimap + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/qualimap-2.3/lib} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/qualimap-2.3/.} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/qualimap-2.3} +setenv QUALIMAP_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/qualimap-2.3-i2yglmwyktb6fzyycjuoiqagqzmhhncj} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/quantum-espresso/7.3.1 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/quantum-espresso/7.3.1 new file mode 100644 index 00000000..c3aa5dfb --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/quantum-espresso/7.3.1 @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:56.356751 +## +## quantum-espresso@7.3.1%gcc@13.2.0~clock+epw~fox~gipaw~ipo~libxc~mpi~nvtx+openmp+patch~qmcpack build_system=cmake build_type=Release generator=make hdf5=none patches=f43b741 arch=linux-ubuntu22.04-x86_64_v3/2j3zmt4 +## + + +module-whatis {Quantum ESPRESSO is an integrated suite of Open-Source computer codes for electronic-structure calculations and materials modeling at the nanoscale. It is based on density-functional theory, plane waves, and pseudopotentials. } + +proc ModulesHelp { } { + puts stderr {Name : quantum-espresso} + puts stderr {Version: 7.3.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Quantum ESPRESSO is an integrated suite of Open-Source computer codes} + puts stderr {for electronic-structure calculations and materials modeling at the} + puts stderr {nanoscale. It is based on density-functional theory, plane waves, and} + puts stderr {pseudopotentials.} +} + +conflict quantum-espresso + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/quantum-espresso-7.3.1/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/quantum-espresso-7.3.1/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/quantum-espresso-7.3.1/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/quantum-espresso-7.3.1/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/quantum-espresso-7.3.1/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/quantum-espresso-7.3.1/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/quantum-espresso-7.3.1/.} +setenv QUANTUM_ESPRESSO_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/quantum-espresso-7.3.1-2j3zmt4o4efypx5jeikzdxudnunk5k5k} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/r/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/r/.modulerc new file mode 100644 index 00000000..58294613 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/r/.modulerc @@ -0,0 +1,4 @@ +#%Module4.7 +module-hide --soft --hidden-loaded r/4.4.1-tc23hcl +module-hide --soft --hidden-loaded r/4.4.1-gwsuul6 +module-hide --soft --hidden-loaded r/4.4.1-cxqp25d diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/r/4.4.1-cxqp25d b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/r/4.4.1-cxqp25d new file mode 100644 index 00000000..6c8a8714 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/r/4.4.1-cxqp25d @@ -0,0 +1,78 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:56.414906 +## +## r@4.4.1%gcc@13.2.0~X~memory_profiling~rmath build_system=autotools patches=abc572d arch=linux-ubuntu22.04-x86_64_v3/cxqp25d +## +## Configure options: --with-internal-tzcode --libdir=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/r-4.4.1-cxqp25dird4wfwna54kpzpzvqpchikfn/rlib --enable-R-shlib --enable-R-framework=no --without-recommended-packages LDFLAGS=-Wl,-rpath,/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/r-4.4.1-cxqp25dird4wfwna54kpzpzvqpchikfn/rlib/R/lib --with-blas=-L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openblas-0.3.25-5gaqx4urjzvpfazafmwrjlvpvwuvfrgi/lib -lopenblas --with-lapack=-L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openblas-0.3.25-5gaqx4urjzvpfazafmwrjlvpvwuvfrgi/lib -lopenblas ac_cv_path_PDFLATEX= ac_cv_path_PDFTEX= ac_cv_path_TEX= ac_cv_path_TEXI2DVI= --without-cairo --without-jpeglib --without-libpng --without-libtiff --without-tcltk --without-x +## + + +module-whatis {R is 'GNU S', a freely available language and environment for statistical computing and graphics which provides a wide variety of statistical and graphical techniques: linear and nonlinear modelling, statistical tests, time series analysis, classification, clustering, etc. Please consult the R project homepage for further information.} + +proc ModulesHelp { } { + puts stderr {Name : r} + puts stderr {Version: 4.4.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {R is 'GNU S', a freely available language and environment for} + puts stderr {statistical computing and graphics which provides a wide variety of} + puts stderr {statistical and graphical techniques: linear and nonlinear modelling,} + puts stderr {statistical tests, time series analysis, classification, clustering,} + puts stderr {etc. Please consult the R project homepage for further information.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load which/2.21-howpuqs +} else { + depends-on which/2.21-howpuqs +} +conflict r + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/r-4.4.1-cxqp25dird4wfwna54kpzpzvqpchikfn/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/r-4.4.1-cxqp25dird4wfwna54kpzpzvqpchikfn/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/r-4.4.1-cxqp25dird4wfwna54kpzpzvqpchikfn/.} +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/r-4.4.1-cxqp25dird4wfwna54kpzpzvqpchikfn/rlib/R/lib} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/r-4.4.1-cxqp25dird4wfwna54kpzpzvqpchikfn/rlib/pkgconfig} +setenv R_HOME {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/r-4.4.1-cxqp25dird4wfwna54kpzpzvqpchikfn/rlib/R} +setenv R_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/r-4.4.1-cxqp25dird4wfwna54kpzpzvqpchikfn} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/r/4.4.1-gwsuul6 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/r/4.4.1-gwsuul6 new file mode 100644 index 00000000..f686e3de --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/r/4.4.1-gwsuul6 @@ -0,0 +1,78 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:56.445029 +## +## r@4.4.1%gcc@13.2.0~X~memory_profiling~rmath build_system=autotools patches=abc572d arch=linux-ubuntu22.04-x86_64_v3/gwsuul6 +## +## Configure options: --with-internal-tzcode --libdir=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/r-4.4.1-gwsuul6czgq3exbtqkgd5zr3zf3wvqx5/rlib --enable-R-shlib --enable-R-framework=no --without-recommended-packages LDFLAGS=-Wl,-rpath,/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/r-4.4.1-gwsuul6czgq3exbtqkgd5zr3zf3wvqx5/rlib/R/lib --with-blas=-L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openblas-0.3.28-ap4k5dzekmdokd4sqkhp6vrac2bypni3/lib -lopenblas --with-lapack=-L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openblas-0.3.28-ap4k5dzekmdokd4sqkhp6vrac2bypni3/lib -lopenblas ac_cv_path_PDFLATEX= ac_cv_path_PDFTEX= ac_cv_path_TEX= ac_cv_path_TEXI2DVI= --without-cairo --without-jpeglib --without-libpng --without-libtiff --without-tcltk --without-x +## + + +module-whatis {R is 'GNU S', a freely available language and environment for statistical computing and graphics which provides a wide variety of statistical and graphical techniques: linear and nonlinear modelling, statistical tests, time series analysis, classification, clustering, etc. Please consult the R project homepage for further information.} + +proc ModulesHelp { } { + puts stderr {Name : r} + puts stderr {Version: 4.4.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {R is 'GNU S', a freely available language and environment for} + puts stderr {statistical computing and graphics which provides a wide variety of} + puts stderr {statistical and graphical techniques: linear and nonlinear modelling,} + puts stderr {statistical tests, time series analysis, classification, clustering,} + puts stderr {etc. Please consult the R project homepage for further information.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load which/2.21-howpuqs +} else { + depends-on which/2.21-howpuqs +} +conflict r + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/r-4.4.1-gwsuul6czgq3exbtqkgd5zr3zf3wvqx5/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/r-4.4.1-gwsuul6czgq3exbtqkgd5zr3zf3wvqx5/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/r-4.4.1-gwsuul6czgq3exbtqkgd5zr3zf3wvqx5/.} +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/r-4.4.1-gwsuul6czgq3exbtqkgd5zr3zf3wvqx5/rlib/R/lib} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/r-4.4.1-gwsuul6czgq3exbtqkgd5zr3zf3wvqx5/rlib/pkgconfig} +setenv R_HOME {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/r-4.4.1-gwsuul6czgq3exbtqkgd5zr3zf3wvqx5/rlib/R} +setenv R_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/r-4.4.1-gwsuul6czgq3exbtqkgd5zr3zf3wvqx5} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/r/4.4.1-tc23hcl b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/r/4.4.1-tc23hcl new file mode 100644 index 00000000..50fda4d8 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/r/4.4.1-tc23hcl @@ -0,0 +1,78 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:56.384424 +## +## r@4.4.1%gcc@13.2.0~X~memory_profiling~rmath build_system=autotools patches=abc572d arch=linux-ubuntu22.04-x86_64_v3/tc23hcl +## +## Configure options: --with-internal-tzcode --libdir=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/r-4.4.1-tc23hclizjxn5klrmcxcgwjanwafaqvq/rlib --enable-R-shlib --enable-R-framework=no --without-recommended-packages LDFLAGS=-Wl,-rpath,/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/r-4.4.1-tc23hclizjxn5klrmcxcgwjanwafaqvq/rlib/R/lib --with-blas=-L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openblas-0.3.28-ap4k5dzekmdokd4sqkhp6vrac2bypni3/lib -lopenblas --with-lapack=-L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openblas-0.3.28-ap4k5dzekmdokd4sqkhp6vrac2bypni3/lib -lopenblas ac_cv_path_PDFLATEX= ac_cv_path_PDFTEX= ac_cv_path_TEX= ac_cv_path_TEXI2DVI= --without-cairo --without-jpeglib --without-libpng --without-libtiff --without-tcltk --without-x +## + + +module-whatis {R is 'GNU S', a freely available language and environment for statistical computing and graphics which provides a wide variety of statistical and graphical techniques: linear and nonlinear modelling, statistical tests, time series analysis, classification, clustering, etc. Please consult the R project homepage for further information.} + +proc ModulesHelp { } { + puts stderr {Name : r} + puts stderr {Version: 4.4.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {R is 'GNU S', a freely available language and environment for} + puts stderr {statistical computing and graphics which provides a wide variety of} + puts stderr {statistical and graphical techniques: linear and nonlinear modelling,} + puts stderr {statistical tests, time series analysis, classification, clustering,} + puts stderr {etc. Please consult the R project homepage for further information.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load which/2.21-howpuqs +} else { + depends-on which/2.21-howpuqs +} +conflict r + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/r-4.4.1-tc23hclizjxn5klrmcxcgwjanwafaqvq/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/r-4.4.1-tc23hclizjxn5klrmcxcgwjanwafaqvq/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/r-4.4.1-tc23hclizjxn5klrmcxcgwjanwafaqvq/.} +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/r-4.4.1-tc23hclizjxn5klrmcxcgwjanwafaqvq/rlib/R/lib} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/r-4.4.1-tc23hclizjxn5klrmcxcgwjanwafaqvq/rlib/pkgconfig} +setenv R_HOME {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/r-4.4.1-tc23hclizjxn5klrmcxcgwjanwafaqvq/rlib/R} +setenv R_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/r-4.4.1-tc23hclizjxn5klrmcxcgwjanwafaqvq} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/racon/1.4.3 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/racon/1.4.3 new file mode 100644 index 00000000..c9992122 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/racon/1.4.3 @@ -0,0 +1,65 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:56.463348 +## +## racon@1.4.3%gcc@9.5.0~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/ksrguzh +## +## Configure options: -Dracon_build_wrapper=ON +## + + +module-whatis {Ultrafast consensus module for raw de novo genome assembly of long uncorrected reads.} + +proc ModulesHelp { } { + puts stderr {Name : racon} + puts stderr {Version: 1.4.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Ultrafast consensus module for raw de novo genome assembly of long} + puts stderr {uncorrected reads.} +} + +conflict racon + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/racon-1.4.3/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/racon-1.4.3/.} +setenv RACON_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-9.5.0/racon-1.4.3-ksrguzh363begasfogjoro75lvnjridk} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/randfold/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/randfold/.modulerc new file mode 100644 index 00000000..3847e704 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/randfold/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded randfold/2.0.1-lznmjfq diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/randfold/2.0.1-lznmjfq b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/randfold/2.0.1-lznmjfq new file mode 100644 index 00000000..4d285640 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/randfold/2.0.1-lznmjfq @@ -0,0 +1,62 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:56.485914 +## +## randfold@2.0.1%gcc@13.2.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/lznmjfq +## + + +module-whatis {Minimum free energy of folding randomization test software} + +proc ModulesHelp { } { + puts stderr {Name : randfold} + puts stderr {Version: 2.0.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Minimum free energy of folding randomization test software} +} + +conflict randfold + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/randfold-2.0.1-lznmjfqm2tbfoegid7nq36jx3inlp23m/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/randfold-2.0.1-lznmjfqm2tbfoegid7nq36jx3inlp23m/.} +setenv RANDFOLD_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/randfold-2.0.1-lznmjfqm2tbfoegid7nq36jx3inlp23m} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/randrproto/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/randrproto/.modulerc new file mode 100644 index 00000000..6f2020a3 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/randrproto/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded randrproto/1.5.0-zfvkfvw +module-hide --soft --hidden-loaded randrproto/1.5.0-y2w2bmh diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/randrproto/1.5.0-y2w2bmh b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/randrproto/1.5.0-y2w2bmh new file mode 100644 index 00000000..ec1d16c7 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/randrproto/1.5.0-y2w2bmh @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:56.501656 +## +## randrproto@1.5.0%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/y2w2bmh +## + + +module-whatis {X Resize and Rotate Extension (RandR).} + +proc ModulesHelp { } { + puts stderr {Name : randrproto} + puts stderr {Version: 1.5.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {X Resize and Rotate Extension (RandR). This extension defines a protocol} + puts stderr {for clients to dynamically change X screens, so as to resize, rotate and} + puts stderr {reflect the root window of a screen.} +} + +conflict randrproto + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/randrproto-1.5.0-y2w2bmhjvfrg6ijzfsk4j7beihu6abqv/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/randrproto-1.5.0-y2w2bmhjvfrg6ijzfsk4j7beihu6abqv/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/randrproto-1.5.0-y2w2bmhjvfrg6ijzfsk4j7beihu6abqv/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/randrproto-1.5.0-y2w2bmhjvfrg6ijzfsk4j7beihu6abqv/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/randrproto-1.5.0-y2w2bmhjvfrg6ijzfsk4j7beihu6abqv/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/randrproto-1.5.0-y2w2bmhjvfrg6ijzfsk4j7beihu6abqv/.} +setenv RANDRPROTO_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/randrproto-1.5.0-y2w2bmhjvfrg6ijzfsk4j7beihu6abqv} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/randrproto/1.5.0-zfvkfvw b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/randrproto/1.5.0-zfvkfvw new file mode 100644 index 00000000..8ed7c891 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/randrproto/1.5.0-zfvkfvw @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:56.494553 +## +## randrproto@1.5.0%gcc@11.4.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/zfvkfvw +## + + +module-whatis {X Resize and Rotate Extension (RandR).} + +proc ModulesHelp { } { + puts stderr {Name : randrproto} + puts stderr {Version: 1.5.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {X Resize and Rotate Extension (RandR). This extension defines a protocol} + puts stderr {for clients to dynamically change X screens, so as to resize, rotate and} + puts stderr {reflect the root window of a screen.} +} + +conflict randrproto + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/randrproto-1.5.0-zfvkfvw4hrgssmuaqqqul7tkccibknyl/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/randrproto-1.5.0-zfvkfvw4hrgssmuaqqqul7tkccibknyl/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/randrproto-1.5.0-zfvkfvw4hrgssmuaqqqul7tkccibknyl/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/randrproto-1.5.0-zfvkfvw4hrgssmuaqqqul7tkccibknyl/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/randrproto-1.5.0-zfvkfvw4hrgssmuaqqqul7tkccibknyl/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/randrproto-1.5.0-zfvkfvw4hrgssmuaqqqul7tkccibknyl/.} +setenv RANDRPROTO_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/randrproto-1.5.0-zfvkfvw4hrgssmuaqqqul7tkccibknyl} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/raxml-ng/1.1.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/raxml-ng/1.1.0 new file mode 100644 index 00000000..d93ccf64 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/raxml-ng/1.1.0 @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:56.533326 +## +## raxml-ng@1.1.0%gcc@13.2.0~ipo~mpi build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/5zlyw7m +## +## Configure options: -DUSE_MPI:BOOL=OFF +## + + +module-whatis {RAxML-NG is a phylogenetic tree inference tool which uses maximum-likelihood (ML) optimality criterion.} + +proc ModulesHelp { } { + puts stderr {Name : raxml-ng} + puts stderr {Version: 1.1.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {RAxML-NG is a phylogenetic tree inference tool which uses maximum-} + puts stderr {likelihood (ML) optimality criterion. Its search heuristic is based on} + puts stderr {iteratively performing a series of Subtree Pruning and Regrafting (SPR)} + puts stderr {moves, which allows to quickly navigate to the best-known ML tree.} + puts stderr {RAxML-NG is a successor of RAxML (Stamatakis 2014) and leverages the} + puts stderr {highly optimized likelihood computation implemented in libpll (Flouri et} + puts stderr {al. 2014).} +} + +conflict raxml-ng + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/raxml-ng-1.1.0/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/raxml-ng-1.1.0/.} +setenv RAXML_NG_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/raxml-ng-1.1.0-5zlyw7mlxpgp5ha6xoe74ugigntzxbi4} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/raxml/8.2.12 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/raxml/8.2.12 new file mode 100644 index 00000000..27677369 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/raxml/8.2.12 @@ -0,0 +1,64 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:56.510774 +## +## raxml@8.2.12%gcc@13.2.0~mpi~pthreads build_system=generic patches=8ba0510 arch=linux-ubuntu22.04-x86_64_v3/hfrkb67 +## + + +module-whatis {RAxML (Randomized Axelerated Maximum Likelihood) is a program for sequential and parallel Maximum Likelihood based inference of large phylogenetic trees. } + +proc ModulesHelp { } { + puts stderr {Name : raxml} + puts stderr {Version: 8.2.12} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {RAxML (Randomized Axelerated Maximum Likelihood) is a program for} + puts stderr {sequential and parallel Maximum Likelihood based inference of large} + puts stderr {phylogenetic trees.} +} + +conflict raxml + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/raxml-8.2.12/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/raxml-8.2.12/.} +setenv RAXML_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/raxml-8.2.12-hfrkb672gtynsyjjfvkrrhyc4gcq2m4c} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/rclone/1.65.1 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/rclone/1.65.1 new file mode 100644 index 00000000..6e912504 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/rclone/1.65.1 @@ -0,0 +1,63 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:56.565407 +## +## rclone@1.65.1%gcc@13.2.0 build_system=go arch=linux-ubuntu22.04-x86_64_v3/enktcvw +## + + +module-whatis {Rclone is a command line program to sync files and directories to and from various cloud storage providers} + +proc ModulesHelp { } { + puts stderr {Name : rclone} + puts stderr {Version: 1.65.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Rclone is a command line program to sync files and directories to and} + puts stderr {from various cloud storage providers} +} + +conflict rclone + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/rclone-1.65.1/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/rclone-1.65.1/.} +setenv RCLONE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/rclone-1.65.1-enktcvwwlns5hdtghpjh3st5svyczqos} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/rdma-core/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/rdma-core/.modulerc new file mode 100644 index 00000000..88e668d4 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/rdma-core/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded rdma-core/52.0-tbbkw4r diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/rdma-core/52.0-tbbkw4r b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/rdma-core/52.0-tbbkw4r new file mode 100644 index 00000000..419a4356 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/rdma-core/52.0-tbbkw4r @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:56.588829 +## +## rdma-core@52.0%gcc@13.2.0~ipo+man_pages+pyverbs+static build_system=cmake build_type=Release generator=make patches=4dec4ad arch=linux-ubuntu22.04-x86_64_v3/tbbkw4r +## +## Configure options: -DCMAKE_INSTALL_SYSCONFDIR=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/rdma-core-52.0-tbbkw4roay3pmb5m3ymo2ibtualxio32/etc -DCMAKE_INSTALL_RUNDIR=/var/run -DENABLE_STATIC:BOOL=ON +## + + +module-whatis {RDMA core userspace libraries and daemons} + +proc ModulesHelp { } { + puts stderr {Name : rdma-core} + puts stderr {Version: 52.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {RDMA core userspace libraries and daemons} +} + +conflict rdma-core + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/rdma-core-52.0-tbbkw4roay3pmb5m3ymo2ibtualxio32/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/rdma-core-52.0-tbbkw4roay3pmb5m3ymo2ibtualxio32/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/rdma-core-52.0-tbbkw4roay3pmb5m3ymo2ibtualxio32/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/rdma-core-52.0-tbbkw4roay3pmb5m3ymo2ibtualxio32/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/rdma-core-52.0-tbbkw4roay3pmb5m3ymo2ibtualxio32/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/rdma-core-52.0-tbbkw4roay3pmb5m3ymo2ibtualxio32/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/rdma-core-52.0-tbbkw4roay3pmb5m3ymo2ibtualxio32/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/rdma-core-52.0-tbbkw4roay3pmb5m3ymo2ibtualxio32/.} +setenv RDMA_CORE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/rdma-core-52.0-tbbkw4roay3pmb5m3ymo2ibtualxio32} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/re2/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/re2/.modulerc new file mode 100644 index 00000000..34a59b90 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/re2/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded re2/2024-07-02-w7wum6v diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/re2/2024-07-02-w7wum6v b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/re2/2024-07-02-w7wum6v new file mode 100644 index 00000000..cb3f5d2d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/re2/2024-07-02-w7wum6v @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:56.597308 +## +## re2@2024-07-02%gcc@13.2.0~icu~ipo+pic+shared build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/w7wum6v +## +## Configure options: -DRE2_USE_ICU:BOOL=OFF -DBUILD_SHARED_LIBS:BOOL=ON -DCMAKE_POSITION_INDEPENDENT_CODE:BOOL=ON -DRE2_BUILD_TESTING:BOOL=OFF -DCMAKE_CXX_STANDARD:STRING=14 +## + + +module-whatis {RE2 is a fast, safe, thread-friendly alternative to backtracking regular expression engines like those used in PCRE, Perl, and Python.} + +proc ModulesHelp { } { + puts stderr {Name : re2} + puts stderr {Version: 2024-07-02} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {RE2 is a fast, safe, thread-friendly alternative to backtracking regular} + puts stderr {expression engines like those used in PCRE, Perl, and Python.} +} + +conflict re2 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/re2-2024-07-02-w7wum6vvyynj7lfdprhaefalbnln5xwo/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/re2-2024-07-02-w7wum6vvyynj7lfdprhaefalbnln5xwo/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/re2-2024-07-02-w7wum6vvyynj7lfdprhaefalbnln5xwo/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/re2-2024-07-02-w7wum6vvyynj7lfdprhaefalbnln5xwo/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/re2-2024-07-02-w7wum6vvyynj7lfdprhaefalbnln5xwo/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/re2-2024-07-02-w7wum6vvyynj7lfdprhaefalbnln5xwo/.} +setenv RE2_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/re2-2024-07-02-w7wum6vvyynj7lfdprhaefalbnln5xwo} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/readline/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/readline/.modulerc new file mode 100644 index 00000000..c6e182e0 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/readline/.modulerc @@ -0,0 +1,5 @@ +#%Module4.7 +module-hide --soft --hidden-loaded readline/8.2-aylebxv +module-hide --soft --hidden-loaded readline/8.2-cb6x34k +module-hide --soft --hidden-loaded readline/8.2-npf2hbn +module-hide --soft --hidden-loaded readline/8.2-3pxlh6m diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/readline/8.2-3pxlh6m b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/readline/8.2-3pxlh6m new file mode 100644 index 00000000..7b38ba08 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/readline/8.2-3pxlh6m @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:56.605694 +## +## readline@8.2%gcc@7.5.0 build_system=autotools patches=bbf97f1 arch=linux-ubuntu22.04-x86_64_v3/3pxlh6m +## + + +module-whatis {The GNU Readline library provides a set of functions for use by applications that allow users to edit command lines as they are typed in. Both Emacs and vi editing modes are available. The Readline library includes additional functions to maintain a list of previously-entered command lines, to recall and perhaps reedit those lines, and perform csh-like history expansion on previous commands.} + +proc ModulesHelp { } { + puts stderr {Name : readline} + puts stderr {Version: 8.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The GNU Readline library provides a set of functions for use by} + puts stderr {applications that allow users to edit command lines as they are typed} + puts stderr {in. Both Emacs and vi editing modes are available. The Readline library} + puts stderr {includes additional functions to maintain a list of previously-entered} + puts stderr {command lines, to recall and perhaps reedit those lines, and perform} + puts stderr {csh-like history expansion on previous commands.} +} + +conflict readline + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/readline-8.2-3pxlh6m6meroydistmy7eygka25g5hk2/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/readline-8.2-3pxlh6m6meroydistmy7eygka25g5hk2/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/readline-8.2-3pxlh6m6meroydistmy7eygka25g5hk2/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/readline-8.2-3pxlh6m6meroydistmy7eygka25g5hk2/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/readline-8.2-3pxlh6m6meroydistmy7eygka25g5hk2/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/readline-8.2-3pxlh6m6meroydistmy7eygka25g5hk2/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/readline-8.2-3pxlh6m6meroydistmy7eygka25g5hk2/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/readline-8.2-3pxlh6m6meroydistmy7eygka25g5hk2/.} +setenv READLINE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/readline-8.2-3pxlh6m6meroydistmy7eygka25g5hk2} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/readline/8.2-aylebxv b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/readline/8.2-aylebxv new file mode 100644 index 00000000..2091ac6b --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/readline/8.2-aylebxv @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:56.613183 +## +## readline@8.2%gcc@11.4.0 build_system=autotools patches=bbf97f1 arch=linux-ubuntu22.04-x86_64_v3/aylebxv +## + + +module-whatis {The GNU Readline library provides a set of functions for use by applications that allow users to edit command lines as they are typed in. Both Emacs and vi editing modes are available. The Readline library includes additional functions to maintain a list of previously-entered command lines, to recall and perhaps reedit those lines, and perform csh-like history expansion on previous commands.} + +proc ModulesHelp { } { + puts stderr {Name : readline} + puts stderr {Version: 8.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The GNU Readline library provides a set of functions for use by} + puts stderr {applications that allow users to edit command lines as they are typed} + puts stderr {in. Both Emacs and vi editing modes are available. The Readline library} + puts stderr {includes additional functions to maintain a list of previously-entered} + puts stderr {command lines, to recall and perhaps reedit those lines, and perform} + puts stderr {csh-like history expansion on previous commands.} +} + +conflict readline + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/readline-8.2-aylebxvheua4djgtfzzqi2ialcjt5mw7/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/readline-8.2-aylebxvheua4djgtfzzqi2ialcjt5mw7/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/readline-8.2-aylebxvheua4djgtfzzqi2ialcjt5mw7/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/readline-8.2-aylebxvheua4djgtfzzqi2ialcjt5mw7/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/readline-8.2-aylebxvheua4djgtfzzqi2ialcjt5mw7/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/readline-8.2-aylebxvheua4djgtfzzqi2ialcjt5mw7/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/readline-8.2-aylebxvheua4djgtfzzqi2ialcjt5mw7/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/readline-8.2-aylebxvheua4djgtfzzqi2ialcjt5mw7/.} +setenv READLINE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/readline-8.2-aylebxvheua4djgtfzzqi2ialcjt5mw7} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/readline/8.2-cb6x34k b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/readline/8.2-cb6x34k new file mode 100644 index 00000000..564e106c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/readline/8.2-cb6x34k @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:56.621002 +## +## readline@8.2%gcc@11.4.0 build_system=autotools patches=bbf97f1 arch=linux-ubuntu22.04-x86_64_v3/cb6x34k +## + + +module-whatis {The GNU Readline library provides a set of functions for use by applications that allow users to edit command lines as they are typed in. Both Emacs and vi editing modes are available. The Readline library includes additional functions to maintain a list of previously-entered command lines, to recall and perhaps reedit those lines, and perform csh-like history expansion on previous commands.} + +proc ModulesHelp { } { + puts stderr {Name : readline} + puts stderr {Version: 8.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The GNU Readline library provides a set of functions for use by} + puts stderr {applications that allow users to edit command lines as they are typed} + puts stderr {in. Both Emacs and vi editing modes are available. The Readline library} + puts stderr {includes additional functions to maintain a list of previously-entered} + puts stderr {command lines, to recall and perhaps reedit those lines, and perform} + puts stderr {csh-like history expansion on previous commands.} +} + +conflict readline + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/readline-8.2-cb6x34ku73pjh3f4t7rmpthnxuumw25x/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/readline-8.2-cb6x34ku73pjh3f4t7rmpthnxuumw25x/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/readline-8.2-cb6x34ku73pjh3f4t7rmpthnxuumw25x/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/readline-8.2-cb6x34ku73pjh3f4t7rmpthnxuumw25x/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/readline-8.2-cb6x34ku73pjh3f4t7rmpthnxuumw25x/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/readline-8.2-cb6x34ku73pjh3f4t7rmpthnxuumw25x/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/readline-8.2-cb6x34ku73pjh3f4t7rmpthnxuumw25x/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/readline-8.2-cb6x34ku73pjh3f4t7rmpthnxuumw25x/.} +setenv READLINE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/readline-8.2-cb6x34ku73pjh3f4t7rmpthnxuumw25x} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/readline/8.2-npf2hbn b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/readline/8.2-npf2hbn new file mode 100644 index 00000000..bc57f6d3 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/readline/8.2-npf2hbn @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:56.628599 +## +## readline@8.2%gcc@13.2.0 build_system=autotools patches=bbf97f1 arch=linux-ubuntu22.04-x86_64_v3/npf2hbn +## + + +module-whatis {The GNU Readline library provides a set of functions for use by applications that allow users to edit command lines as they are typed in. Both Emacs and vi editing modes are available. The Readline library includes additional functions to maintain a list of previously-entered command lines, to recall and perhaps reedit those lines, and perform csh-like history expansion on previous commands.} + +proc ModulesHelp { } { + puts stderr {Name : readline} + puts stderr {Version: 8.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The GNU Readline library provides a set of functions for use by} + puts stderr {applications that allow users to edit command lines as they are typed} + puts stderr {in. Both Emacs and vi editing modes are available. The Readline library} + puts stderr {includes additional functions to maintain a list of previously-entered} + puts stderr {command lines, to recall and perhaps reedit those lines, and perform} + puts stderr {csh-like history expansion on previous commands.} +} + +conflict readline + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/readline-8.2-npf2hbnhgb32jgedfuudnsbukmgwmln2/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/readline-8.2-npf2hbnhgb32jgedfuudnsbukmgwmln2/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/readline-8.2-npf2hbnhgb32jgedfuudnsbukmgwmln2/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/readline-8.2-npf2hbnhgb32jgedfuudnsbukmgwmln2/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/readline-8.2-npf2hbnhgb32jgedfuudnsbukmgwmln2/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/readline-8.2-npf2hbnhgb32jgedfuudnsbukmgwmln2/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/readline-8.2-npf2hbnhgb32jgedfuudnsbukmgwmln2/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/readline-8.2-npf2hbnhgb32jgedfuudnsbukmgwmln2/.} +setenv READLINE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/readline-8.2-npf2hbnhgb32jgedfuudnsbukmgwmln2} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/recon/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/recon/.modulerc new file mode 100644 index 00000000..a6e6dc48 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/recon/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded recon/1.05-5chazyq diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/recon/1.05 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/recon/1.05 new file mode 100644 index 00000000..70e47728 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/recon/1.05 @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:56.679371 +## +## recon@1.05%gcc@13.2.0~repeatmasker build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/s7j6smn +## + + +module-whatis {RECON: a package for automated de novo identification of repeat families from genomic sequences.} + +proc ModulesHelp { } { + puts stderr {Name : recon} + puts stderr {Version: 1.05} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {RECON: a package for automated de novo identification of repeat families} + puts stderr {from genomic sequences.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict recon + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/recon-1.05/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/recon-1.05/.} +setenv RECON_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/recon-1.05-s7j6smn6ybdv4tcy2sq5lsohdbus4bnv} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/recon/1.05-5chazyq b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/recon/1.05-5chazyq new file mode 100644 index 00000000..a8fae263 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/recon/1.05-5chazyq @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:56.654738 +## +## recon@1.05%gcc@13.2.0+repeatmasker build_system=makefile patches=18a7a0b arch=linux-ubuntu22.04-x86_64_v3/5chazyq +## + + +module-whatis {RECON: a package for automated de novo identification of repeat families from genomic sequences.} + +proc ModulesHelp { } { + puts stderr {Name : recon} + puts stderr {Version: 1.05} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {RECON: a package for automated de novo identification of repeat families} + puts stderr {from genomic sequences.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict recon + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/recon-1.05-5chazyqqhsjfdgnnrc6u2rd7n7igruby/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/recon-1.05-5chazyqqhsjfdgnnrc6u2rd7n7igruby/.} +setenv RECON_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/recon-1.05-5chazyqqhsjfdgnnrc6u2rd7n7igruby} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/renderproto/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/renderproto/.modulerc new file mode 100644 index 00000000..58cbb0ea --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/renderproto/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded renderproto/0.11.1-6qeupuw +module-hide --soft --hidden-loaded renderproto/0.11.1-zemf7oo diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/renderproto/0.11.1-6qeupuw b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/renderproto/0.11.1-6qeupuw new file mode 100644 index 00000000..2cc7b422 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/renderproto/0.11.1-6qeupuw @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:56.710678 +## +## renderproto@0.11.1%gcc@11.4.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/6qeupuw +## + + +module-whatis {X Rendering Extension.} + +proc ModulesHelp { } { + puts stderr {Name : renderproto} + puts stderr {Version: 0.11.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {X Rendering Extension. This extension defines the protcol for a digital} + puts stderr {image composition as the foundation of a new rendering model within the} + puts stderr {X Window System.} +} + +conflict renderproto + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/renderproto-0.11.1-6qeupuw7m4eszeqovxuwyjombk5jtrls/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/renderproto-0.11.1-6qeupuw7m4eszeqovxuwyjombk5jtrls/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/renderproto-0.11.1-6qeupuw7m4eszeqovxuwyjombk5jtrls/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/renderproto-0.11.1-6qeupuw7m4eszeqovxuwyjombk5jtrls/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/renderproto-0.11.1-6qeupuw7m4eszeqovxuwyjombk5jtrls/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/renderproto-0.11.1-6qeupuw7m4eszeqovxuwyjombk5jtrls/.} +setenv RENDERPROTO_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/renderproto-0.11.1-6qeupuw7m4eszeqovxuwyjombk5jtrls} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/renderproto/0.11.1-zemf7oo b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/renderproto/0.11.1-zemf7oo new file mode 100644 index 00000000..a4ef836e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/renderproto/0.11.1-zemf7oo @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:56.717643 +## +## renderproto@0.11.1%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/zemf7oo +## + + +module-whatis {X Rendering Extension.} + +proc ModulesHelp { } { + puts stderr {Name : renderproto} + puts stderr {Version: 0.11.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {X Rendering Extension. This extension defines the protcol for a digital} + puts stderr {image composition as the foundation of a new rendering model within the} + puts stderr {X Window System.} +} + +conflict renderproto + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/renderproto-0.11.1-zemf7oo7qk2jtbov25lwtzp544tzxif5/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/renderproto-0.11.1-zemf7oo7qk2jtbov25lwtzp544tzxif5/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/renderproto-0.11.1-zemf7oo7qk2jtbov25lwtzp544tzxif5/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/renderproto-0.11.1-zemf7oo7qk2jtbov25lwtzp544tzxif5/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/renderproto-0.11.1-zemf7oo7qk2jtbov25lwtzp544tzxif5/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/renderproto-0.11.1-zemf7oo7qk2jtbov25lwtzp544tzxif5/.} +setenv RENDERPROTO_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/renderproto-0.11.1-zemf7oo7qk2jtbov25lwtzp544tzxif5} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/repeatmasker/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/repeatmasker/.modulerc new file mode 100644 index 00000000..5b164990 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/repeatmasker/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded repeatmasker/4.0.9-oc6ehon diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/repeatmasker/4.0.9-oc6ehon b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/repeatmasker/4.0.9-oc6ehon new file mode 100644 index 00000000..e902f290 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/repeatmasker/4.0.9-oc6ehon @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:56.725605 +## +## repeatmasker@4.0.9%gcc@13.2.0~crossmatch build_system=generic patches=b9e0ce5 arch=linux-ubuntu22.04-x86_64_v3/oc6ehon +## + + +module-whatis {RepeatMasker is a program that screens DNA sequences for interspersed repeats and low complexity DNA sequences.} + +proc ModulesHelp { } { + puts stderr {Name : repeatmasker} + puts stderr {Version: 4.0.9} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {RepeatMasker is a program that screens DNA sequences for interspersed} + puts stderr {repeats and low complexity DNA sequences.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load perl-text-soundex/3.05-osjgx3p +} else { + depends-on perl/5.40.0-lzbctij + depends-on perl-text-soundex/3.05-osjgx3p +} +conflict repeatmasker + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/repeatmasker-4.0.9-oc6ehongj6mokfcxxacqfjbiiux57hak/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/repeatmasker-4.0.9-oc6ehongj6mokfcxxacqfjbiiux57hak/.} +setenv REPEATMASKER_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/repeatmasker-4.0.9-oc6ehongj6mokfcxxacqfjbiiux57hak} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/repeatmasker/4.1.5 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/repeatmasker/4.1.5 new file mode 100644 index 00000000..6aca0a96 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/repeatmasker/4.1.5 @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:56.740769 +## +## repeatmasker@4.1.5%gcc@13.2.0~crossmatch build_system=generic arch=linux-ubuntu22.04-x86_64_v3/hyuid5d +## + + +module-whatis {RepeatMasker is a program that screens DNA sequences for interspersed repeats and low complexity DNA sequences.} + +proc ModulesHelp { } { + puts stderr {Name : repeatmasker} + puts stderr {Version: 4.1.5} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {RepeatMasker is a program that screens DNA sequences for interspersed} + puts stderr {repeats and low complexity DNA sequences.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load perl-text-soundex/3.05-osjgx3p + module load py-h5py/3.12.1-m5d33ci + module load python/3.11.9 +} else { + depends-on perl/5.40.0-lzbctij + depends-on perl-text-soundex/3.05-osjgx3p + depends-on py-h5py/3.12.1-m5d33ci + depends-on python/3.11.9 +} +conflict repeatmasker + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/repeatmasker-4.1.5-hyuid5dtbgv7dbxvs65xjic3vnzx5vqs/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/repeatmasker-4.1.5-hyuid5dtbgv7dbxvs65xjic3vnzx5vqs/.} +setenv REPEATMASKER_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/repeatmasker-4.1.5-hyuid5dtbgv7dbxvs65xjic3vnzx5vqs} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/repeatmodeler/2.0.4 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/repeatmodeler/2.0.4 new file mode 100644 index 00000000..51b09b52 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/repeatmodeler/2.0.4 @@ -0,0 +1,102 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:56.880008 +## +## repeatmodeler@2.0.4%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/dbdop4u +## + + +module-whatis {RepeatModeler is a de-novo repeat family identification and modeling package.} + +proc ModulesHelp { } { + puts stderr {Name : repeatmodeler} + puts stderr {Version: 2.0.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {RepeatModeler is a de-novo repeat family identification and modeling} + puts stderr {package.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load blat/35-k5n5lye + module load cdhit/4.8.1 + module load genometools/1.6.5 + module load ltr-retriever/2.8.7 + module load mafft/7.525-d3lothm + module load ncbi-rmblastn/2.14.0-mni752q + module load ninja-phylogeny/0.98 + module load nseg/1.0-z7wuqx5 + module load perl/5.40.0-lzbctij + module load perl-devel-size/0.83-a7ntcnk + module load perl-file-which/1.27-hrc2jwq + module load perl-json/4.10-bc2iipf + module load perl-libwww-perl/6.68-hsaecxw + module load perl-uri/5.08-d7o47om + module load recon/1.05-5chazyq + module load repeatmasker/4.0.9-oc6ehon + module load repeatscout/1.0.5 + module load trf/4.09.1-ojcphvp +} else { + depends-on blat/35-k5n5lye + depends-on cdhit/4.8.1 + depends-on genometools/1.6.5 + depends-on ltr-retriever/2.8.7 + depends-on mafft/7.525-d3lothm + depends-on ncbi-rmblastn/2.14.0-mni752q + depends-on ninja-phylogeny/0.98 + depends-on nseg/1.0-z7wuqx5 + depends-on perl/5.40.0-lzbctij + depends-on perl-devel-size/0.83-a7ntcnk + depends-on perl-file-which/1.27-hrc2jwq + depends-on perl-json/4.10-bc2iipf + depends-on perl-libwww-perl/6.68-hsaecxw + depends-on perl-uri/5.08-d7o47om + depends-on recon/1.05-5chazyq + depends-on repeatmasker/4.0.9-oc6ehon + depends-on repeatscout/1.0.5 + depends-on trf/4.09.1-ojcphvp +} +conflict repeatmodeler + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/repeatmodeler-2.0.4/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/repeatmodeler-2.0.4/.} +setenv REPEATMODELER_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/repeatmodeler-2.0.4-dbdop4uqig5rwva4omwvzpsru6imeps4} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/repeatscout/1.0.5 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/repeatscout/1.0.5 new file mode 100644 index 00000000..b0f99620 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/repeatscout/1.0.5 @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:57.218279 +## +## repeatscout@1.0.5%gcc@13.2.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/6j5xywc +## + + +module-whatis {RepeatScout - De Novo Repeat Finder, Price A.L., Jones N.C. and Pevzner P.A.} + +proc ModulesHelp { } { + puts stderr {Name : repeatscout} + puts stderr {Version: 1.0.5} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {RepeatScout - De Novo Repeat Finder, Price A.L., Jones N.C. and Pevzner} + puts stderr {P.A.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load nseg/1.0-z7wuqx5 + module load perl/5.40.0-lzbctij + module load trf/4.09.1-ojcphvp +} else { + depends-on nseg/1.0-z7wuqx5 + depends-on perl/5.40.0-lzbctij + depends-on trf/4.09.1-ojcphvp +} +conflict repeatscout + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/repeatscout-1.0.5/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/repeatscout-1.0.5/.} +setenv REPEATSCOUT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/repeatscout-1.0.5-6j5xywc2z2l6ge7nyqglq7ylnsek32lt} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/rnaquast/2.2.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/rnaquast/2.2.0 new file mode 100644 index 00000000..cb49a354 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/rnaquast/2.2.0 @@ -0,0 +1,82 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:57.242378 +## +## rnaquast@2.2.0%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/oqwht4n +## + + +module-whatis {Quality assessment of de novo transcriptome assemblies from RNA-Seq data} + +proc ModulesHelp { } { + puts stderr {Name : rnaquast} + puts stderr {Version: 2.2.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Quality assessment of de novo transcriptome assemblies from RNA-Seq data} + puts stderr {rnaQUAST is a tool for evaluating RNA-Seq assemblies using reference} + puts stderr {genome and gene database. In addition, rnaQUAST is also capable of} + puts stderr {estimating gene database coverage by raw reads and de novo quality} + puts stderr {assessment using third-party software.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load blast-plus/2.16.0 + module load gmap-gsnap/2023-07-20-ywftkgx + module load py-gffutils/0.10.1-y65zfcx + module load py-joblib/1.2.0-ksvfjnz + module load py-matplotlib/3.9.2-bsuux3u + module load python/3.11.9 +} else { + depends-on blast-plus/2.16.0 + depends-on gmap-gsnap/2023-07-20-ywftkgx + depends-on py-gffutils/0.10.1-y65zfcx + depends-on py-joblib/1.2.0-ksvfjnz + depends-on py-matplotlib/3.9.2-bsuux3u + depends-on python/3.11.9 +} +conflict rnaquast + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/rnaquast-2.2.0/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/rnaquast-2.2.0/.} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/rnaquast-2.2.0/bin} +setenv RNAQUAST_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/rnaquast-2.2.0-oqwht4n3gs4jabae57gujehktfl6jqfw} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/rpcsvc-proto/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/rpcsvc-proto/.modulerc new file mode 100644 index 00000000..32149deb --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/rpcsvc-proto/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded rpcsvc-proto/1.4.4-omftjhf diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/rpcsvc-proto/1.4.4-omftjhf b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/rpcsvc-proto/1.4.4-omftjhf new file mode 100644 index 00000000..34435abf --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/rpcsvc-proto/1.4.4-omftjhf @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:58.248379 +## +## rpcsvc-proto@1.4.4%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/omftjhf +## +## Configure options: LIBS=-lintl +## + + +module-whatis {rpcsvc protocol definitions from glibc.} + +proc ModulesHelp { } { + puts stderr {Name : rpcsvc-proto} + puts stderr {Version: 1.4.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {rpcsvc protocol definitions from glibc.} +} + +conflict rpcsvc-proto + +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/rpcsvc-proto-1.4.4-omftjhfayjgqj4x256in7pkkfwhiy7wz/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/rpcsvc-proto-1.4.4-omftjhfayjgqj4x256in7pkkfwhiy7wz/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/rpcsvc-proto-1.4.4-omftjhfayjgqj4x256in7pkkfwhiy7wz/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/rpcsvc-proto-1.4.4-omftjhfayjgqj4x256in7pkkfwhiy7wz/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/rpcsvc-proto-1.4.4-omftjhfayjgqj4x256in7pkkfwhiy7wz/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/rpcsvc-proto-1.4.4-omftjhfayjgqj4x256in7pkkfwhiy7wz/.} +setenv RPCSVC_PROTO_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/rpcsvc-proto-1.4.4-omftjhfayjgqj4x256in7pkkfwhiy7wz} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/rsem/1.3.3 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/rsem/1.3.3 new file mode 100644 index 00000000..f62aa8fb --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/rsem/1.3.3 @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:58.284176 +## +## rsem@1.3.3%gcc@13.2.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/4myg3f6 +## + + +module-whatis {RSEM is a software package for estimating gene and isoform expression levels from RNA-Seq data.} + +proc ModulesHelp { } { + puts stderr {Name : rsem} + puts stderr {Version: 1.3.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {RSEM is a software package for estimating gene and isoform expression} + puts stderr {levels from RNA-Seq data.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-v76o5kk + module load python/3.13.0-ev3dbxe + module load r/4.4.1-tc23hcl +} else { + depends-on perl/5.40.0-v76o5kk + depends-on python/3.13.0-ev3dbxe + depends-on r/4.4.1-tc23hcl +} +conflict rsem + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/rsem-1.3.3/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/rsem-1.3.3/.} +setenv R_HOME {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/r-4.4.1/rlib/R} +setenv RSEM_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/rsem-1.3.3-4myg3f6dguhfj24bsbyphmiejnb6vsf5} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/rstudio/2024.09.0-375 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/rstudio/2024.09.0-375 new file mode 100644 index 00000000..ac92dd8e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/rstudio/2024.09.0-375 @@ -0,0 +1,65 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:58.392441 +## +## rstudio@2024.09.0-375%gcc@13.2.0~ipo~notebook+server build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/emyx64n +## +## Configure options: -DRSTUDIO_PACKAGE_BUILD=1 -DCMAKE_BUILD_TYPE=Release -DRSTUDIO_USE_SYSTEM_YAML_CPP=Yes -DRSTUDIO_USE_SYSTEM_BOOST=Yes -DRSTUDIO_USE_SYSTEM_SOCI=Yes -DQUARTO_ENABLED=No -DQT_QMAKE_EXECUTABLE="/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/qt-5.15.15-yowy5vap5i5wj6ew5fck2gk3vzoekliw/bin/qmake" -DCMAKE_INSTALL_RPATH_USE_LINK_PATH=True -DRSTUDIO_TARGET=Server +## + + +module-whatis {RStudio is an integrated development environment (IDE) for R.} + +proc ModulesHelp { } { + puts stderr {Name : rstudio} + puts stderr {Version: 2024.09.0-375} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {RStudio is an integrated development environment (IDE) for R.} +} + +conflict rstudio + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/rstudio-2024.09.0-375/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/rstudio-2024.09.0-375/.} +setenv npm_config_cache {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/rstudio-2024.09.0-375/npm-cache} +setenv RSTUDIO_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/rstudio-2024.09.0-375-emyx64nejf7refjx2canustwusu3nqku} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/rsync/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/rsync/.modulerc new file mode 100644 index 00000000..e66baac3 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/rsync/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded rsync/3.3.0-fjcfuwt +module-hide --soft --hidden-loaded rsync/3.3.0-wj47ptq diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/rsync/3.3.0-fjcfuwt b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/rsync/3.3.0-fjcfuwt new file mode 100644 index 00000000..10bdcf65 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/rsync/3.3.0-fjcfuwt @@ -0,0 +1,66 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:58.672282 +## +## rsync@3.3.0%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/fjcfuwt +## +## Configure options: --with-included-zlib=no +## + + +module-whatis {An open source utility that provides fast incremental file transfer.} + +proc ModulesHelp { } { + puts stderr {Name : rsync} + puts stderr {Version: 3.3.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {An open source utility that provides fast incremental file transfer.} +} + +conflict rsync + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/rsync-3.3.0-fjcfuwt7g5gnvbrjizdhewaf2byup5oh/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/rsync-3.3.0-fjcfuwt7g5gnvbrjizdhewaf2byup5oh/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/rsync-3.3.0-fjcfuwt7g5gnvbrjizdhewaf2byup5oh/.} +setenv RSYNC_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/rsync-3.3.0-fjcfuwt7g5gnvbrjizdhewaf2byup5oh} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/rsync/3.3.0-wj47ptq b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/rsync/3.3.0-wj47ptq new file mode 100644 index 00000000..cd4c40cb --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/rsync/3.3.0-wj47ptq @@ -0,0 +1,66 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:58.682779 +## +## rsync@3.3.0%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/wj47ptq +## +## Configure options: --with-included-zlib=no +## + + +module-whatis {An open source utility that provides fast incremental file transfer.} + +proc ModulesHelp { } { + puts stderr {Name : rsync} + puts stderr {Version: 3.3.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {An open source utility that provides fast incremental file transfer.} +} + +conflict rsync + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/rsync-3.3.0-wj47ptqzzc6m6qmkqkwovo66mhv6bifh/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/rsync-3.3.0-wj47ptqzzc6m6qmkqkwovo66mhv6bifh/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/rsync-3.3.0-wj47ptqzzc6m6qmkqkwovo66mhv6bifh/.} +setenv RSYNC_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/rsync-3.3.0-wj47ptqzzc6m6qmkqkwovo66mhv6bifh} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/rust/1.78.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/rust/1.78.0 new file mode 100644 index 00000000..789af469 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/rust/1.78.0 @@ -0,0 +1,67 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:58.692356 +## +## rust@1.78.0%gcc@13.2.0+dev~docs+src build_system=generic arch=linux-ubuntu22.04-x86_64_v3/5z2gfnf +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {The Rust programming language toolchain.} + +proc ModulesHelp { } { + puts stderr {Name : rust} + puts stderr {Version: 1.78.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The Rust programming language toolchain.} +} + +conflict rust + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/rust-1.78.0/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/rust-1.78.0/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/rust-1.78.0/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/rust-1.78.0/.} +setenv RUST_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/rust-1.78.0} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/rust/1.81.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/rust/1.81.0 new file mode 100644 index 00000000..4ade247e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/rust/1.81.0 @@ -0,0 +1,67 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:58.710876 +## +## rust@1.81.0%gcc@13.2.0+dev~docs+src build_system=generic arch=linux-ubuntu22.04-x86_64_v3/tkquium +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {The Rust programming language toolchain.} + +proc ModulesHelp { } { + puts stderr {Name : rust} + puts stderr {Version: 1.81.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The Rust programming language toolchain.} +} + +conflict rust + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/rust-1.81.0/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/rust-1.81.0/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/rust-1.81.0/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/rust-1.81.0/.} +setenv RUST_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/rust-1.81.0} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/sabre/2013-09-27 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/sabre/2013-09-27 new file mode 100644 index 00000000..86a2fd24 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/sabre/2013-09-27 @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:58.717548 +## +## sabre@2013-09-27%gcc@13.2.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/teyrmvt +## + + +module-whatis {Sabre is a tool that will demultiplex barcoded reads into separate files. It will work on both single-end and paired-end data in fastq format. It simply compares the provided barcodes with each read and separates the read into its appropriate barcode file, after stripping the barcode from the read (and also stripping the quality values of the barcode bases). If a read does not have a recognized barcode, then it is put into the unknown file. } + +proc ModulesHelp { } { + puts stderr {Name : sabre} + puts stderr {Version: 2013-09-27} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Sabre is a tool that will demultiplex barcoded reads into separate} + puts stderr {files. It will work on both single-end and paired-end data in fastq} + puts stderr {format. It simply compares the provided barcodes with each read and} + puts stderr {separates the read into its appropriate barcode file, after stripping} + puts stderr {the barcode from the read (and also stripping the quality values of the} + puts stderr {barcode bases). If a read does not have a recognized barcode, then it is} + puts stderr {put into the unknown file.} +} + +conflict sabre + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/sabre-2013-09-27/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/sabre-2013-09-27/.} +setenv SABRE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/sabre-2013-09-27-teyrmvt245246jil3ka7cculluo63olg} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/samtools/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/samtools/.modulerc new file mode 100644 index 00000000..be8e795b --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/samtools/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded samtools/1.19.2-r7cwl2c diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/samtools/1.16.1 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/samtools/1.16.1 new file mode 100644 index 00000000..5c56e776 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/samtools/1.16.1 @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:58.739726 +## +## samtools@1.16.1%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/q5kjdfb +## + + +module-whatis {SAM Tools provide various utilities for manipulating alignments in the SAM format, including sorting, merging, indexing and generating alignments in a per-position format} + +proc ModulesHelp { } { + puts stderr {Name : samtools} + puts stderr {Version: 1.16.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {SAM Tools provide various utilities for manipulating alignments in the} + puts stderr {SAM format, including sorting, merging, indexing and generating} + puts stderr {alignments in a per-position format} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load python/3.13.0-xf4zxxe +} else { + depends-on perl/5.40.0-lzbctij + depends-on python/3.13.0-xf4zxxe +} +conflict samtools + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/samtools-1.16.1/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/samtools-1.16.1/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/samtools-1.16.1/.} +setenv SAMTOOLS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/samtools-1.16.1-q5kjdfbj3qvzkt54ysfym7x4tmfoxkpu} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/samtools/1.19.2-r7cwl2c b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/samtools/1.19.2-r7cwl2c new file mode 100644 index 00000000..e0da0373 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/samtools/1.19.2-r7cwl2c @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:58.798969 +## +## samtools@1.19.2%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/r7cwl2c +## + + +module-whatis {SAM Tools provide various utilities for manipulating alignments in the SAM format, including sorting, merging, indexing and generating alignments in a per-position format} + +proc ModulesHelp { } { + puts stderr {Name : samtools} + puts stderr {Version: 1.19.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {SAM Tools provide various utilities for manipulating alignments in the} + puts stderr {SAM format, including sorting, merging, indexing and generating} + puts stderr {alignments in a per-position format} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load python/3.13.0-xf4zxxe +} else { + depends-on perl/5.40.0-lzbctij + depends-on python/3.13.0-xf4zxxe +} +conflict samtools + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/samtools-1.19.2-r7cwl2c7xeinvngjomlt7d5gnujn4ymq/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/samtools-1.19.2-r7cwl2c7xeinvngjomlt7d5gnujn4ymq/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/samtools-1.19.2-r7cwl2c7xeinvngjomlt7d5gnujn4ymq/.} +setenv SAMTOOLS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/samtools-1.19.2-r7cwl2c7xeinvngjomlt7d5gnujn4ymq} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/scallop/0.10.5 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/scallop/0.10.5 new file mode 100644 index 00000000..05707799 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/scallop/0.10.5 @@ -0,0 +1,64 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:58.818988 +## +## scallop@0.10.5%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/5h3gv4g +## +## Configure options: --with-clp=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/clp-1.17.9-ijbp534z3u3k5rkk3cyvdizloxmo6ndp --with-htslib=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/htslib-1.20-m6sxxvyazgvey27wbcpf6mqmlkbqerqj --with-boost=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/boost-1.86.0-d3ou3rpnvguiphzbx4ymwg774vi5acex +## + + +module-whatis {Scallop is a reference-based transcriptome assembler for RNA-seq} + +proc ModulesHelp { } { + puts stderr {Name : scallop} + puts stderr {Version: 0.10.5} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Scallop is a reference-based transcriptome assembler for RNA-seq} +} + +conflict scallop + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/scallop-0.10.5/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/scallop-0.10.5/.} +setenv SCALLOP_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/scallop-0.10.5-5h3gv4g5pnbem55oiyu2f7u3qjoxhpze} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/seqprep/1.3.2 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/seqprep/1.3.2 new file mode 100644 index 00000000..9b4aa4ea --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/seqprep/1.3.2 @@ -0,0 +1,63 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:58.856303 +## +## seqprep@1.3.2%gcc@13.2.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/m7xjvdq +## + + +module-whatis {SeqPrep is a program to merge paired end Illumina reads that are overlapping into a single longer read.} + +proc ModulesHelp { } { + puts stderr {Name : seqprep} + puts stderr {Version: 1.3.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {SeqPrep is a program to merge paired end Illumina reads that are} + puts stderr {overlapping into a single longer read.} +} + +conflict seqprep + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/seqprep-1.3.2/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/seqprep-1.3.2/.} +setenv SEQPREP_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/seqprep-1.3.2-m7xjvdqoxm37f7pqg4nwdsu6qmu667az} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/seqtk/1.4 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/seqtk/1.4 new file mode 100644 index 00000000..a18417c9 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/seqtk/1.4 @@ -0,0 +1,62 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:58.879545 +## +## seqtk@1.4%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/iu5jhaq +## + + +module-whatis {Toolkit for processing sequences in FASTA/Q formats.} + +proc ModulesHelp { } { + puts stderr {Name : seqtk} + puts stderr {Version: 1.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Toolkit for processing sequences in FASTA/Q formats.} +} + +conflict seqtk + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/seqtk-1.4/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/seqtk-1.4/.} +setenv SEQTK_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/seqtk-1.4-iu5jhaqj4rgfm4brpqojuvmdrhphi6e2} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/sickle/1.33 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/sickle/1.33 new file mode 100644 index 00000000..7e996430 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/sickle/1.33 @@ -0,0 +1,65 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:58.902161 +## +## sickle@1.33%gcc@13.2.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/mbn37sw +## + + +module-whatis {Sickle is a tool that uses sliding windows along with quality and length thresholds to determine when quality is sufficiently low to trim the 3'-end of reads and also determines when the quality is sufficiently high enough to trim the 5'-end of reads.} + +proc ModulesHelp { } { + puts stderr {Name : sickle} + puts stderr {Version: 1.33} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Sickle is a tool that uses sliding windows along with quality and length} + puts stderr {thresholds to determine when quality is sufficiently low to trim the} + puts stderr {3'-end of reads and also determines when the quality is sufficiently} + puts stderr {high enough to trim the 5'-end of reads.} +} + +conflict sickle + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/sickle-1.33/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/sickle-1.33/.} +setenv SICKLE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/sickle-1.33-mbn37swwopgrxkhsnron33n6gbiurzrq} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/slurm/24-05-5-1 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/slurm/24-05-5-1 new file mode 100644 index 00000000..af6fd0db --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/slurm/24-05-5-1 @@ -0,0 +1,79 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:58.928714 +## +## slurm@24-05-5-1%gcc@13.2.0+cgroup~gtk~hdf5+hwloc+mariadb+nvml+pam+pmix+readline+restd~rsmi build_system=autotools sysconfdir=/etc/slurm arch=linux-ubuntu22.04-x86_64_v3/5p5bvxo +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {Slurm is an open source, fault-tolerant, and highly scalable cluster management and job scheduling system for large and small Linux clusters.} + +proc ModulesHelp { } { + puts stderr {Name : slurm} + puts stderr {Version: 24-05-5-1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Slurm is an open source, fault-tolerant, and highly scalable cluster} + puts stderr {management and job scheduling system for large and small Linux clusters.} + puts stderr {Slurm requires no kernel modifications for its operation and is} + puts stderr {relatively self-contained. As a cluster workload manager, Slurm has} + puts stderr {three key functions. First, it allocates exclusive and/or non-exclusive} + puts stderr {access to resources (compute nodes) to users for some duration of time} + puts stderr {so they can perform work. Second, it provides a framework for starting,} + puts stderr {executing, and monitoring work (normally a parallel job) on the set of} + puts stderr {allocated nodes. Finally, it arbitrates contention for resources by} + puts stderr {managing a queue of pending work.} +} + +conflict slurm + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/slurm/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/slurm/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/slurm/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/slurm/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/slurm/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/slurm/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/slurm/.} +setenv SLURM_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/slurm} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/smartdenovo/master b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/smartdenovo/master new file mode 100644 index 00000000..96d6025c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/smartdenovo/master @@ -0,0 +1,63 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:58.948728 +## +## smartdenovo@master%gcc@13.2.0 build_system=makefile patches=9f514ed arch=linux-ubuntu22.04-x86_64_v3/g6otxk6 +## + + +module-whatis {SMARTdenovo is a de novo assembler for PacBio and Oxford Nanopore (ONT) data.} + +proc ModulesHelp { } { + puts stderr {Name : smartdenovo} + puts stderr {Version: master} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {SMARTdenovo is a de novo assembler for PacBio and Oxford Nanopore (ONT)} + puts stderr {data.} +} + +conflict smartdenovo + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/smartdenovo-master/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/smartdenovo-master/.} +setenv SMARTDENOVO_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/smartdenovo-master-g6otxk6lrrhcehxbsthlncxwdtl362hz} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/snap-korf/2021-11-04 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/snap-korf/2021-11-04 new file mode 100644 index 00000000..d578eaaf --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/snap-korf/2021-11-04 @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:58.970668 +## +## snap-korf@2021-11-04%gcc@13.2.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/tefuzcz +## + + +module-whatis {SNAP is a general purpose gene finding program suitable for both eukaryotic and prokaryotic genomes.} + +proc ModulesHelp { } { + puts stderr {Name : snap-korf} + puts stderr {Version: 2021-11-04} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {SNAP is a general purpose gene finding program suitable for both} + puts stderr {eukaryotic and prokaryotic genomes.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict snap-korf + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/snap-korf-2021-11-04/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/snap-korf-2021-11-04/.} +setenv ZOE {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/snap-korf-2021-11-04} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/snap-korf-2021-11-04} +setenv SNAP_KORF_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/snap-korf-2021-11-04-tefuzczhvht2eze6kkwxmun56dcks6gg} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/snappy/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/snappy/.modulerc new file mode 100644 index 00000000..b81d507b --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/snappy/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded snappy/1.2.1-r5ofjh6 +module-hide --soft --hidden-loaded snappy/1.2.1-4jxs55q diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/snappy/1.2.1-4jxs55q b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/snappy/1.2.1-4jxs55q new file mode 100644 index 00000000..7bc96116 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/snappy/1.2.1-4jxs55q @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:59.009038 +## +## snappy@1.2.1%gcc@13.2.0~ipo+pic+shared build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/4jxs55q +## +## Configure options: -DCMAKE_INSTALL_LIBDIR:STRING=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/snappy-1.2.1-4jxs55quyw5uvhvhgtqgwpcl3gom3n45/lib -DBUILD_SHARED_LIBS:BOOL=ON -DSNAPPY_BUILD_TESTS:BOOL=OFF -DSNAPPY_BUILD_BENCHMARKS:STRING=OFF +## + + +module-whatis {A fast compressor/decompressor: https://code.google.com/p/snappy} + +proc ModulesHelp { } { + puts stderr {Name : snappy} + puts stderr {Version: 1.2.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A fast compressor/decompressor: https://code.google.com/p/snappy} +} + +conflict snappy + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/snappy-1.2.1-4jxs55quyw5uvhvhgtqgwpcl3gom3n45/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/snappy-1.2.1-4jxs55quyw5uvhvhgtqgwpcl3gom3n45/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/snappy-1.2.1-4jxs55quyw5uvhvhgtqgwpcl3gom3n45/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/snappy-1.2.1-4jxs55quyw5uvhvhgtqgwpcl3gom3n45/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/snappy-1.2.1-4jxs55quyw5uvhvhgtqgwpcl3gom3n45/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/snappy-1.2.1-4jxs55quyw5uvhvhgtqgwpcl3gom3n45/.} +setenv SNAPPY_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/snappy-1.2.1-4jxs55quyw5uvhvhgtqgwpcl3gom3n45} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/snappy/1.2.1-r5ofjh6 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/snappy/1.2.1-r5ofjh6 new file mode 100644 index 00000000..d61bdcfe --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/snappy/1.2.1-r5ofjh6 @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:59.001692 +## +## snappy@1.2.1%gcc@11.4.0~ipo+pic+shared build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/r5ofjh6 +## +## Configure options: -DCMAKE_INSTALL_LIBDIR:STRING=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/snappy-1.2.1-r5ofjh6idmh2afm6dhtegb4uimca6spg/lib -DBUILD_SHARED_LIBS:BOOL=ON -DSNAPPY_BUILD_TESTS:BOOL=OFF -DSNAPPY_BUILD_BENCHMARKS:STRING=OFF +## + + +module-whatis {A fast compressor/decompressor: https://code.google.com/p/snappy} + +proc ModulesHelp { } { + puts stderr {Name : snappy} + puts stderr {Version: 1.2.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A fast compressor/decompressor: https://code.google.com/p/snappy} +} + +conflict snappy + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/snappy-1.2.1-r5ofjh6idmh2afm6dhtegb4uimca6spg/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/snappy-1.2.1-r5ofjh6idmh2afm6dhtegb4uimca6spg/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/snappy-1.2.1-r5ofjh6idmh2afm6dhtegb4uimca6spg/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/snappy-1.2.1-r5ofjh6idmh2afm6dhtegb4uimca6spg/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/snappy-1.2.1-r5ofjh6idmh2afm6dhtegb4uimca6spg/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/snappy-1.2.1-r5ofjh6idmh2afm6dhtegb4uimca6spg/.} +setenv SNAPPY_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/snappy-1.2.1-r5ofjh6idmh2afm6dhtegb4uimca6spg} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/snpeff/2017-11-24 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/snpeff/2017-11-24 new file mode 100644 index 00000000..694cc48f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/snpeff/2017-11-24 @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:59.033303 +## +## snpeff@2017-11-24%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/vfbyw4n +## + + +module-whatis {SnpEff is a variant annotation and effect prediction tool. It annotates and predicts the effects of genetic variants (such as amino acid changes).} + +proc ModulesHelp { } { + puts stderr {Name : snpeff} + puts stderr {Version: 2017-11-24} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {SnpEff is a variant annotation and effect prediction tool. It annotates} + puts stderr {and predicts the effects of genetic variants (such as amino acid} + puts stderr {changes).} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load openjdk/17.0.11_9 +} else { + depends-on openjdk/17.0.11_9 +} +conflict snpeff + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/snpeff-2017-11-24/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/snpeff-2017-11-24/.} +setenv SNPEFF_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/snpeff-2017-11-24-vfbyw4nmgjjlz37n3bmflrf6ht3w7opb} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/soci/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/soci/.modulerc new file mode 100644 index 00000000..45a8350f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/soci/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded soci/4.0.2-5y7dv5j diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/soci/4.0.2-5y7dv5j b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/soci/4.0.2-5y7dv5j new file mode 100644 index 00000000..8cf1c04f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/soci/4.0.2-5y7dv5j @@ -0,0 +1,67 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:59.055969 +## +## soci@4.0.2%gcc@13.2.0+boost~ipo~mysql+postgresql+sqlite~static~tests build_system=cmake build_type=Release cxxstd=14 generator=make arch=linux-ubuntu22.04-x86_64_v3/5y7dv5j +## +## Configure options: -DSOCI_STATIC=OFF -DCMAKE_CXX_STANDARD:STRING=14 -DWITH_BOOST:BOOL=ON -DWITH_SQLITE3:BOOL=ON -DWITH_POSTGRESQL:BOOL=ON -DWITH_MYSQL:BOOL=OFF -DSOCI_TESTS:BOOL=OFF +## + + +module-whatis {Official repository of the SOCI - The C++ Database Access Library} + +proc ModulesHelp { } { + puts stderr {Name : soci} + puts stderr {Version: 4.0.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Official repository of the SOCI - The C++ Database Access Library} +} + +conflict soci + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/soci-4.0.2-5y7dv5jwllopmtdk4ncijcoudq224xbj/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/soci-4.0.2-5y7dv5jwllopmtdk4ncijcoudq224xbj/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/soci-4.0.2-5y7dv5jwllopmtdk4ncijcoudq224xbj/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/soci-4.0.2-5y7dv5jwllopmtdk4ncijcoudq224xbj/include} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/soci-4.0.2-5y7dv5jwllopmtdk4ncijcoudq224xbj/.} +setenv SOCI_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/soci-4.0.2-5y7dv5jwllopmtdk4ncijcoudq224xbj} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/sortmerna/2017-07-13 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/sortmerna/2017-07-13 new file mode 100644 index 00000000..6795fde4 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/sortmerna/2017-07-13 @@ -0,0 +1,63 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:59.068836 +## +## sortmerna@2017-07-13%gcc@13.2.0~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/2nrjnnl +## + + +module-whatis {SortMeRNA is a program tool for filtering, mapping and OTU-picking NGS reads in metatranscriptomic and metagenomic data} + +proc ModulesHelp { } { + puts stderr {Name : sortmerna} + puts stderr {Version: 2017-07-13} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {SortMeRNA is a program tool for filtering, mapping and OTU-picking NGS} + puts stderr {reads in metatranscriptomic and metagenomic data} +} + +conflict sortmerna + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/sortmerna-2017-07-13/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/sortmerna-2017-07-13/.} +setenv SORTMERNA_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/sortmerna-2017-07-13-2nrjnnln762s3vrccbwhv2g32zxjk7fl} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/sparsehash/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/sparsehash/.modulerc new file mode 100644 index 00000000..36315501 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/sparsehash/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded sparsehash/2.0.4-5mcdmbp diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/sparsehash/2.0.4-5mcdmbp b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/sparsehash/2.0.4-5mcdmbp new file mode 100644 index 00000000..40437713 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/sparsehash/2.0.4-5mcdmbp @@ -0,0 +1,66 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:59.091659 +## +## sparsehash@2.0.4%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/5mcdmbp +## + + +module-whatis {Sparse and dense hash-tables for C++ by Google} + +proc ModulesHelp { } { + puts stderr {Name : sparsehash} + puts stderr {Version: 2.0.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Sparse and dense hash-tables for C++ by Google} +} + +conflict sparsehash + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/sparsehash-2.0.4-5mcdmbptrtpsfws2sms4yjctygzybxld/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/sparsehash-2.0.4-5mcdmbptrtpsfws2sms4yjctygzybxld/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/sparsehash-2.0.4-5mcdmbptrtpsfws2sms4yjctygzybxld/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/sparsehash-2.0.4-5mcdmbptrtpsfws2sms4yjctygzybxld/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/sparsehash-2.0.4-5mcdmbptrtpsfws2sms4yjctygzybxld/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/sparsehash-2.0.4-5mcdmbptrtpsfws2sms4yjctygzybxld/.} +setenv SPARSEHASH_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/sparsehash-2.0.4-5mcdmbptrtpsfws2sms4yjctygzybxld} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/spglib/2.0.2 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/spglib/2.0.2 new file mode 100644 index 00000000..0db260bf --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/spglib/2.0.2 @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:59.101623 +## +## spglib@2.0.2%gcc@13.2.0+fortran~ipo+openmp build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/3unkz7h +## +## Configure options: -DUSE_OMP:BOOL=ON -DWITH_Fortran:BOOL=ON +## + + +module-whatis {C library for finding and handling crystal symmetries.} + +proc ModulesHelp { } { + puts stderr {Name : spglib} + puts stderr {Version: 2.0.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {C library for finding and handling crystal symmetries.} +} + +conflict spglib + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/spglib-2.0.2/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/spglib-2.0.2/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/spglib-2.0.2/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/spglib-2.0.2/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/spglib-2.0.2/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/spglib-2.0.2/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/spglib-2.0.2/.} +setenv SPGLIB_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/spglib-2.0.2-3unkz7hkwcn2xzf5mxcl53jjfo4xj3j7} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/sqlite/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/sqlite/.modulerc new file mode 100644 index 00000000..8a8e1499 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/sqlite/.modulerc @@ -0,0 +1,5 @@ +#%Module4.7 +module-hide --soft --hidden-loaded sqlite/3.46.0-ogdosm6 +module-hide --soft --hidden-loaded sqlite/3.46.0-pqnanfg +module-hide --soft --hidden-loaded sqlite/3.46.0-go2y7kl +module-hide --soft --hidden-loaded sqlite/3.46.0-6waswml diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/sqlite/3.46.0-6waswml b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/sqlite/3.46.0-6waswml new file mode 100644 index 00000000..74c9a652 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/sqlite/3.46.0-6waswml @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:59.168418 +## +## sqlite@3.46.0%gcc@7.5.0+column_metadata+dynamic_extensions+fts~functions+rtree build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/6waswml +## + + +module-whatis {SQLite is a C-language library that implements a small, fast, self-contained, high-reliability, full-featured, SQL database engine. } + +proc ModulesHelp { } { + puts stderr {Name : sqlite} + puts stderr {Version: 3.46.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {SQLite is a C-language library that implements a small, fast, self-} + puts stderr {contained, high-reliability, full-featured, SQL database engine.} +} + +conflict sqlite + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/sqlite-3.46.0-6waswml6yqlghm4itzbsqon63x2cycvp/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/sqlite-3.46.0-6waswml6yqlghm4itzbsqon63x2cycvp/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/sqlite-3.46.0-6waswml6yqlghm4itzbsqon63x2cycvp/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/sqlite-3.46.0-6waswml6yqlghm4itzbsqon63x2cycvp/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/sqlite-3.46.0-6waswml6yqlghm4itzbsqon63x2cycvp/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/sqlite-3.46.0-6waswml6yqlghm4itzbsqon63x2cycvp/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/sqlite-3.46.0-6waswml6yqlghm4itzbsqon63x2cycvp/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/sqlite-3.46.0-6waswml6yqlghm4itzbsqon63x2cycvp/.} +setenv SQLITE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/sqlite-3.46.0-6waswml6yqlghm4itzbsqon63x2cycvp} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/sqlite/3.46.0-go2y7kl b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/sqlite/3.46.0-go2y7kl new file mode 100644 index 00000000..3e24e0e3 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/sqlite/3.46.0-go2y7kl @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:59.193577 +## +## sqlite@3.46.0%gcc@13.2.0+column_metadata+dynamic_extensions+fts~functions+rtree build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/go2y7kl +## + + +module-whatis {SQLite is a C-language library that implements a small, fast, self-contained, high-reliability, full-featured, SQL database engine. } + +proc ModulesHelp { } { + puts stderr {Name : sqlite} + puts stderr {Version: 3.46.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {SQLite is a C-language library that implements a small, fast, self-} + puts stderr {contained, high-reliability, full-featured, SQL database engine.} +} + +conflict sqlite + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/sqlite-3.46.0-go2y7kloctyd5qsvl6hupdptr5hsukp3/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/sqlite-3.46.0-go2y7kloctyd5qsvl6hupdptr5hsukp3/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/sqlite-3.46.0-go2y7kloctyd5qsvl6hupdptr5hsukp3/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/sqlite-3.46.0-go2y7kloctyd5qsvl6hupdptr5hsukp3/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/sqlite-3.46.0-go2y7kloctyd5qsvl6hupdptr5hsukp3/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/sqlite-3.46.0-go2y7kloctyd5qsvl6hupdptr5hsukp3/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/sqlite-3.46.0-go2y7kloctyd5qsvl6hupdptr5hsukp3/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/sqlite-3.46.0-go2y7kloctyd5qsvl6hupdptr5hsukp3/.} +setenv SQLITE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/sqlite-3.46.0-go2y7kloctyd5qsvl6hupdptr5hsukp3} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/sqlite/3.46.0-ogdosm6 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/sqlite/3.46.0-ogdosm6 new file mode 100644 index 00000000..0d4a7d60 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/sqlite/3.46.0-ogdosm6 @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:59.176402 +## +## sqlite@3.46.0%gcc@11.4.0+column_metadata+dynamic_extensions+fts~functions+rtree build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/ogdosm6 +## + + +module-whatis {SQLite is a C-language library that implements a small, fast, self-contained, high-reliability, full-featured, SQL database engine. } + +proc ModulesHelp { } { + puts stderr {Name : sqlite} + puts stderr {Version: 3.46.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {SQLite is a C-language library that implements a small, fast, self-} + puts stderr {contained, high-reliability, full-featured, SQL database engine.} +} + +conflict sqlite + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/sqlite-3.46.0-ogdosm6dqmim5545dvloiyn5nvydhfra/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/sqlite-3.46.0-ogdosm6dqmim5545dvloiyn5nvydhfra/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/sqlite-3.46.0-ogdosm6dqmim5545dvloiyn5nvydhfra/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/sqlite-3.46.0-ogdosm6dqmim5545dvloiyn5nvydhfra/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/sqlite-3.46.0-ogdosm6dqmim5545dvloiyn5nvydhfra/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/sqlite-3.46.0-ogdosm6dqmim5545dvloiyn5nvydhfra/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/sqlite-3.46.0-ogdosm6dqmim5545dvloiyn5nvydhfra/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/sqlite-3.46.0-ogdosm6dqmim5545dvloiyn5nvydhfra/.} +setenv SQLITE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/sqlite-3.46.0-ogdosm6dqmim5545dvloiyn5nvydhfra} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/sqlite/3.46.0-pqnanfg b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/sqlite/3.46.0-pqnanfg new file mode 100644 index 00000000..f29f97a3 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/sqlite/3.46.0-pqnanfg @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:59.184364 +## +## sqlite@3.46.0%gcc@13.2.0+column_metadata+dynamic_extensions+fts~functions+rtree build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/pqnanfg +## + + +module-whatis {SQLite is a C-language library that implements a small, fast, self-contained, high-reliability, full-featured, SQL database engine. } + +proc ModulesHelp { } { + puts stderr {Name : sqlite} + puts stderr {Version: 3.46.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {SQLite is a C-language library that implements a small, fast, self-} + puts stderr {contained, high-reliability, full-featured, SQL database engine.} +} + +conflict sqlite + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/sqlite-3.46.0-pqnanfgvatmuxqe66tvfwlubzpoq6fww/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/sqlite-3.46.0-pqnanfgvatmuxqe66tvfwlubzpoq6fww/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/sqlite-3.46.0-pqnanfgvatmuxqe66tvfwlubzpoq6fww/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/sqlite-3.46.0-pqnanfgvatmuxqe66tvfwlubzpoq6fww/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/sqlite-3.46.0-pqnanfgvatmuxqe66tvfwlubzpoq6fww/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/sqlite-3.46.0-pqnanfgvatmuxqe66tvfwlubzpoq6fww/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/sqlite-3.46.0-pqnanfgvatmuxqe66tvfwlubzpoq6fww/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/sqlite-3.46.0-pqnanfgvatmuxqe66tvfwlubzpoq6fww/.} +setenv SQLITE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/sqlite-3.46.0-pqnanfgvatmuxqe66tvfwlubzpoq6fww} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/squashfs/4.6.1 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/squashfs/4.6.1 new file mode 100644 index 00000000..57bae755 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/squashfs/4.6.1 @@ -0,0 +1,64 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:59.219790 +## +## squashfs@4.6.1%gcc@13.2.0+gzip+lz4+lzo~static+xz+zstd build_system=makefile default_compression=gzip arch=linux-ubuntu22.04-x86_64_v3/m7ojabs +## + + +module-whatis {Squashfs - read only compressed filesystem} + +proc ModulesHelp { } { + puts stderr {Name : squashfs} + puts stderr {Version: 4.6.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Squashfs - read only compressed filesystem} +} + +conflict squashfs + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/squashfs-4.6.1/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/squashfs-4.6.1/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/squashfs-4.6.1/.} +setenv SQUASHFS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/squashfs-4.6.1-m7ojabs6bi7xgysnsvkdot4gzld52sah} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/squashfuse/0.5.2 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/squashfuse/0.5.2 new file mode 100644 index 00000000..5a6d0405 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/squashfuse/0.5.2 @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:59.232721 +## +## squashfuse@0.5.2%gcc@13.2.0+lz4+lzo~min_size+shared+static+xz+zlib+zstd build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/sf2q5l5 +## +## Configure options: --disable-demo --enable-shared --enable-static --with-zlib=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zlib-ng-2.2.1-ci2x2tjfpbdihazwtuwsat2anrc47e6u --with-lz4=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/lz4-1.10.0-yd7ein45tkk6avf6gnq3lt3r6xjcjoaw --with-lzo=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/lzo-2.10-xhchxsob2z3owhyj4p7ctkp5dlived7n --with-xz=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xz-5.4.6-szk4ytk6wy4nan4q4ep7zhdcoavftlct --with-zstd=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zstd-1.5.6-vuo5mbe3zuzkcvisvn77uccdvqr3o2q2 +## + + +module-whatis {squashfuse - Mount SquashFS archives using FUSE} + +proc ModulesHelp { } { + puts stderr {Name : squashfuse} + puts stderr {Version: 0.5.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {squashfuse - Mount SquashFS archives using FUSE} +} + +conflict squashfuse + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/squashfuse-0.5.2/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/squashfuse-0.5.2/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/squashfuse-0.5.2/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/squashfuse-0.5.2/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/squashfuse-0.5.2/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/squashfuse-0.5.2/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/squashfuse-0.5.2/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/squashfuse-0.5.2/.} +setenv SQUASHFUSE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/squashfuse-0.5.2-sf2q5l5tc6lt7gh4qn7adb22kau2komh} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/squid/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/squid/.modulerc new file mode 100644 index 00000000..029628a8 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/squid/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded squid/1.9g-cmq4uhq diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/squid/1.9g-cmq4uhq b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/squid/1.9g-cmq4uhq new file mode 100644 index 00000000..16264daf --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/squid/1.9g-cmq4uhq @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:59.252708 +## +## squid@1.9g%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/cmq4uhq +## + + +module-whatis {C function library for sequence analysis.} + +proc ModulesHelp { } { + puts stderr {Name : squid} + puts stderr {Version: 1.9g} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {C function library for sequence analysis.} +} + +conflict squid + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/squid-1.9g-cmq4uhq2ak6xnrgwmd652ctusnmqcwjm/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/squid-1.9g-cmq4uhq2ak6xnrgwmd652ctusnmqcwjm/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/squid-1.9g-cmq4uhq2ak6xnrgwmd652ctusnmqcwjm/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/squid-1.9g-cmq4uhq2ak6xnrgwmd652ctusnmqcwjm/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/squid-1.9g-cmq4uhq2ak6xnrgwmd652ctusnmqcwjm/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/squid-1.9g-cmq4uhq2ak6xnrgwmd652ctusnmqcwjm/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/squid-1.9g-cmq4uhq2ak6xnrgwmd652ctusnmqcwjm/.} +setenv SQUID_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/squid-1.9g-cmq4uhq2ak6xnrgwmd652ctusnmqcwjm} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/sratoolkit/3.0.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/sratoolkit/3.0.0 new file mode 100644 index 00000000..aa78dd17 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/sratoolkit/3.0.0 @@ -0,0 +1,64 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:59.261047 +## +## sratoolkit@3.0.0%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/at3j2me +## + + +module-whatis {The NCBI SRA Toolkit enables reading ('dumping') of sequencing files from the SRA database and writing ('loading') files into the .sra format.} + +proc ModulesHelp { } { + puts stderr {Name : sratoolkit} + puts stderr {Version: 3.0.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The NCBI SRA Toolkit enables reading ("dumping") of sequencing files} + puts stderr {from the SRA database and writing ("loading") files into the .sra} + puts stderr {format.} +} + +conflict sratoolkit + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/sratoolkit-3.0.0/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/sratoolkit-3.0.0/.} +setenv SRATOOLKIT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/sratoolkit-3.0.0-at3j2mecuokimomciemmpn2hdy3byi7w} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/star/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/star/.modulerc new file mode 100644 index 00000000..061f510c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/star/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded star/2.7.11b-7z3njqm diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/star/2.7.11a b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/star/2.7.11a new file mode 100644 index 00000000..5227e8ac --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/star/2.7.11a @@ -0,0 +1,62 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:59.282316 +## +## star@2.7.11a%gcc@13.2.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/zmkwdng +## + + +module-whatis {STAR is an ultrafast universal RNA-seq aligner.} + +proc ModulesHelp { } { + puts stderr {Name : star} + puts stderr {Version: 2.7.11a} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {STAR is an ultrafast universal RNA-seq aligner.} +} + +conflict star + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/star-2.7.11a/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/star-2.7.11a/.} +setenv STAR_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/star-2.7.11a-zmkwdngm6ekflaane7sgv2gw5tcdty3o} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/star/2.7.11b-7z3njqm b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/star/2.7.11b-7z3njqm new file mode 100644 index 00000000..92e0841d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/star/2.7.11b-7z3njqm @@ -0,0 +1,62 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:59.304238 +## +## star@2.7.11b%gcc@13.2.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/7z3njqm +## + + +module-whatis {STAR is an ultrafast universal RNA-seq aligner.} + +proc ModulesHelp { } { + puts stderr {Name : star} + puts stderr {Version: 2.7.11b} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {STAR is an ultrafast universal RNA-seq aligner.} +} + +conflict star + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/star-2.7.11b-7z3njqms2aropcjcfml54zuveslq34b2/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/star-2.7.11b-7z3njqms2aropcjcfml54zuveslq34b2/.} +setenv STAR_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/star-2.7.11b-7z3njqms2aropcjcfml54zuveslq34b2} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/stringtie/2.2.1 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/stringtie/2.2.1 new file mode 100644 index 00000000..93388f8f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/stringtie/2.2.1 @@ -0,0 +1,63 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:59.312903 +## +## stringtie@2.2.1%gcc@13.2.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/y6qf7hk +## + + +module-whatis {StringTie is a fast and highly efficient assembler of RNA-Seq alignments into potential transcripts.} + +proc ModulesHelp { } { + puts stderr {Name : stringtie} + puts stderr {Version: 2.2.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {StringTie is a fast and highly efficient assembler of RNA-Seq alignments} + puts stderr {into potential transcripts.} +} + +conflict stringtie + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/stringtie-2.2.1/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/stringtie-2.2.1/.} +setenv STRINGTIE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/stringtie-2.2.1-y6qf7hkrhztf2p7pwkmcdaoytxcnpobi} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/subread/2.0.2 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/subread/2.0.2 new file mode 100644 index 00000000..7a8048ac --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/subread/2.0.2 @@ -0,0 +1,63 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:59.335895 +## +## subread@2.0.2%gcc@13.2.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/vthpmc3 +## + + +module-whatis {The Subread software package is a tool kit for processing next-gen sequencing data.} + +proc ModulesHelp { } { + puts stderr {Name : subread} + puts stderr {Version: 2.0.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The Subread software package is a tool kit for processing next-gen} + puts stderr {sequencing data.} +} + +conflict subread + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/subread-2.0.2/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/subread-2.0.2/.} +setenv SUBREAD_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/subread-2.0.2-vthpmc3zp2frqha6cxhpdzc57bgbjofy} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/swig/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/swig/.modulerc new file mode 100644 index 00000000..5ff21bb0 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/swig/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded swig/4.1.1-svpa6kn diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/swig/4.1.1-svpa6kn b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/swig/4.1.1-svpa6kn new file mode 100644 index 00000000..cfbd506c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/swig/4.1.1-svpa6kn @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:59.358659 +## +## swig@4.1.1%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/svpa6kn +## + + +module-whatis {SWIG is an interface compiler that connects programs written in C and C++ with scripting languages such as Perl, Python, Ruby, and Tcl. It works by taking the declarations found in C/C++ header files and using them to generate the wrapper code that scripting languages need to access the underlying C/C++ code. In addition, SWIG provides a variety of customization features that let you tailor the wrapping process to suit your application.} + +proc ModulesHelp { } { + puts stderr {Name : swig} + puts stderr {Version: 4.1.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {SWIG is an interface compiler that connects programs written in C and} + puts stderr {C++ with scripting languages such as Perl, Python, Ruby, and Tcl. It} + puts stderr {works by taking the declarations found in C/C++ header files and using} + puts stderr {them to generate the wrapper code that scripting languages need to} + puts stderr {access the underlying C/C++ code. In addition, SWIG provides a variety} + puts stderr {of customization features that let you tailor the wrapping process to} + puts stderr {suit your application.} +} + +conflict swig + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/swig-4.1.1-svpa6knb5hy5uxcgenqthigei7u66pxj/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/swig-4.1.1-svpa6knb5hy5uxcgenqthigei7u66pxj/.} +setenv SWIG_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/swig-4.1.1-svpa6knb5hy5uxcgenqthigei7u66pxj} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/tabix/2013-12-16 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/tabix/2013-12-16 new file mode 100644 index 00000000..e2b771f6 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/tabix/2013-12-16 @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:59.385054 +## +## tabix@2013-12-16%gcc@13.2.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/lihdq3k +## + + +module-whatis {Generic indexer for TAB-delimited genome position files} + +proc ModulesHelp { } { + puts stderr {Name : tabix} + puts stderr {Version: 2013-12-16} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Generic indexer for TAB-delimited genome position files} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load python/3.13.0-xf4zxxe +} else { + depends-on perl/5.40.0-lzbctij + depends-on python/3.13.0-xf4zxxe +} +conflict tabix + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/tabix-2013-12-16/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/tabix-2013-12-16/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/tabix-2013-12-16/.} +setenv TABIX_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/tabix-2013-12-16-lihdq3k5qkylnynlgv6sgcdyxgiigvjx} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/tar/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/tar/.modulerc new file mode 100644 index 00000000..af0a4564 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/tar/.modulerc @@ -0,0 +1,4 @@ +#%Module4.7 +module-hide --soft --hidden-loaded tar/1.34-rl53aom +module-hide --soft --hidden-loaded tar/1.34-ypdjqtw +module-hide --soft --hidden-loaded tar/1.34-bmauxuj diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/tar/1.34-bmauxuj b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/tar/1.34-bmauxuj new file mode 100644 index 00000000..4f7ef811 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/tar/1.34-bmauxuj @@ -0,0 +1,78 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:59.436142 +## +## tar@1.34%gcc@7.5.0 build_system=autotools zip=pigz arch=linux-ubuntu22.04-x86_64_v3/bmauxuj +## +## Configure options: --with-xz=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/xz-5.4.6-2h4py3l5ynpwunvim6rsujz6rftq3zqx/bin/xz --with-lzma=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/xz-5.4.6-2h4py3l5ynpwunvim6rsujz6rftq3zqx/bin/lzma --with-bzip2=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/bzip2-1.0.8-vgm6cfwk2ynkxdutptxddhik5syqzoqk/bin/bzip2 --without-libiconv-prefix --with-zstd=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/zstd-1.5.6-2pajx4yog26ubtrtnci3wsomwgjxzamm/bin/zstd --with-gzip=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/pigz-2.8-mzekv6fx52jwnegjqqfkrnx2vjm3jqef/bin/pigz +## + + +module-whatis {GNU Tar provides the ability to create tar archives, as well as various other kinds of manipulation.} + +proc ModulesHelp { } { + puts stderr {Name : tar} + puts stderr {Version: 1.34} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {GNU Tar provides the ability to create tar archives, as well as various} + puts stderr {other kinds of manipulation.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load bzip2/1.0.8-vgm6cfw + module load pigz/2.8-mzekv6f + module load xz/5.4.6-2h4py3l + module load zstd/1.5.6-2pajx4y +} else { + depends-on bzip2/1.0.8-vgm6cfw + depends-on pigz/2.8-mzekv6f + depends-on xz/5.4.6-2h4py3l + depends-on zstd/1.5.6-2pajx4y +} +conflict tar + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/tar-1.34-bmauxujxvvux7wx4fsn2c5iyg5tzgtt5/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/tar-1.34-bmauxujxvvux7wx4fsn2c5iyg5tzgtt5/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/tar-1.34-bmauxujxvvux7wx4fsn2c5iyg5tzgtt5/.} +setenv TAR_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/tar-1.34-bmauxujxvvux7wx4fsn2c5iyg5tzgtt5} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/tar/1.34-rl53aom b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/tar/1.34-rl53aom new file mode 100644 index 00000000..2851bfc9 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/tar/1.34-rl53aom @@ -0,0 +1,78 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:59.450061 +## +## tar@1.34%gcc@13.2.0 build_system=autotools zip=pigz arch=linux-ubuntu22.04-x86_64_v3/rl53aom +## +## Configure options: --with-xz=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xz-5.4.6-szk4ytk6wy4nan4q4ep7zhdcoavftlct/bin/xz --with-lzma=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xz-5.4.6-szk4ytk6wy4nan4q4ep7zhdcoavftlct/bin/lzma --with-bzip2=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/bzip2-1.0.8-qknztbakgnayrsc4iql53yss5tv4yslr/bin/bzip2 --with-libiconv-prefix=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libiconv-1.17-6o2z744tb5afz6tfp5pgeffkiinbhvpd --with-zstd=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zstd-1.5.6-vuo5mbe3zuzkcvisvn77uccdvqr3o2q2/bin/zstd --with-gzip=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pigz-2.8-2r6josttnytkmi6d32gqbsgnjw4t7soz/bin/pigz +## + + +module-whatis {GNU Tar provides the ability to create tar archives, as well as various other kinds of manipulation.} + +proc ModulesHelp { } { + puts stderr {Name : tar} + puts stderr {Version: 1.34} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {GNU Tar provides the ability to create tar archives, as well as various} + puts stderr {other kinds of manipulation.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load bzip2/1.0.8 + module load pigz/2.8 + module load xz/5.4.6-szk4ytk + module load zstd/1.5.6-vuo5mbe +} else { + depends-on bzip2/1.0.8 + depends-on pigz/2.8 + depends-on xz/5.4.6-szk4ytk + depends-on zstd/1.5.6-vuo5mbe +} +conflict tar + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/tar-1.34-rl53aom4xyvuqyszmiznc6733vi3mq4v/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/tar-1.34-rl53aom4xyvuqyszmiznc6733vi3mq4v/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/tar-1.34-rl53aom4xyvuqyszmiznc6733vi3mq4v/.} +setenv TAR_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/tar-1.34-rl53aom4xyvuqyszmiznc6733vi3mq4v} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/tar/1.34-ypdjqtw b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/tar/1.34-ypdjqtw new file mode 100644 index 00000000..407ec621 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/tar/1.34-ypdjqtw @@ -0,0 +1,78 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:59.464859 +## +## tar@1.34%gcc@13.2.0 build_system=autotools zip=pigz arch=linux-ubuntu22.04-x86_64_v3/ypdjqtw +## +## Configure options: --with-xz=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xz-5.4.6-szk4ytk6wy4nan4q4ep7zhdcoavftlct/bin/xz --with-lzma=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xz-5.4.6-szk4ytk6wy4nan4q4ep7zhdcoavftlct/bin/lzma --with-bzip2=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/bzip2-1.0.8-qknztbakgnayrsc4iql53yss5tv4yslr/bin/bzip2 --with-libiconv-prefix=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libiconv-1.17-6o2z744tb5afz6tfp5pgeffkiinbhvpd --with-zstd=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zstd-1.5.6-vuo5mbe3zuzkcvisvn77uccdvqr3o2q2/bin/zstd --with-gzip=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/pigz-2.8-xdrqihluiueafznz56vyhqafcirwpqxu/bin/pigz +## + + +module-whatis {GNU Tar provides the ability to create tar archives, as well as various other kinds of manipulation.} + +proc ModulesHelp { } { + puts stderr {Name : tar} + puts stderr {Version: 1.34} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {GNU Tar provides the ability to create tar archives, as well as various} + puts stderr {other kinds of manipulation.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load bzip2/1.0.8 + module load pigz/2.8-xdrqihl + module load xz/5.4.6-szk4ytk + module load zstd/1.5.6-vuo5mbe +} else { + depends-on bzip2/1.0.8 + depends-on pigz/2.8-xdrqihl + depends-on xz/5.4.6-szk4ytk + depends-on zstd/1.5.6-vuo5mbe +} +conflict tar + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/tar-1.34-ypdjqtwiow36ujkghdbxo56xjs733vuv/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/tar-1.34-ypdjqtwiow36ujkghdbxo56xjs733vuv/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/tar-1.34-ypdjqtwiow36ujkghdbxo56xjs733vuv/.} +setenv TAR_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/tar-1.34-ypdjqtwiow36ujkghdbxo56xjs733vuv} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/tassel/5.2.86 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/tassel/5.2.86 new file mode 100644 index 00000000..97f70ae4 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/tassel/5.2.86 @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:59.508900 +## +## tassel@5.2.86%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/pvvusfv +## + + +module-whatis {TASSEL is a software package to evaluate traits associations, evolutionary patterns, and linkage disequilibrium.} + +proc ModulesHelp { } { + puts stderr {Name : tassel} + puts stderr {Version: 5.2.86} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {TASSEL is a software package to evaluate traits associations,} + puts stderr {evolutionary patterns, and linkage disequilibrium.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load openjdk/17.0.11_9 + module load perl/5.40.0-lzbctij +} else { + depends-on openjdk/17.0.11_9 + depends-on perl/5.40.0-lzbctij +} +conflict tassel + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/tassel-5.2.86/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/tassel-5.2.86/.} +prepend-path CLASSPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/tassel-5.2.86/bin/lib} +setenv TASSEL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/tassel-5.2.86-pvvusfvxkbpz3icwajsadl5kogz2dylo} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/tbl2asn/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/tbl2asn/.modulerc new file mode 100644 index 00000000..10933257 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/tbl2asn/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded tbl2asn/2022-04-26-fbwwvux diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/tbl2asn/2022-04-26-fbwwvux b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/tbl2asn/2022-04-26-fbwwvux new file mode 100644 index 00000000..e8f7d085 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/tbl2asn/2022-04-26-fbwwvux @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:59.541140 +## +## tbl2asn@2022-04-26%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/fbwwvux +## + + +module-whatis {Tbl2asn is a command-line program that automates the creation of sequence records for submission to GenBank.} + +proc ModulesHelp { } { + puts stderr {Name : tbl2asn} + puts stderr {Version: 2022-04-26} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Tbl2asn is a command-line program that automates the creation of} + puts stderr {sequence records for submission to GenBank.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load libidn/1.34-slq7cdc +} else { + depends-on libidn/1.34-slq7cdc +} +conflict tbl2asn + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/tbl2asn-2022-04-26-fbwwvuxoc7l3x2aktn4prppemfcjmc6q/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/tbl2asn-2022-04-26-fbwwvuxoc7l3x2aktn4prppemfcjmc6q/.} +setenv TBL2ASN_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/tbl2asn-2022-04-26-fbwwvuxoc7l3x2aktn4prppemfcjmc6q} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/tcl/8.6.12 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/tcl/8.6.12 new file mode 100644 index 00000000..215ece05 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/tcl/8.6.12 @@ -0,0 +1,76 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:59.550353 +## +## tcl@8.6.12%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/qsyzvse +## + + +module-whatis {Tcl (Tool Command Language) is a very powerful but easy to learn dynamic programming language, suitable for a very wide range of uses, including web and desktop applications, networking, administration, testing and many more. Open source and business-friendly, Tcl is a mature yet evolving language that is truly cross platform, easily deployed and highly extensible.} + +proc ModulesHelp { } { + puts stderr {Name : tcl} + puts stderr {Version: 8.6.12} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Tcl (Tool Command Language) is a very powerful but easy to learn dynamic} + puts stderr {programming language, suitable for a very wide range of uses, including} + puts stderr {web and desktop applications, networking, administration, testing and} + puts stderr {many more. Open source and business-friendly, Tcl is a mature yet} + puts stderr {evolving language that is truly cross platform, easily deployed and} + puts stderr {highly extensible.} +} + +conflict tcl + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/tcl-8.6.12/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/tcl-8.6.12/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/tcl-8.6.12/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/tcl-8.6.12/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/tcl-8.6.12/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/tcl-8.6.12/man} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/tcl-8.6.12/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/tcl-8.6.12/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/tcl-8.6.12/.} +setenv TCL_LIBRARY {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/tcl-8.6.12/lib/tcl8.6} +setenv TCL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/tcl-8.6.12-qsyzvsewmv2xms6zqytgrt6rpqlrxpx7} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/tcsh/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/tcsh/.modulerc new file mode 100644 index 00000000..b55c0c38 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/tcsh/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded tcsh/6.24.00-vsfs2s6 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/tcsh/6.24.00-vsfs2s6 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/tcsh/6.24.00-vsfs2s6 new file mode 100644 index 00000000..a68099f5 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/tcsh/6.24.00-vsfs2s6 @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:59.561401 +## +## tcsh@6.24.00%gcc@13.2.0 build_system=autotools patches=3a4e60f arch=linux-ubuntu22.04-x86_64_v3/vsfs2s6 +## + + +module-whatis {Tcsh is an enhanced but completely compatible version of csh, the C shell. Tcsh is a command language interpreter which can be used both as an interactive login shell and as a shell script command processor. Tcsh includes a command line editor, programmable word completion, spelling correction, a history mechanism, job control and a C language like syntax.} + +proc ModulesHelp { } { + puts stderr {Name : tcsh} + puts stderr {Version: 6.24.00} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Tcsh is an enhanced but completely compatible version of csh, the C} + puts stderr {shell. Tcsh is a command language interpreter which can be used both as} + puts stderr {an interactive login shell and as a shell script command processor. Tcsh} + puts stderr {includes a command line editor, programmable word completion, spelling} + puts stderr {correction, a history mechanism, job control and a C language like} + puts stderr {syntax.} +} + +conflict tcsh + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/tcsh-6.24.00-vsfs2s65l6kn54nho6b54sjxhogya4vb/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/tcsh-6.24.00-vsfs2s65l6kn54nho6b54sjxhogya4vb/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/tcsh-6.24.00-vsfs2s65l6kn54nho6b54sjxhogya4vb/.} +setenv TCSH_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/tcsh-6.24.00-vsfs2s65l6kn54nho6b54sjxhogya4vb} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/texinfo/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/texinfo/.modulerc new file mode 100644 index 00000000..cf110a3a --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/texinfo/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded texinfo/7.1-ei4gugs diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/texinfo/7.1-ei4gugs b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/texinfo/7.1-ei4gugs new file mode 100644 index 00000000..28b09eb9 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/texinfo/7.1-ei4gugs @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:59.569788 +## +## texinfo@7.1%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/ei4gugs +## + + +module-whatis {Texinfo is the official documentation format of the GNU project.} + +proc ModulesHelp { } { + puts stderr {Name : texinfo} + puts stderr {Version: 7.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Texinfo is the official documentation format of the GNU project. It was} + puts stderr {invented by Richard Stallman and Bob Chassell many years ago, loosely} + puts stderr {based on Brian Reid's Scribe and other formatting languages of the time.} + puts stderr {It is used by many non-GNU projects as well.} +} + +conflict texinfo + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/texinfo-7.1-ei4gugsty3psf2lrrr3rjlpu4sw3mojl/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/texinfo-7.1-ei4gugsty3psf2lrrr3rjlpu4sw3mojl/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/texinfo-7.1-ei4gugsty3psf2lrrr3rjlpu4sw3mojl/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/texinfo-7.1-ei4gugsty3psf2lrrr3rjlpu4sw3mojl/.} +setenv TEXINFO_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/texinfo-7.1-ei4gugsty3psf2lrrr3rjlpu4sw3mojl} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/trf/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/trf/.modulerc new file mode 100644 index 00000000..d555f1b9 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/trf/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded trf/4.09.1-ojcphvp diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/trf/4.09.1-ojcphvp b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/trf/4.09.1-ojcphvp new file mode 100644 index 00000000..80e8630c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/trf/4.09.1-ojcphvp @@ -0,0 +1,67 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:59.607033 +## +## trf@4.09.1%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/ojcphvp +## + + +module-whatis {Tandem Repeats Finder is a program to locate and display tandem repeats in DNA sequences.} + +proc ModulesHelp { } { + puts stderr {Name : trf} + puts stderr {Version: 4.09.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Tandem Repeats Finder is a program to locate and display tandem repeats} + puts stderr {in DNA sequences. Note: A manual download is required for TRF. Spack} + puts stderr {will search your current directory for the download file. Alternatively,} + puts stderr {add this file to a mirror so that Spack can find it. For instructions on} + puts stderr {how to set up a mirror, see} + puts stderr {https://spack.readthedocs.io/en/latest/mirrors.html} +} + +conflict trf + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/trf-4.09.1-ojcphvpt6yhu2zvfeottdfftdwzqn7w7/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/trf-4.09.1-ojcphvpt6yhu2zvfeottdfftdwzqn7w7/.} +setenv TRF_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/trf-4.09.1-ojcphvpt6yhu2zvfeottdfftdwzqn7w7} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/trilinos/15.0.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/trilinos/15.0.0 new file mode 100644 index 00000000..dcf5984f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/trilinos/15.0.0 @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:59.674439 +## +## trilinos@15.0.0%gcc@13.2.0~adelus~adios2+amesos+amesos2+anasazi+aztec~basker+belos~boost~chaco~complex~cuda~cuda_constexpr~cuda_rdc~debug~dtk+epetra+epetraext~epetraextbtf~epetraextexperimental~epetraextgraphreorderings~exodus+explicit_template_instantiation~float+fortran~gtest~hdf5~hypre+ifpack+ifpack2~intrepid~intrepid2~ipo~isorropia+kokkos~mesquite~minitensor+ml~mpi+muelu~mumps~nox~openmp~pamgen~panzer~phalanx~piro~python~rocm~rocm_rdc~rol~rythmos+sacado~scorec~shards+shared~shylu~stk~stokhos~stratimikos~strumpack~suite-sparse~superlu~superlu-dist~teko~tempus~test~thyra+tpetra~trilinoscouplings~wrapper~x11~zoltan~zoltan2 build_system=cmake build_type=Release cxxstd=17 generator=make gotype=long_long arch=linux-ubuntu22.04-x86_64_v3/l2qspjq +## +## Configure options: -DTrilinos_VERBOSE_CONFIGURE:BOOL=OFF -DBUILD_SHARED_LIBS:BOOL=ON -DTrilinos_ENABLE_ALL_OPTIONAL_PACKAGES:BOOL=OFF -DTrilinos_ENABLE_ALL_PACKAGES:BOOL=OFF -DTrilinos_ENABLE_CXX11:BOOL=ON -DTrilinos_ENABLE_DEBUG:BOOL=OFF -DTrilinos_ENABLE_EXAMPLES:BOOL=OFF -DTrilinos_ENABLE_SECONDARY_TESTED_CODE:BOOL=ON -DTrilinos_ENABLE_TESTS:BOOL=OFF -DTrilinos_ENABLE_Fortran:BOOL=ON -DTrilinos_ENABLE_OpenMP:BOOL=OFF -DTrilinos_ENABLE_EXPLICIT_INSTANTIATION:BOOL=ON -DTrilinos_ENABLE_PyTrilinos2:BOOL=OFF -DTrilinos_ENABLE_TESTS:BOOL=OFF -DCMAKE_CXX_STANDARD:STRING=17 -DTrilinos_ENABLE_Adelus:BOOL=OFF -DTrilinos_ENABLE_Amesos:BOOL=ON -DTrilinos_ENABLE_Amesos2:BOOL=ON -DTrilinos_ENABLE_Anasazi:BOOL=ON -DTrilinos_ENABLE_AztecOO:BOOL=ON -DTrilinos_ENABLE_Belos:BOOL=ON -DTrilinos_ENABLE_Epetra:BOOL=ON -DTrilinos_ENABLE_EpetraExt:BOOL=ON -DTrilinos_ENABLE_FEI:BOOL=OFF -DTrilinos_ENABLE_Gtest:BOOL=OFF -DTrilinos_ENABLE_Ifpack:BOOL=ON -DTrilinos_ENABLE_Ifpack2:BOOL=ON -DTrilinos_ENABLE_Intrepid:BOOL=OFF -DTrilinos_ENABLE_Intrepid2:BOOL=OFF -DTrilinos_ENABLE_Isorropia:BOOL=OFF -DTrilinos_ENABLE_Kokkos:BOOL=ON -DTrilinos_ENABLE_MiniTensor:BOOL=OFF -DTrilinos_ENABLE_Mesquite:BOOL=OFF -DTrilinos_ENABLE_ML:BOOL=ON -DTrilinos_ENABLE_MueLu:BOOL=ON -DTrilinos_ENABLE_NOX:BOOL=OFF -DTrilinos_ENABLE_Pamgen:BOOL=OFF -DTrilinos_ENABLE_Panzer:BOOL=OFF -DTrilinos_ENABLE_Pike:BOOL=OFF -DTrilinos_ENABLE_Piro:BOOL=OFF -DTrilinos_ENABLE_Phalanx:BOOL=OFF -DTrilinos_ENABLE_ROL:BOOL=OFF -DTrilinos_ENABLE_Rythmos:BOOL=OFF -DTrilinos_ENABLE_Sacado:BOOL=ON -DTrilinos_ENABLE_SCOREC:BOOL=OFF -DTrilinos_ENABLE_Shards:BOOL=OFF -DTrilinos_ENABLE_ShyLU:BOOL=OFF -DTrilinos_ENABLE_STK:BOOL=OFF -DTrilinos_ENABLE_Stokhos:BOOL=OFF -DTrilinos_ENABLE_Stratimikos:BOOL=OFF -DTrilinos_ENABLE_Teko:BOOL=OFF -DTrilinos_ENABLE_Tempus:BOOL=OFF -DTrilinos_ENABLE_Thyra:BOOL=OFF -DTrilinos_ENABLE_Tpetra:BOOL=ON -DTrilinos_ENABLE_TrilinosCouplings:BOOL=OFF -DTrilinos_ENABLE_Triutils:BOOL=ON -DTrilinos_ENABLE_Zoltan:BOOL=OFF -DTrilinos_ENABLE_Zoltan2:BOOL=OFF -DEpetraExt_BUILD_BTF:BOOL=OFF -DEpetraExt_BUILD_EXPERIMENTAL:BOOL=OFF -DEpetraExt_BUILD_GRAPH_REORDERINGS:BOOL=OFF -DAmesos2_ENABLE_Basker:BOOL=OFF -DAmesos2_ENABLE_LAPACK:BOOL=ON -DAmesos2_ENABLE_MUMPS:BOOL=OFF -DTrilinos_ENABLE_SEACASExodus:BOOL=OFF -DTrilinos_ENABLE_SEACASIoss:BOOL=OFF -DTrilinos_ENABLE_SEACASChaco:BOOL=OFF -DTrilinos_ENABLE_SEACASNemslice:BOOL=OFF -DTPL_ENABLE_ADIOS2:BOOL=OFF -DTPL_ENABLE_Boost:BOOL=OFF -DTPL_ENABLE_CUDA:BOOL=OFF -DTPL_ENABLE_HDF5:BOOL=OFF -DTPL_ENABLE_HYPRE:BOOL=OFF -DTPL_ENABLE_MUMPS:BOOL=OFF -DTPL_ENABLE_AMD:BOOL=OFF -DTPL_ENABLE_UMFPACK:BOOL=OFF -DTPL_ENABLE_SuperLU:BOOL=OFF -DTPL_ENABLE_SuperLUDist:BOOL=OFF -DTPL_ENABLE_X11:BOOL=OFF -DTPL_ENABLE_STRUMPACK:BOOL=OFF -DTPL_ENABLE_BLAS:BOOL=ON -DBLAS_INCLUDE_DIRS:STRING=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openblas-0.3.28-ap4k5dzekmdokd4sqkhp6vrac2bypni3/include -DBLAS_ROOT:STRING=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openblas-0.3.28-ap4k5dzekmdokd4sqkhp6vrac2bypni3 -DBLAS_LIBRARY_NAMES:STRING=openblas -DBLAS_LIBRARY_DIRS:STRING=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openblas-0.3.28-ap4k5dzekmdokd4sqkhp6vrac2bypni3/lib -DTPL_ENABLE_CGNS:BOOL=OFF -DTPL_ENABLE_LAPACK:BOOL=ON -DLAPACK_INCLUDE_DIRS:STRING=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openblas-0.3.28-ap4k5dzekmdokd4sqkhp6vrac2bypni3/include -DLAPACK_ROOT:STRING=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openblas-0.3.28-ap4k5dzekmdokd4sqkhp6vrac2bypni3 -DLAPACK_LIBRARY_NAMES:STRING=openblas -DLAPACK_LIBRARY_DIRS:STRING=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/openblas-0.3.28-ap4k5dzekmdokd4sqkhp6vrac2bypni3/lib -DTPL_ENABLE_Matio:BOOL=OFF -DTPL_ENABLE_METIS:BOOL=OFF -DTPL_ENABLE_Netcdf:BOOL=OFF -DTPL_ENABLE_SCALAPACK:BOOL=OFF -DTPL_ENABLE_Zlib:BOOL=ON -DZlib_INCLUDE_DIRS:STRING=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zlib-ng-2.2.1-ci2x2tjfpbdihazwtuwsat2anrc47e6u/include -DZlib_ROOT:STRING=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zlib-ng-2.2.1-ci2x2tjfpbdihazwtuwsat2anrc47e6u -DZlib_LIBRARY_NAMES:STRING=z -DZlib_LIBRARY_DIRS:STRING=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zlib-ng-2.2.1-ci2x2tjfpbdihazwtuwsat2anrc47e6u/lib -DTPL_ENABLE_Pnetcdf:BOOL=OFF -DTPL_ENABLE_HWLOC:BOOL=ON -DHWLOC_INCLUDE_DIRS:STRING=/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/hwloc-2.11.1/include -DHWLOC_ROOT:STRING=/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/hwloc-2.11.1 -DHWLOC_LIBRARY_NAMES:STRING=hwloc -DHWLOC_LIBRARY_DIRS:STRING=/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/hwloc-2.11.1/lib -DTPL_ENABLE_MPI:BOOL=OFF -DTPL_ENABLE_ParMETIS:BOOL=OFF -DTPL_ENABLE_Cholmod:BOOL=OFF -DTeuchos_ENABLE_COMPLEX:BOOL=OFF -DTeuchos_ENABLE_FLOAT:BOOL=OFF -DTpetra_INST_OPENMP:BOOL=OFF -DTpetra_INST_DOUBLE:BOOL=ON -DTpetra_INST_COMPLEX_DOUBLE:BOOL=OFF -DTpetra_INST_COMPLEX_FLOAT:BOOL=OFF -DTpetra_INST_FLOAT:BOOL=OFF -DTpetra_INST_SERIAL:BOOL=ON -DTpetra_INST_INT_INT:BOOL=OFF -DTpetra_INST_INT_LONG:BOOL=OFF -DTpetra_INST_INT_LONG_LONG:BOOL=ON -DKokkos_ENABLE_CUDA:BOOL=OFF -DKokkos_ENABLE_OPENMP:BOOL=OFF -DCMAKE_INSTALL_NAME_DIR:STRING=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/trilinos-15.0.0-l2qspjqrhxdvyz3l7nydu5drcxvz2hyn/lib +## + + +module-whatis {The Trilinos Project is an effort to develop algorithms and enabling technologies within an object-oriented software framework for the solution of large-scale, complex multi-physics engineering and scientific problems. A unique design feature of Trilinos is its focus on packages. } + +proc ModulesHelp { } { + puts stderr {Name : trilinos} + puts stderr {Version: 15.0.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The Trilinos Project is an effort to develop algorithms and enabling} + puts stderr {technologies within an object-oriented software framework for the} + puts stderr {solution of large-scale, complex multi-physics engineering and} + puts stderr {scientific problems. A unique design feature of Trilinos is its focus on} + puts stderr {packages.} +} + +conflict trilinos + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/trilinos-15.0.0/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/trilinos-15.0.0/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/trilinos-15.0.0/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/trilinos-15.0.0/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/trilinos-15.0.0/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/trilinos-15.0.0/.} +setenv TRILINOS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/trilinos-15.0.0-l2qspjqrhxdvyz3l7nydu5drcxvz2hyn} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/trimgalore/0.6.10 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/trimgalore/0.6.10 new file mode 100644 index 00000000..bf3baaa0 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/trimgalore/0.6.10 @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:59.704214 +## +## trimgalore@0.6.10%gcc@13.2.0~igzip~pigz build_system=generic arch=linux-ubuntu22.04-x86_64_v3/ypxsmmf +## + + +module-whatis {Trim Galore! is a wrapper around Cutadapt and FastQC to consistently apply adapter and quality trimming to FastQ files, with extra functionality for RRBS data.} + +proc ModulesHelp { } { + puts stderr {Name : trimgalore} + puts stderr {Version: 0.6.10} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Trim Galore! is a wrapper around Cutadapt and FastQC to consistently} + puts stderr {apply adapter and quality trimming to FastQ files, with extra} + puts stderr {functionality for RRBS data.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load py-cutadapt/4.7 +} else { + depends-on perl/5.40.0-lzbctij + depends-on py-cutadapt/4.7 +} +conflict trimgalore + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/trimgalore-0.6.10/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/trimgalore-0.6.10/.} +setenv TRIMGALORE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/trimgalore-0.6.10-ypxsmmfgh3ls5h6mynvzocagk5jd2heo} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/trimmomatic/0.39 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/trimmomatic/0.39 new file mode 100644 index 00000000..dfee3d2f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/trimmomatic/0.39 @@ -0,0 +1,67 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:00.008297 +## +## trimmomatic@0.39%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/d63to7f +## + + +module-whatis {A flexible read trimming tool for Illumina NGS data.} + +proc ModulesHelp { } { + puts stderr {Name : trimmomatic} + puts stderr {Version: 0.39} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A flexible read trimming tool for Illumina NGS data.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load openjdk/17.0.11_9 +} else { + depends-on openjdk/17.0.11_9 +} +conflict trimmomatic + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/trimmomatic-0.39/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/trimmomatic-0.39/.} +setenv TRIMMOMATIC_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/trimmomatic-0.39-d63to7f22afgljovswm3cmakhcjwzfij} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ucx/1.17.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ucx/1.17.0 new file mode 100644 index 00000000..b28dea52 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/ucx/1.17.0 @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:00.047430 +## +## ucx@1.17.0%gcc@13.2.0~assertions~backtrace_detail~cma~cuda~dc~debug~dm+examples~gdrcopy~gtest~ib_hw_tm~java~knem~logging~mlx5_dv+openmp+optimizations~parameter_checking+pic~rc~rdmacm~rocm+thread_multiple~ucg~ud~verbs~vfs~xpmem build_system=autotools libs=shared,static opt=3 simd=auto arch=linux-ubuntu22.04-x86_64_v3/4yunlhc +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {a communication library implementing high-performance messaging for MPI/PGAS frameworks} + +proc ModulesHelp { } { + puts stderr {Name : ucx} + puts stderr {Version: 1.17.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {a communication library implementing high-performance messaging for} + puts stderr {MPI/PGAS frameworks} +} + +conflict ucx + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/ucx-1.17.0/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/ucx-1.17.0/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/ucx-1.17.0/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/ucx-1.17.0/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/ucx-1.17.0/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/ucx-1.17.0/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/ucx-1.17.0/.} +setenv UCX_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/generic/ucx-1.17.0} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/udunits/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/udunits/.modulerc new file mode 100644 index 00000000..e6a97130 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/udunits/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded udunits/2.2.28-yrblqxe diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/udunits/2.2.28-yrblqxe b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/udunits/2.2.28-yrblqxe new file mode 100644 index 00000000..25e84a70 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/udunits/2.2.28-yrblqxe @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:00.103257 +## +## udunits@2.2.28%gcc@13.2.0+shared build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/yrblqxe +## +## Configure options: --enable-shared +## + + +module-whatis {Automated units conversion} + +proc ModulesHelp { } { + puts stderr {Name : udunits} + puts stderr {Version: 2.2.28} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Automated units conversion} +} + +conflict udunits + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/udunits-2.2.28-yrblqxevpegw3rx5mkokoqonjnvc2jqr/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/udunits-2.2.28-yrblqxevpegw3rx5mkokoqonjnvc2jqr/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/udunits-2.2.28-yrblqxevpegw3rx5mkokoqonjnvc2jqr/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/udunits-2.2.28-yrblqxevpegw3rx5mkokoqonjnvc2jqr/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/udunits-2.2.28-yrblqxevpegw3rx5mkokoqonjnvc2jqr/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/udunits-2.2.28-yrblqxevpegw3rx5mkokoqonjnvc2jqr/.} +setenv UDUNITS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/udunits-2.2.28-yrblqxevpegw3rx5mkokoqonjnvc2jqr} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/userspace-rcu/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/userspace-rcu/.modulerc new file mode 100644 index 00000000..5a735eb4 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/userspace-rcu/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded userspace-rcu/0.13.1-c4dhq7k diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/userspace-rcu/0.13.1-c4dhq7k b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/userspace-rcu/0.13.1-c4dhq7k new file mode 100644 index 00000000..65d1bd70 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/userspace-rcu/0.13.1-c4dhq7k @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:00.112073 +## +## userspace-rcu@0.13.1%gcc@13.2.0 build_system=autotools patches=49aa8fa arch=linux-ubuntu22.04-x86_64_v3/c4dhq7k +## + + +module-whatis {liburcu is a LGPLv2.1 userspace RCU (read-copy-update) library. This data synchronization library provides read-side access which scales linearly with the number of cores.} + +proc ModulesHelp { } { + puts stderr {Name : userspace-rcu} + puts stderr {Version: 0.13.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {liburcu is a LGPLv2.1 userspace RCU (read-copy-update) library. This} + puts stderr {data synchronization library provides read-side access which scales} + puts stderr {linearly with the number of cores.} +} + +conflict userspace-rcu + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/userspace-rcu-0.13.1-c4dhq7kaeczgpi6i2sykj26blkzybukz/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/userspace-rcu-0.13.1-c4dhq7kaeczgpi6i2sykj26blkzybukz/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/userspace-rcu-0.13.1-c4dhq7kaeczgpi6i2sykj26blkzybukz/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/userspace-rcu-0.13.1-c4dhq7kaeczgpi6i2sykj26blkzybukz/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/userspace-rcu-0.13.1-c4dhq7kaeczgpi6i2sykj26blkzybukz/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/userspace-rcu-0.13.1-c4dhq7kaeczgpi6i2sykj26blkzybukz/.} +setenv USERSPACE_RCU_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/userspace-rcu-0.13.1-c4dhq7kaeczgpi6i2sykj26blkzybukz} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/util-linux-uuid/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/util-linux-uuid/.modulerc new file mode 100644 index 00000000..277acbe7 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/util-linux-uuid/.modulerc @@ -0,0 +1,4 @@ +#%Module4.7 +module-hide --soft --hidden-loaded util-linux-uuid/2.40.2-xesify5 +module-hide --soft --hidden-loaded util-linux-uuid/2.40.2-ipinsoz +module-hide --soft --hidden-loaded util-linux-uuid/2.40.2-otzhfpv diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/util-linux-uuid/2.40.2-ipinsoz b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/util-linux-uuid/2.40.2-ipinsoz new file mode 100644 index 00000000..72238ea4 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/util-linux-uuid/2.40.2-ipinsoz @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:00.149486 +## +## util-linux-uuid@2.40.2%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/ipinsoz +## +## Configure options: --disable-use-tty-group --disable-makeinstall-chown --without-systemd --disable-all-programs --without-python --enable-libuuid --disable-bash-completion +## + + +module-whatis {Util-linux is a suite of essential utilities for any Linux system.} + +proc ModulesHelp { } { + puts stderr {Name : util-linux-uuid} + puts stderr {Version: 2.40.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Util-linux is a suite of essential utilities for any Linux system.} +} + +conflict util-linux-uuid + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/util-linux-uuid-2.40.2-ipinsoz7risgjpsvpf4ocxhr3rdey5li/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/util-linux-uuid-2.40.2-ipinsoz7risgjpsvpf4ocxhr3rdey5li/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/util-linux-uuid-2.40.2-ipinsoz7risgjpsvpf4ocxhr3rdey5li/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/util-linux-uuid-2.40.2-ipinsoz7risgjpsvpf4ocxhr3rdey5li/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/util-linux-uuid-2.40.2-ipinsoz7risgjpsvpf4ocxhr3rdey5li/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/util-linux-uuid-2.40.2-ipinsoz7risgjpsvpf4ocxhr3rdey5li/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/util-linux-uuid-2.40.2-ipinsoz7risgjpsvpf4ocxhr3rdey5li/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/util-linux-uuid-2.40.2-ipinsoz7risgjpsvpf4ocxhr3rdey5li/.} +setenv UTIL_LINUX_UUID_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/util-linux-uuid-2.40.2-ipinsoz7risgjpsvpf4ocxhr3rdey5li} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/util-linux-uuid/2.40.2-otzhfpv b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/util-linux-uuid/2.40.2-otzhfpv new file mode 100644 index 00000000..693989c3 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/util-linux-uuid/2.40.2-otzhfpv @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:00.135567 +## +## util-linux-uuid@2.40.2%gcc@7.5.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/otzhfpv +## +## Configure options: --disable-use-tty-group --disable-makeinstall-chown --without-systemd --disable-all-programs --without-python --enable-libuuid --disable-bash-completion +## + + +module-whatis {Util-linux is a suite of essential utilities for any Linux system.} + +proc ModulesHelp { } { + puts stderr {Name : util-linux-uuid} + puts stderr {Version: 2.40.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Util-linux is a suite of essential utilities for any Linux system.} +} + +conflict util-linux-uuid + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/util-linux-uuid-2.40.2-otzhfpvbzlokpfvcbkgejxhn2x5dszp2/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/util-linux-uuid-2.40.2-otzhfpvbzlokpfvcbkgejxhn2x5dszp2/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/util-linux-uuid-2.40.2-otzhfpvbzlokpfvcbkgejxhn2x5dszp2/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/util-linux-uuid-2.40.2-otzhfpvbzlokpfvcbkgejxhn2x5dszp2/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/util-linux-uuid-2.40.2-otzhfpvbzlokpfvcbkgejxhn2x5dszp2/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/util-linux-uuid-2.40.2-otzhfpvbzlokpfvcbkgejxhn2x5dszp2/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/util-linux-uuid-2.40.2-otzhfpvbzlokpfvcbkgejxhn2x5dszp2/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/util-linux-uuid-2.40.2-otzhfpvbzlokpfvcbkgejxhn2x5dszp2/.} +setenv UTIL_LINUX_UUID_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/util-linux-uuid-2.40.2-otzhfpvbzlokpfvcbkgejxhn2x5dszp2} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/util-linux-uuid/2.40.2-xesify5 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/util-linux-uuid/2.40.2-xesify5 new file mode 100644 index 00000000..ffb5ad78 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/util-linux-uuid/2.40.2-xesify5 @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:00.142416 +## +## util-linux-uuid@2.40.2%gcc@11.4.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/xesify5 +## +## Configure options: --disable-use-tty-group --disable-makeinstall-chown --without-systemd --disable-all-programs --without-python --enable-libuuid --disable-bash-completion +## + + +module-whatis {Util-linux is a suite of essential utilities for any Linux system.} + +proc ModulesHelp { } { + puts stderr {Name : util-linux-uuid} + puts stderr {Version: 2.40.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Util-linux is a suite of essential utilities for any Linux system.} +} + +conflict util-linux-uuid + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/util-linux-uuid-2.40.2-xesify5chxevm2nzm4bad4s2jquildlm/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/util-linux-uuid-2.40.2-xesify5chxevm2nzm4bad4s2jquildlm/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/util-linux-uuid-2.40.2-xesify5chxevm2nzm4bad4s2jquildlm/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/util-linux-uuid-2.40.2-xesify5chxevm2nzm4bad4s2jquildlm/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/util-linux-uuid-2.40.2-xesify5chxevm2nzm4bad4s2jquildlm/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/util-linux-uuid-2.40.2-xesify5chxevm2nzm4bad4s2jquildlm/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/util-linux-uuid-2.40.2-xesify5chxevm2nzm4bad4s2jquildlm/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/util-linux-uuid-2.40.2-xesify5chxevm2nzm4bad4s2jquildlm/.} +setenv UTIL_LINUX_UUID_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/util-linux-uuid-2.40.2-xesify5chxevm2nzm4bad4s2jquildlm} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/util-macros/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/util-macros/.modulerc new file mode 100644 index 00000000..48a64c5c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/util-macros/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded util-macros/1.20.1-3yo3tyu diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/util-macros/1.20.1-3yo3tyu b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/util-macros/1.20.1-3yo3tyu new file mode 100644 index 00000000..d6ac97bb --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/util-macros/1.20.1-3yo3tyu @@ -0,0 +1,65 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:00.173075 +## +## util-macros@1.20.1%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/3yo3tyu +## + + +module-whatis {This is a set of autoconf macros used by the configure.ac scripts in other Xorg modular packages, and is needed to generate new versions of their configure scripts with autoconf.} + +proc ModulesHelp { } { + puts stderr {Name : util-macros} + puts stderr {Version: 1.20.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {This is a set of autoconf macros used by the configure.ac scripts in} + puts stderr {other Xorg modular packages, and is needed to generate new versions of} + puts stderr {their configure scripts with autoconf.} +} + +conflict util-macros + +prepend-path ACLOCAL_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/util-macros-1.20.1-3yo3tyudfotlwmikwnar7vgpngkhlcxg/share/aclocal} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/util-macros-1.20.1-3yo3tyudfotlwmikwnar7vgpngkhlcxg/share/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/util-macros-1.20.1-3yo3tyudfotlwmikwnar7vgpngkhlcxg/.} +setenv UTIL_MACROS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/util-macros-1.20.1-3yo3tyudfotlwmikwnar7vgpngkhlcxg} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/valgrind/3.20.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/valgrind/3.20.0 new file mode 100644 index 00000000..ad965cb8 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/valgrind/3.20.0 @@ -0,0 +1,75 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:00.183797 +## +## valgrind@3.20.0%gcc@13.2.0+boost~mpi+only64bit~ubsan build_system=autotools libs=shared,static arch=linux-ubuntu22.04-x86_64_v3/cfyztic +## +## Configure options: --enable-shared --enable-static --enable-only64bit --without-mpicc +## + + +module-whatis {An instrumentation framework for building dynamic analysis.} + +proc ModulesHelp { } { + puts stderr {Name : valgrind} + puts stderr {Version: 3.20.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {An instrumentation framework for building dynamic analysis. There are} + puts stderr {Valgrind tools that can automatically detect many memory management and} + puts stderr {threading bugs, and profile your programs in detail. You can also use} + puts stderr {Valgrind to build new tools. Valgrind is Open Source / Free Software,} + puts stderr {and is freely available under the GNU General Public License, version 2.} +} + +conflict valgrind + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/valgrind-3.20.0/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/valgrind-3.20.0/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/valgrind-3.20.0/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/valgrind-3.20.0/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/valgrind-3.20.0/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/valgrind-3.20.0/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/valgrind-3.20.0/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/valgrind-3.20.0/.} +setenv VALGRIND_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/valgrind-3.20.0-cfyzticfitsmozi257cpjgtjqqm6tzrl} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/vcftools/0.1.16 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/vcftools/0.1.16 new file mode 100644 index 00000000..4db32b30 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/vcftools/0.1.16 @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:00.206156 +## +## vcftools@0.1.16%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/qenqygo +## + + +module-whatis {VCFtools is a program package designed for working with VCF files, such as those generated by the 1000 Genomes Project. The aim of VCFtools is to provide easily accessible methods for working with complex genetic variation data in the form of VCF files. } + +proc ModulesHelp { } { + puts stderr {Name : vcftools} + puts stderr {Version: 0.1.16} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {VCFtools is a program package designed for working with VCF files, such} + puts stderr {as those generated by the 1000 Genomes Project. The aim of VCFtools is} + puts stderr {to provide easily accessible methods for working with complex genetic} + puts stderr {variation data in the form of VCF files.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij +} else { + depends-on perl/5.40.0-lzbctij +} +conflict vcftools + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/vcftools-0.1.16/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/vcftools-0.1.16/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/vcftools-0.1.16/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/vcftools-0.1.16/.} +prepend-path PERL5LIB {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/vcftools-0.1.16/lib} +setenv VCFTOOLS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/vcftools-0.1.16-qenqygoozs3yrmy74fdkrnewq7hvhzpb} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/velvet/1.2.10 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/velvet/1.2.10 new file mode 100644 index 00000000..4138dae0 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/velvet/1.2.10 @@ -0,0 +1,63 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:00.226175 +## +## velvet@1.2.10%gcc@13.2.0~bigassembly~longsequences~openmp~single_cov_cat~vbigassembly build_system=makefile categories=2 maxkmerlength=31 arch=linux-ubuntu22.04-x86_64_v3/iuash5h +## + + +module-whatis {Velvet is a de novo genomic assembler specially designed for short read sequencing technologies.} + +proc ModulesHelp { } { + puts stderr {Name : velvet} + puts stderr {Version: 1.2.10} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Velvet is a de novo genomic assembler specially designed for short read} + puts stderr {sequencing technologies.} +} + +conflict velvet + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/velvet-1.2.10/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/velvet-1.2.10/.} +setenv VELVET_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/velvet-1.2.10-iuash5hqmhtpkr2hzehabq37gs52pcmx} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/velvetoptimiser/2.2.6 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/velvetoptimiser/2.2.6 new file mode 100644 index 00000000..1fa1d7e3 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/velvetoptimiser/2.2.6 @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:00.248996 +## +## velvetoptimiser@2.2.6%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/5yzvokh +## + + +module-whatis {Automatically optimise three of Velvet's assembly parameters.} + +proc ModulesHelp { } { + puts stderr {Name : velvetoptimiser} + puts stderr {Version: 2.2.6} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Automatically optimise three of Velvet's assembly parameters.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load perl-bioperl/1.7.8-t2wyx73 + module load velvet/1.2.10 +} else { + depends-on perl/5.40.0-lzbctij + depends-on perl-bioperl/1.7.8-t2wyx73 + depends-on velvet/1.2.10 +} +conflict velvetoptimiser + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/velvetoptimiser-2.2.6/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/velvetoptimiser-2.2.6/.} +setenv VELVETOPTIMISER_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/velvetoptimiser-2.2.6-5yzvokhg57mmmzny4tlnfdpnmardjfvk} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/viennarna/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/viennarna/.modulerc new file mode 100644 index 00000000..a2fb5b59 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/viennarna/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded viennarna/2.6.4-sgrthhv diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/viennarna/2.6.4-sgrthhv b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/viennarna/2.6.4-sgrthhv new file mode 100644 index 00000000..84f40f19 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/viennarna/2.6.4-sgrthhv @@ -0,0 +1,80 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:00.426333 +## +## viennarna@2.6.4%gcc@13.2.0+perl+python+sse build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/sgrthhv +## +## Configure options: --enable-sse --with-python --with-perl --with-python3 +## + + +module-whatis {The ViennaRNA Package consists of a C code library and several stand-alone programs for the prediction and comparison of RNA secondary structures. } + +proc ModulesHelp { } { + puts stderr {Name : viennarna} + puts stderr {Version: 2.6.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The ViennaRNA Package consists of a C code library and several stand-} + puts stderr {alone programs for the prediction and comparison of RNA secondary} + puts stderr {structures.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load perl/5.40.0-lzbctij + module load python/3.13.0-xf4zxxe +} else { + depends-on perl/5.40.0-lzbctij + depends-on python/3.13.0-xf4zxxe +} +conflict viennarna + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/viennarna-2.6.4-sgrthhvgor4rj5d4vpyht3s6twsmigps/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/viennarna-2.6.4-sgrthhvgor4rj5d4vpyht3s6twsmigps/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/viennarna-2.6.4-sgrthhvgor4rj5d4vpyht3s6twsmigps/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/viennarna-2.6.4-sgrthhvgor4rj5d4vpyht3s6twsmigps/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/viennarna-2.6.4-sgrthhvgor4rj5d4vpyht3s6twsmigps/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/viennarna-2.6.4-sgrthhvgor4rj5d4vpyht3s6twsmigps/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/viennarna-2.6.4-sgrthhvgor4rj5d4vpyht3s6twsmigps/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/viennarna-2.6.4-sgrthhvgor4rj5d4vpyht3s6twsmigps/.} +setenv VIENNARNA_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/viennarna-2.6.4-sgrthhvgor4rj5d4vpyht3s6twsmigps} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/virtualgl/2.5.2 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/virtualgl/2.5.2 new file mode 100644 index 00000000..eaf941c3 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/virtualgl/2.5.2 @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:00.446064 +## +## virtualgl@2.5.2%gcc@13.2.0~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/jd3m7fx +## + + +module-whatis {VirtualGL redirects 3D commands from a Unix/Linux OpenGL application onto a server-side GPU and converts the rendered 3D images into a video stream with which remote clients can interact to view and control the 3D application in real time.} + +proc ModulesHelp { } { + puts stderr {Name : virtualgl} + puts stderr {Version: 2.5.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {VirtualGL redirects 3D commands from a Unix/Linux OpenGL application} + puts stderr {onto a server-side GPU and converts the rendered 3D images into a video} + puts stderr {stream with which remote clients can interact to view and control the 3D} + puts stderr {application in real time.} +} + +conflict virtualgl + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/virtualgl-2.5.2/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/virtualgl-2.5.2/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/virtualgl-2.5.2/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/virtualgl-2.5.2/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/virtualgl-2.5.2/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/virtualgl-2.5.2/.} +setenv VIRTUALGL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/virtualgl-2.5.2-jd3m7fxb6t5ael3n73eflncfsb5kqzdk} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/voropp/0.4.6 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/voropp/0.4.6 new file mode 100644 index 00000000..2a04094e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/voropp/0.4.6 @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:00.550276 +## +## voropp@0.4.6%gcc@13.2.0~ipo+shared build_system=cmake build_type=Release generator=make patches=b12e401 arch=linux-ubuntu22.04-x86_64_v3/ua6hdmy +## +## Configure options: -DBUILD_SHARED_LIBS:BOOL=ON +## + + +module-whatis {Voro++ is a open source software library for the computation of the Voronoi diagram, a widely-used tessellation that has applications in many scientific fields.} + +proc ModulesHelp { } { + puts stderr {Name : voropp} + puts stderr {Version: 0.4.6} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Voro++ is a open source software library for the computation of the} + puts stderr {Voronoi diagram, a widely-used tessellation that has applications in} + puts stderr {many scientific fields.} +} + +conflict voropp + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/voropp-0.4.6/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/voropp-0.4.6/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/voropp-0.4.6/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/voropp-0.4.6/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/voropp-0.4.6/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/voropp-0.4.6/.} +setenv VOROPP_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/voropp-0.4.6-ua6hdmyqj5vd4gg4vcmki3vbw37zylnu} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/vsearch/2.22.1 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/vsearch/2.22.1 new file mode 100644 index 00000000..a0725c1d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/vsearch/2.22.1 @@ -0,0 +1,64 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:01.266119 +## +## vsearch@2.22.1%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/ue4oqlw +## + + +module-whatis {VSEARCH is a versatile open-source tool for metagenomics.} + +proc ModulesHelp { } { + puts stderr {Name : vsearch} + puts stderr {Version: 2.22.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {VSEARCH is a versatile open-source tool for metagenomics.} +} + +conflict vsearch + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/vsearch-2.22.1/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/vsearch-2.22.1/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/vsearch-2.22.1/.} +setenv VSEARCH_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/vsearch-2.22.1-ue4oqlwahizzwe57d53pz4u5rqqr7lra} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/wget/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/wget/.modulerc new file mode 100644 index 00000000..ca7170a1 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/wget/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded wget/1.24.5-nfbajcs diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/wget/1.24.5-nfbajcs b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/wget/1.24.5-nfbajcs new file mode 100644 index 00000000..7950e354 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/wget/1.24.5-nfbajcs @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:01.291712 +## +## wget@1.24.5%gcc@13.2.0~libpsl~pcre~python+zlib build_system=autotools ssl=openssl arch=linux-ubuntu22.04-x86_64_v3/nfbajcs +## +## Configure options: --with-ssl=openssl --without-included-regex --with-zlib --without-libpsl --disable-pcre --disable-valgrind-tests +## + + +module-whatis {GNU Wget is a free software package for retrieving files using HTTP, HTTPS and FTP, the most widely-used Internet protocols. It is a non-interactive commandline tool, so it may easily be called from scripts, cron jobs, terminals without X-Windows support, etc.} + +proc ModulesHelp { } { + puts stderr {Name : wget} + puts stderr {Version: 1.24.5} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {GNU Wget is a free software package for retrieving files using HTTP,} + puts stderr {HTTPS and FTP, the most widely-used Internet protocols. It is a non-} + puts stderr {interactive commandline tool, so it may easily be called from scripts,} + puts stderr {cron jobs, terminals without X-Windows support, etc.} +} + +conflict wget + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/wget-1.24.5-nfbajcsk7m3i47qftmnfcw2qmct4nncd/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/wget-1.24.5-nfbajcsk7m3i47qftmnfcw2qmct4nncd/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/wget-1.24.5-nfbajcsk7m3i47qftmnfcw2qmct4nncd/.} +setenv WGET_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/wget-1.24.5-nfbajcsk7m3i47qftmnfcw2qmct4nncd} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/which/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/which/.modulerc new file mode 100644 index 00000000..412c4c26 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/which/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded which/2.21-howpuqs diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/which/2.21-howpuqs b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/which/2.21-howpuqs new file mode 100644 index 00000000..d331bded --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/which/2.21-howpuqs @@ -0,0 +1,65 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:01.300855 +## +## which@2.21%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/howpuqs +## + + +module-whatis {GNU which - is a utility that is used to find which executable (or alias or shell function) is executed when entered on the shell prompt.} + +proc ModulesHelp { } { + puts stderr {Name : which} + puts stderr {Version: 2.21} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {GNU which - is a utility that is used to find which executable (or alias} + puts stderr {or shell function) is executed when entered on the shell prompt.} +} + +conflict which + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/which-2.21-howpuqsxrzwadksmnrabxngud5rasbsq/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/which-2.21-howpuqsxrzwadksmnrabxngud5rasbsq/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/which-2.21-howpuqsxrzwadksmnrabxngud5rasbsq/.} +setenv WHICH_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/which-2.21-howpuqsxrzwadksmnrabxngud5rasbsq} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xcb-util-image/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xcb-util-image/.modulerc new file mode 100644 index 00000000..f42143e8 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xcb-util-image/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded xcb-util-image/0.4.1-bz2pitw diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xcb-util-image/0.4.1-bz2pitw b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xcb-util-image/0.4.1-bz2pitw new file mode 100644 index 00000000..66ed6652 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xcb-util-image/0.4.1-bz2pitw @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:01.318411 +## +## xcb-util-image@0.4.1%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/bz2pitw +## + + +module-whatis {The XCB util modules provides a number of libraries which sit on top of libxcb, the core X protocol library, and some of the extension libraries. These experimental libraries provide convenience functions and interfaces which make the raw X protocol more usable. Some of the libraries also provide client-side code which is not strictly part of the X protocol but which have traditionally been provided by Xlib.} + +proc ModulesHelp { } { + puts stderr {Name : xcb-util-image} + puts stderr {Version: 0.4.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The XCB util modules provides a number of libraries which sit on top of} + puts stderr {libxcb, the core X protocol library, and some of the extension} + puts stderr {libraries. These experimental libraries provide convenience functions} + puts stderr {and interfaces which make the raw X protocol more usable. Some of the} + puts stderr {libraries also provide client-side code which is not strictly part of} + puts stderr {the X protocol but which have traditionally been provided by Xlib.} +} + +conflict xcb-util-image + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xcb-util-image-0.4.1-bz2pitwyxkudyyfwkevat4m6wv6arb46/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xcb-util-image-0.4.1-bz2pitwyxkudyyfwkevat4m6wv6arb46/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xcb-util-image-0.4.1-bz2pitwyxkudyyfwkevat4m6wv6arb46/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xcb-util-image-0.4.1-bz2pitwyxkudyyfwkevat4m6wv6arb46/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xcb-util-image-0.4.1-bz2pitwyxkudyyfwkevat4m6wv6arb46/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xcb-util-image-0.4.1-bz2pitwyxkudyyfwkevat4m6wv6arb46/.} +setenv XCB_UTIL_IMAGE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xcb-util-image-0.4.1-bz2pitwyxkudyyfwkevat4m6wv6arb46} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xcb-util-keysyms/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xcb-util-keysyms/.modulerc new file mode 100644 index 00000000..70aa3465 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xcb-util-keysyms/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded xcb-util-keysyms/0.4.1-kn4nle5 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xcb-util-keysyms/0.4.1-kn4nle5 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xcb-util-keysyms/0.4.1-kn4nle5 new file mode 100644 index 00000000..dcd85580 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xcb-util-keysyms/0.4.1-kn4nle5 @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:01.328605 +## +## xcb-util-keysyms@0.4.1%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/kn4nle5 +## + + +module-whatis {The XCB util modules provides a number of libraries which sit on top of libxcb, the core X protocol library, and some of the extension libraries. These experimental libraries provide convenience functions and interfaces which make the raw X protocol more usable. Some of the libraries also provide client-side code which is not strictly part of the X protocol but which have traditionally been provided by Xlib.} + +proc ModulesHelp { } { + puts stderr {Name : xcb-util-keysyms} + puts stderr {Version: 0.4.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The XCB util modules provides a number of libraries which sit on top of} + puts stderr {libxcb, the core X protocol library, and some of the extension} + puts stderr {libraries. These experimental libraries provide convenience functions} + puts stderr {and interfaces which make the raw X protocol more usable. Some of the} + puts stderr {libraries also provide client-side code which is not strictly part of} + puts stderr {the X protocol but which have traditionally been provided by Xlib.} +} + +conflict xcb-util-keysyms + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xcb-util-keysyms-0.4.1-kn4nle5g3lov4hsrubtayu7vrkv3j6zq/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xcb-util-keysyms-0.4.1-kn4nle5g3lov4hsrubtayu7vrkv3j6zq/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xcb-util-keysyms-0.4.1-kn4nle5g3lov4hsrubtayu7vrkv3j6zq/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xcb-util-keysyms-0.4.1-kn4nle5g3lov4hsrubtayu7vrkv3j6zq/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xcb-util-keysyms-0.4.1-kn4nle5g3lov4hsrubtayu7vrkv3j6zq/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xcb-util-keysyms-0.4.1-kn4nle5g3lov4hsrubtayu7vrkv3j6zq/.} +setenv XCB_UTIL_KEYSYMS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xcb-util-keysyms-0.4.1-kn4nle5g3lov4hsrubtayu7vrkv3j6zq} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xcb-util-renderutil/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xcb-util-renderutil/.modulerc new file mode 100644 index 00000000..812dc356 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xcb-util-renderutil/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded xcb-util-renderutil/0.3.10-5ptft6z diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xcb-util-renderutil/0.3.10-5ptft6z b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xcb-util-renderutil/0.3.10-5ptft6z new file mode 100644 index 00000000..7b010dca --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xcb-util-renderutil/0.3.10-5ptft6z @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:01.338501 +## +## xcb-util-renderutil@0.3.10%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/5ptft6z +## + + +module-whatis {The XCB util modules provides a number of libraries which sit on top of libxcb, the core X protocol library, and some of the extension libraries. These experimental libraries provide convenience functions and interfaces which make the raw X protocol more usable. Some of the libraries also provide client-side code which is not strictly part of the X protocol but which have traditionally been provided by Xlib.} + +proc ModulesHelp { } { + puts stderr {Name : xcb-util-renderutil} + puts stderr {Version: 0.3.10} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The XCB util modules provides a number of libraries which sit on top of} + puts stderr {libxcb, the core X protocol library, and some of the extension} + puts stderr {libraries. These experimental libraries provide convenience functions} + puts stderr {and interfaces which make the raw X protocol more usable. Some of the} + puts stderr {libraries also provide client-side code which is not strictly part of} + puts stderr {the X protocol but which have traditionally been provided by Xlib.} +} + +conflict xcb-util-renderutil + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xcb-util-renderutil-0.3.10-5ptft6zocrmp7ojoiacsqwjshv6ha75b/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xcb-util-renderutil-0.3.10-5ptft6zocrmp7ojoiacsqwjshv6ha75b/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xcb-util-renderutil-0.3.10-5ptft6zocrmp7ojoiacsqwjshv6ha75b/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xcb-util-renderutil-0.3.10-5ptft6zocrmp7ojoiacsqwjshv6ha75b/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xcb-util-renderutil-0.3.10-5ptft6zocrmp7ojoiacsqwjshv6ha75b/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xcb-util-renderutil-0.3.10-5ptft6zocrmp7ojoiacsqwjshv6ha75b/.} +setenv XCB_UTIL_RENDERUTIL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xcb-util-renderutil-0.3.10-5ptft6zocrmp7ojoiacsqwjshv6ha75b} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xcb-util-wm/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xcb-util-wm/.modulerc new file mode 100644 index 00000000..0b88ef5c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xcb-util-wm/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded xcb-util-wm/0.4.2-sgya63u diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xcb-util-wm/0.4.2-sgya63u b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xcb-util-wm/0.4.2-sgya63u new file mode 100644 index 00000000..46415336 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xcb-util-wm/0.4.2-sgya63u @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:01.348427 +## +## xcb-util-wm@0.4.2%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/sgya63u +## + + +module-whatis {The XCB util modules provides a number of libraries which sit on top of libxcb, the core X protocol library, and some of the extension libraries. These experimental libraries provide convenience functions and interfaces which make the raw X protocol more usable. Some of the libraries also provide client-side code which is not strictly part of the X protocol but which have traditionally been provided by Xlib.} + +proc ModulesHelp { } { + puts stderr {Name : xcb-util-wm} + puts stderr {Version: 0.4.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The XCB util modules provides a number of libraries which sit on top of} + puts stderr {libxcb, the core X protocol library, and some of the extension} + puts stderr {libraries. These experimental libraries provide convenience functions} + puts stderr {and interfaces which make the raw X protocol more usable. Some of the} + puts stderr {libraries also provide client-side code which is not strictly part of} + puts stderr {the X protocol but which have traditionally been provided by Xlib.} +} + +conflict xcb-util-wm + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xcb-util-wm-0.4.2-sgya63unmtc56yfsdn2b2bdiczr3mmy5/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xcb-util-wm-0.4.2-sgya63unmtc56yfsdn2b2bdiczr3mmy5/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xcb-util-wm-0.4.2-sgya63unmtc56yfsdn2b2bdiczr3mmy5/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xcb-util-wm-0.4.2-sgya63unmtc56yfsdn2b2bdiczr3mmy5/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xcb-util-wm-0.4.2-sgya63unmtc56yfsdn2b2bdiczr3mmy5/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xcb-util-wm-0.4.2-sgya63unmtc56yfsdn2b2bdiczr3mmy5/.} +setenv XCB_UTIL_WM_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xcb-util-wm-0.4.2-sgya63unmtc56yfsdn2b2bdiczr3mmy5} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xcb-util/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xcb-util/.modulerc new file mode 100644 index 00000000..3402d04a --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xcb-util/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded xcb-util/0.4.1-thjjj4c diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xcb-util/0.4.1-thjjj4c b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xcb-util/0.4.1-thjjj4c new file mode 100644 index 00000000..84209572 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xcb-util/0.4.1-thjjj4c @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:01.308485 +## +## xcb-util@0.4.1%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/thjjj4c +## + + +module-whatis {The XCB util modules provides a number of libraries which sit on top of libxcb, the core X protocol library, and some of the extension libraries. These experimental libraries provide convenience functions and interfaces which make the raw X protocol more usable. Some of the libraries also provide client-side code which is not strictly part of the X protocol but which have traditionally been provided by Xlib.} + +proc ModulesHelp { } { + puts stderr {Name : xcb-util} + puts stderr {Version: 0.4.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The XCB util modules provides a number of libraries which sit on top of} + puts stderr {libxcb, the core X protocol library, and some of the extension} + puts stderr {libraries. These experimental libraries provide convenience functions} + puts stderr {and interfaces which make the raw X protocol more usable. Some of the} + puts stderr {libraries also provide client-side code which is not strictly part of} + puts stderr {the X protocol but which have traditionally been provided by Xlib.} +} + +conflict xcb-util + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xcb-util-0.4.1-thjjj4cot7c6drpgyn253inuxlegmwou/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xcb-util-0.4.1-thjjj4cot7c6drpgyn253inuxlegmwou/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xcb-util-0.4.1-thjjj4cot7c6drpgyn253inuxlegmwou/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xcb-util-0.4.1-thjjj4cot7c6drpgyn253inuxlegmwou/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xcb-util-0.4.1-thjjj4cot7c6drpgyn253inuxlegmwou/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xcb-util-0.4.1-thjjj4cot7c6drpgyn253inuxlegmwou/.} +setenv XCB_UTIL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xcb-util-0.4.1-thjjj4cot7c6drpgyn253inuxlegmwou} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xerces-c/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xerces-c/.modulerc new file mode 100644 index 00000000..d7c19ecd --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xerces-c/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded xerces-c/3.3.0-wslac4m diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xerces-c/3.2.4 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xerces-c/3.2.4 new file mode 100644 index 00000000..f15316b7 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xerces-c/3.2.4 @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:01.358212 +## +## xerces-c@3.2.4%gcc@13.2.0 build_system=autotools cxxstd=default netaccessor=curl transcoder=gnuiconv arch=linux-ubuntu22.04-x86_64_v3/zkci4mw +## +## Configure options: --enable-netaccessor-curl --enable-transcoder-gnuiconv +## + + +module-whatis {Xerces-C++ is a validating XML parser written in a portable subset of C++. Xerces-C++ makes it easy to give your application the ability to read and write XML data. A shared library is provided for parsing, generating, manipulating, and validating XML documents using the DOM, SAX, and SAX2 APIs.} + +proc ModulesHelp { } { + puts stderr {Name : xerces-c} + puts stderr {Version: 3.2.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Xerces-C++ is a validating XML parser written in a portable subset of} + puts stderr {C++. Xerces-C++ makes it easy to give your application the ability to} + puts stderr {read and write XML data. A shared library is provided for parsing,} + puts stderr {generating, manipulating, and validating XML documents using the DOM,} + puts stderr {SAX, and SAX2 APIs.} +} + +conflict xerces-c + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/xerces-c-3.2.4/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/xerces-c-3.2.4/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/xerces-c-3.2.4/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/xerces-c-3.2.4/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/xerces-c-3.2.4/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/xerces-c-3.2.4/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/xerces-c-3.2.4/.} +setenv XERCES_C_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xerces-c-3.2.4-zkci4mw6j5fat4iseabnp6phcpdawdac} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xerces-c/3.3.0-wslac4m b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xerces-c/3.3.0-wslac4m new file mode 100644 index 00000000..f1f1f33f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xerces-c/3.3.0-wslac4m @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:01.438243 +## +## xerces-c@3.3.0%gcc@13.2.0 build_system=autotools cxxstd=17 netaccessor=curl transcoder=gnuiconv arch=linux-ubuntu22.04-x86_64_v3/wslac4m +## +## Configure options: --enable-netaccessor-curl --enable-transcoder-gnuiconv +## + + +module-whatis {Xerces-C++ is a validating XML parser written in a portable subset of C++. Xerces-C++ makes it easy to give your application the ability to read and write XML data. A shared library is provided for parsing, generating, manipulating, and validating XML documents using the DOM, SAX, and SAX2 APIs.} + +proc ModulesHelp { } { + puts stderr {Name : xerces-c} + puts stderr {Version: 3.3.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Xerces-C++ is a validating XML parser written in a portable subset of} + puts stderr {C++. Xerces-C++ makes it easy to give your application the ability to} + puts stderr {read and write XML data. A shared library is provided for parsing,} + puts stderr {generating, manipulating, and validating XML documents using the DOM,} + puts stderr {SAX, and SAX2 APIs.} +} + +conflict xerces-c + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xerces-c-3.3.0-wslac4mg5dw4daga62guxemy6cof7tm5/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xerces-c-3.3.0-wslac4mg5dw4daga62guxemy6cof7tm5/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xerces-c-3.3.0-wslac4mg5dw4daga62guxemy6cof7tm5/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xerces-c-3.3.0-wslac4mg5dw4daga62guxemy6cof7tm5/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xerces-c-3.3.0-wslac4mg5dw4daga62guxemy6cof7tm5/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xerces-c-3.3.0-wslac4mg5dw4daga62guxemy6cof7tm5/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xerces-c-3.3.0-wslac4mg5dw4daga62guxemy6cof7tm5/.} +setenv XERCES_C_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xerces-c-3.3.0-wslac4mg5dw4daga62guxemy6cof7tm5} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xextproto/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xextproto/.modulerc new file mode 100644 index 00000000..8c4dfa31 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xextproto/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded xextproto/7.3.0-s633sff +module-hide --soft --hidden-loaded xextproto/7.3.0-jiq4hyn diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xextproto/7.3.0-jiq4hyn b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xextproto/7.3.0-jiq4hyn new file mode 100644 index 00000000..9eb6e096 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xextproto/7.3.0-jiq4hyn @@ -0,0 +1,66 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:01.454801 +## +## xextproto@7.3.0%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/jiq4hyn +## + + +module-whatis {X Protocol Extensions.} + +proc ModulesHelp { } { + puts stderr {Name : xextproto} + puts stderr {Version: 7.3.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {X Protocol Extensions.} +} + +conflict xextproto + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xextproto-7.3.0-jiq4hyndbr42m7xlk6ir7747o6yuimeb/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xextproto-7.3.0-jiq4hyndbr42m7xlk6ir7747o6yuimeb/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xextproto-7.3.0-jiq4hyndbr42m7xlk6ir7747o6yuimeb/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xextproto-7.3.0-jiq4hyndbr42m7xlk6ir7747o6yuimeb/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xextproto-7.3.0-jiq4hyndbr42m7xlk6ir7747o6yuimeb/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xextproto-7.3.0-jiq4hyndbr42m7xlk6ir7747o6yuimeb/.} +setenv XEXTPROTO_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xextproto-7.3.0-jiq4hyndbr42m7xlk6ir7747o6yuimeb} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xextproto/7.3.0-s633sff b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xextproto/7.3.0-s633sff new file mode 100644 index 00000000..0b3b316e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xextproto/7.3.0-s633sff @@ -0,0 +1,66 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:01.447615 +## +## xextproto@7.3.0%gcc@11.4.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/s633sff +## + + +module-whatis {X Protocol Extensions.} + +proc ModulesHelp { } { + puts stderr {Name : xextproto} + puts stderr {Version: 7.3.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {X Protocol Extensions.} +} + +conflict xextproto + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/xextproto-7.3.0-s633sffitew6y5miolwus3latgrulsaw/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/xextproto-7.3.0-s633sffitew6y5miolwus3latgrulsaw/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/xextproto-7.3.0-s633sffitew6y5miolwus3latgrulsaw/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/xextproto-7.3.0-s633sffitew6y5miolwus3latgrulsaw/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/xextproto-7.3.0-s633sffitew6y5miolwus3latgrulsaw/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/xextproto-7.3.0-s633sffitew6y5miolwus3latgrulsaw/.} +setenv XEXTPROTO_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/xextproto-7.3.0-s633sffitew6y5miolwus3latgrulsaw} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xineramaproto/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xineramaproto/.modulerc new file mode 100644 index 00000000..d8059194 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xineramaproto/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded xineramaproto/1.2.1-bm3j4uf diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xineramaproto/1.2.1-bm3j4uf b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xineramaproto/1.2.1-bm3j4uf new file mode 100644 index 00000000..ac3e12ae --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xineramaproto/1.2.1-bm3j4uf @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:01.462518 +## +## xineramaproto@1.2.1%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/bm3j4uf +## + + +module-whatis {X Xinerama Extension.} + +proc ModulesHelp { } { + puts stderr {Name : xineramaproto} + puts stderr {Version: 1.2.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {X Xinerama Extension. This is an X extension that allows multiple} + puts stderr {physical screens controlled by a single X server to appear as a single} + puts stderr {screen.} +} + +conflict xineramaproto + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xineramaproto-1.2.1-bm3j4ufhq7qwrrpzrws23nayc6nduqco/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xineramaproto-1.2.1-bm3j4ufhq7qwrrpzrws23nayc6nduqco/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xineramaproto-1.2.1-bm3j4ufhq7qwrrpzrws23nayc6nduqco/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xineramaproto-1.2.1-bm3j4ufhq7qwrrpzrws23nayc6nduqco/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xineramaproto-1.2.1-bm3j4ufhq7qwrrpzrws23nayc6nduqco/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xineramaproto-1.2.1-bm3j4ufhq7qwrrpzrws23nayc6nduqco/.} +setenv XINERAMAPROTO_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xineramaproto-1.2.1-bm3j4ufhq7qwrrpzrws23nayc6nduqco} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xkbdata/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xkbdata/.modulerc new file mode 100644 index 00000000..f884c0b4 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xkbdata/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded xkbdata/1.0.1-2clmglg diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xkbdata/1.0.1-2clmglg b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xkbdata/1.0.1-2clmglg new file mode 100644 index 00000000..40bba083 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xkbdata/1.0.1-2clmglg @@ -0,0 +1,62 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:01.470372 +## +## xkbdata@1.0.1%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/2clmglg +## + + +module-whatis {The XKB data files for the various keyboard models, layouts, and locales.} + +proc ModulesHelp { } { + puts stderr {Name : xkbdata} + puts stderr {Version: 1.0.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {The XKB data files for the various keyboard models, layouts, and} + puts stderr {locales.} +} + +conflict xkbdata + +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xkbdata-1.0.1-2clmglgcuj7i4ye6mr5omgfw3grtuxoc/.} +setenv XKBDATA_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xkbdata-1.0.1-2clmglgcuj7i4ye6mr5omgfw3grtuxoc} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xproto/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xproto/.modulerc new file mode 100644 index 00000000..647fdc7e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xproto/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded xproto/7.0.31-evtmlvl +module-hide --soft --hidden-loaded xproto/7.0.31-ewzifv3 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xproto/7.0.31-evtmlvl b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xproto/7.0.31-evtmlvl new file mode 100644 index 00000000..7d669d27 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xproto/7.0.31-evtmlvl @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:01.478105 +## +## xproto@7.0.31%gcc@11.4.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/evtmlvl +## + + +module-whatis {X Window System Core Protocol.} + +proc ModulesHelp { } { + puts stderr {Name : xproto} + puts stderr {Version: 7.0.31} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {X Window System Core Protocol. This package provides the headers and} + puts stderr {specification documents defining the X Window System Core Protocol,} + puts stderr {Version 11. It also includes a number of headers that aren't purely} + puts stderr {protocol related, but are depended upon by many other X Window System} + puts stderr {packages to provide common definitions and porting layer.} +} + +conflict xproto + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/xproto-7.0.31-evtmlvlw4tc25s3bk4wc3qgve3c34yrc/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/xproto-7.0.31-evtmlvlw4tc25s3bk4wc3qgve3c34yrc/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/xproto-7.0.31-evtmlvlw4tc25s3bk4wc3qgve3c34yrc/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/xproto-7.0.31-evtmlvlw4tc25s3bk4wc3qgve3c34yrc/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/xproto-7.0.31-evtmlvlw4tc25s3bk4wc3qgve3c34yrc/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/xproto-7.0.31-evtmlvlw4tc25s3bk4wc3qgve3c34yrc/.} +setenv XPROTO_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/xproto-7.0.31-evtmlvlw4tc25s3bk4wc3qgve3c34yrc} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xproto/7.0.31-ewzifv3 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xproto/7.0.31-ewzifv3 new file mode 100644 index 00000000..e514298d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xproto/7.0.31-ewzifv3 @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:01.485151 +## +## xproto@7.0.31%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/ewzifv3 +## + + +module-whatis {X Window System Core Protocol.} + +proc ModulesHelp { } { + puts stderr {Name : xproto} + puts stderr {Version: 7.0.31} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {X Window System Core Protocol. This package provides the headers and} + puts stderr {specification documents defining the X Window System Core Protocol,} + puts stderr {Version 11. It also includes a number of headers that aren't purely} + puts stderr {protocol related, but are depended upon by many other X Window System} + puts stderr {packages to provide common definitions and porting layer.} +} + +conflict xproto + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xproto-7.0.31-ewzifv3ygerh7p6rdnpfc7vh7st5vdkm/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xproto-7.0.31-ewzifv3ygerh7p6rdnpfc7vh7st5vdkm/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xproto-7.0.31-ewzifv3ygerh7p6rdnpfc7vh7st5vdkm/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xproto-7.0.31-ewzifv3ygerh7p6rdnpfc7vh7st5vdkm/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xproto-7.0.31-ewzifv3ygerh7p6rdnpfc7vh7st5vdkm/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xproto-7.0.31-ewzifv3ygerh7p6rdnpfc7vh7st5vdkm/.} +setenv XPROTO_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xproto-7.0.31-ewzifv3ygerh7p6rdnpfc7vh7st5vdkm} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xrandr/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xrandr/.modulerc new file mode 100644 index 00000000..c08e27c4 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xrandr/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded xrandr/1.5.2-zrmxsv3 +module-hide --soft --hidden-loaded xrandr/1.5.2-yp7xs7p diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xrandr/1.5.2-yp7xs7p b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xrandr/1.5.2-yp7xs7p new file mode 100644 index 00000000..dc7bea1a --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xrandr/1.5.2-yp7xs7p @@ -0,0 +1,66 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:01.505075 +## +## xrandr@1.5.2%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/yp7xs7p +## + + +module-whatis {xrandr - primitive command line interface to X11 Resize, Rotate, and Reflect (RandR) extension.} + +proc ModulesHelp { } { + puts stderr {Name : xrandr} + puts stderr {Version: 1.5.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {xrandr - primitive command line interface to X11 Resize, Rotate, and} + puts stderr {Reflect (RandR) extension.} +} + +conflict xrandr + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xrandr-1.5.2-yp7xs7pw3phn363shcnbi5r3wmr5uheb/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xrandr-1.5.2-yp7xs7pw3phn363shcnbi5r3wmr5uheb/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xrandr-1.5.2-yp7xs7pw3phn363shcnbi5r3wmr5uheb/.} +prepend-path XLOCALEDIR {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/libx11-1.8.10-dufv2eokil27hgb3ao7tuotsswt65llr/share/X11/locale} +setenv XRANDR_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xrandr-1.5.2-yp7xs7pw3phn363shcnbi5r3wmr5uheb} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xrandr/1.5.2-zrmxsv3 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xrandr/1.5.2-zrmxsv3 new file mode 100644 index 00000000..c1ca4a5d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xrandr/1.5.2-zrmxsv3 @@ -0,0 +1,66 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:01.493194 +## +## xrandr@1.5.2%gcc@11.4.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/zrmxsv3 +## + + +module-whatis {xrandr - primitive command line interface to X11 Resize, Rotate, and Reflect (RandR) extension.} + +proc ModulesHelp { } { + puts stderr {Name : xrandr} + puts stderr {Version: 1.5.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {xrandr - primitive command line interface to X11 Resize, Rotate, and} + puts stderr {Reflect (RandR) extension.} +} + +conflict xrandr + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/xrandr-1.5.2-zrmxsv3r5aqoslwdypybxm2rkq64xqdq/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/xrandr-1.5.2-zrmxsv3r5aqoslwdypybxm2rkq64xqdq/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/xrandr-1.5.2-zrmxsv3r5aqoslwdypybxm2rkq64xqdq/.} +prepend-path XLOCALEDIR {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/libx11-1.8.10-unej5ji4ptyf5ujs2ovph2sfuxtdmdqc/share/X11/locale} +setenv XRANDR_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/xrandr-1.5.2-zrmxsv3r5aqoslwdypybxm2rkq64xqdq} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xtrans/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xtrans/.modulerc new file mode 100644 index 00000000..f328a5d4 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xtrans/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded xtrans/1.5.2-n6jedrf +module-hide --soft --hidden-loaded xtrans/1.5.2-hygz64k diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xtrans/1.5.2-hygz64k b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xtrans/1.5.2-hygz64k new file mode 100644 index 00000000..b226556b --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xtrans/1.5.2-hygz64k @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:01.525022 +## +## xtrans@1.5.2%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/hygz64k +## + + +module-whatis {xtrans is a library of code that is shared among various X packages to handle network protocol transport in a modular fashion, allowing a single place to add new transport types. It is used by the X server, libX11, libICE, the X font server, and related components.} + +proc ModulesHelp { } { + puts stderr {Name : xtrans} + puts stderr {Version: 1.5.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {xtrans is a library of code that is shared among various X packages to} + puts stderr {handle network protocol transport in a modular fashion, allowing a} + puts stderr {single place to add new transport types. It is used by the X server,} + puts stderr {libX11, libICE, the X font server, and related components.} +} + +conflict xtrans + +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xtrans-1.5.2-hygz64kwt45mfczfe5yri73qkhluwlu2/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xtrans-1.5.2-hygz64kwt45mfczfe5yri73qkhluwlu2/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xtrans-1.5.2-hygz64kwt45mfczfe5yri73qkhluwlu2/include} +prepend-path ACLOCAL_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xtrans-1.5.2-hygz64kwt45mfczfe5yri73qkhluwlu2/share/aclocal} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xtrans-1.5.2-hygz64kwt45mfczfe5yri73qkhluwlu2/share/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xtrans-1.5.2-hygz64kwt45mfczfe5yri73qkhluwlu2/.} +setenv XTRANS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xtrans-1.5.2-hygz64kwt45mfczfe5yri73qkhluwlu2} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xtrans/1.5.2-n6jedrf b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xtrans/1.5.2-n6jedrf new file mode 100644 index 00000000..7b1a848f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xtrans/1.5.2-n6jedrf @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:01.518102 +## +## xtrans@1.5.2%gcc@11.4.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/n6jedrf +## + + +module-whatis {xtrans is a library of code that is shared among various X packages to handle network protocol transport in a modular fashion, allowing a single place to add new transport types. It is used by the X server, libX11, libICE, the X font server, and related components.} + +proc ModulesHelp { } { + puts stderr {Name : xtrans} + puts stderr {Version: 1.5.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {xtrans is a library of code that is shared among various X packages to} + puts stderr {handle network protocol transport in a modular fashion, allowing a} + puts stderr {single place to add new transport types. It is used by the X server,} + puts stderr {libX11, libICE, the X font server, and related components.} +} + +conflict xtrans + +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/xtrans-1.5.2-n6jedrf6zuqticzad2hiq4diypw52p4l/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/xtrans-1.5.2-n6jedrf6zuqticzad2hiq4diypw52p4l/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/xtrans-1.5.2-n6jedrf6zuqticzad2hiq4diypw52p4l/include} +prepend-path ACLOCAL_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/xtrans-1.5.2-n6jedrf6zuqticzad2hiq4diypw52p4l/share/aclocal} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/xtrans-1.5.2-n6jedrf6zuqticzad2hiq4diypw52p4l/share/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/xtrans-1.5.2-n6jedrf6zuqticzad2hiq4diypw52p4l/.} +setenv XTRANS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/xtrans-1.5.2-n6jedrf6zuqticzad2hiq4diypw52p4l} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xxhash/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xxhash/.modulerc new file mode 100644 index 00000000..f1b26903 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xxhash/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded xxhash/0.8.2-y36xnwr diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xxhash/0.8.2-y36xnwr b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xxhash/0.8.2-y36xnwr new file mode 100644 index 00000000..9eef6add --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xxhash/0.8.2-y36xnwr @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:01.532900 +## +## xxhash@0.8.2%gcc@13.2.0 build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/y36xnwr +## + + +module-whatis {xxHash is an Extremely fast Hash algorithm, running at RAM speed limits. It successfully completes the SMHasher test suite which evaluates collision, dispersion and randomness qualities of hash functions. Code is highly portable, and hashes are identical on all platforms (little / big endian). } + +proc ModulesHelp { } { + puts stderr {Name : xxhash} + puts stderr {Version: 0.8.2} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {xxHash is an Extremely fast Hash algorithm, running at RAM speed limits.} + puts stderr {It successfully completes the SMHasher test suite which evaluates} + puts stderr {collision, dispersion and randomness qualities of hash functions. Code} + puts stderr {is highly portable, and hashes are identical on all platforms (little /} + puts stderr {big endian).} +} + +conflict xxhash + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xxhash-0.8.2-y36xnwrn6dtewnxd3txucc2xa73n2fyf/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xxhash-0.8.2-y36xnwrn6dtewnxd3txucc2xa73n2fyf/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xxhash-0.8.2-y36xnwrn6dtewnxd3txucc2xa73n2fyf/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xxhash-0.8.2-y36xnwrn6dtewnxd3txucc2xa73n2fyf/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xxhash-0.8.2-y36xnwrn6dtewnxd3txucc2xa73n2fyf/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xxhash-0.8.2-y36xnwrn6dtewnxd3txucc2xa73n2fyf/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xxhash-0.8.2-y36xnwrn6dtewnxd3txucc2xa73n2fyf/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xxhash-0.8.2-y36xnwrn6dtewnxd3txucc2xa73n2fyf/.} +setenv XXHASH_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xxhash-0.8.2-y36xnwrn6dtewnxd3txucc2xa73n2fyf} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xz/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xz/.modulerc new file mode 100644 index 00000000..8a90a2bb --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xz/.modulerc @@ -0,0 +1,4 @@ +#%Module4.7 +module-hide --soft --hidden-loaded xz/5.4.6-2fvrfr6 +module-hide --soft --hidden-loaded xz/5.4.6-szk4ytk +module-hide --soft --hidden-loaded xz/5.4.6-2h4py3l diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xz/5.4.6-2fvrfr6 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xz/5.4.6-2fvrfr6 new file mode 100644 index 00000000..12583aea --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xz/5.4.6-2fvrfr6 @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:01.547936 +## +## xz@5.4.6%gcc@11.4.0~pic build_system=autotools libs=shared,static arch=linux-ubuntu22.04-x86_64_v3/2fvrfr6 +## + + +module-whatis {XZ Utils is free general-purpose data compression software with high compression ratio. XZ Utils were written for POSIX-like systems, but also work on some not-so-POSIX systems. XZ Utils are the successor to LZMA Utils.} + +proc ModulesHelp { } { + puts stderr {Name : xz} + puts stderr {Version: 5.4.6} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {XZ Utils is free general-purpose data compression software with high} + puts stderr {compression ratio. XZ Utils were written for POSIX-like systems, but} + puts stderr {also work on some not-so-POSIX systems. XZ Utils are the successor to} + puts stderr {LZMA Utils.} +} + +conflict xz + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/xz-5.4.6-2fvrfr67ahyx5vqg6hyd3dachcl3nl2k/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/xz-5.4.6-2fvrfr67ahyx5vqg6hyd3dachcl3nl2k/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/xz-5.4.6-2fvrfr67ahyx5vqg6hyd3dachcl3nl2k/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/xz-5.4.6-2fvrfr67ahyx5vqg6hyd3dachcl3nl2k/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/xz-5.4.6-2fvrfr67ahyx5vqg6hyd3dachcl3nl2k/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/xz-5.4.6-2fvrfr67ahyx5vqg6hyd3dachcl3nl2k/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/xz-5.4.6-2fvrfr67ahyx5vqg6hyd3dachcl3nl2k/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/xz-5.4.6-2fvrfr67ahyx5vqg6hyd3dachcl3nl2k/.} +setenv XZ_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/xz-5.4.6-2fvrfr67ahyx5vqg6hyd3dachcl3nl2k} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xz/5.4.6-2h4py3l b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xz/5.4.6-2h4py3l new file mode 100644 index 00000000..6b6f22fd --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xz/5.4.6-2h4py3l @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:01.540851 +## +## xz@5.4.6%gcc@7.5.0~pic build_system=autotools libs=shared,static arch=linux-ubuntu22.04-x86_64_v3/2h4py3l +## + + +module-whatis {XZ Utils is free general-purpose data compression software with high compression ratio. XZ Utils were written for POSIX-like systems, but also work on some not-so-POSIX systems. XZ Utils are the successor to LZMA Utils.} + +proc ModulesHelp { } { + puts stderr {Name : xz} + puts stderr {Version: 5.4.6} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {XZ Utils is free general-purpose data compression software with high} + puts stderr {compression ratio. XZ Utils were written for POSIX-like systems, but} + puts stderr {also work on some not-so-POSIX systems. XZ Utils are the successor to} + puts stderr {LZMA Utils.} +} + +conflict xz + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/xz-5.4.6-2h4py3l5ynpwunvim6rsujz6rftq3zqx/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/xz-5.4.6-2h4py3l5ynpwunvim6rsujz6rftq3zqx/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/xz-5.4.6-2h4py3l5ynpwunvim6rsujz6rftq3zqx/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/xz-5.4.6-2h4py3l5ynpwunvim6rsujz6rftq3zqx/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/xz-5.4.6-2h4py3l5ynpwunvim6rsujz6rftq3zqx/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/xz-5.4.6-2h4py3l5ynpwunvim6rsujz6rftq3zqx/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/xz-5.4.6-2h4py3l5ynpwunvim6rsujz6rftq3zqx/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/xz-5.4.6-2h4py3l5ynpwunvim6rsujz6rftq3zqx/.} +setenv XZ_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/xz-5.4.6-2h4py3l5ynpwunvim6rsujz6rftq3zqx} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xz/5.4.6-szk4ytk b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xz/5.4.6-szk4ytk new file mode 100644 index 00000000..1431ecee --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/xz/5.4.6-szk4ytk @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:01.555422 +## +## xz@5.4.6%gcc@13.2.0~pic build_system=autotools libs=shared,static arch=linux-ubuntu22.04-x86_64_v3/szk4ytk +## + + +module-whatis {XZ Utils is free general-purpose data compression software with high compression ratio. XZ Utils were written for POSIX-like systems, but also work on some not-so-POSIX systems. XZ Utils are the successor to LZMA Utils.} + +proc ModulesHelp { } { + puts stderr {Name : xz} + puts stderr {Version: 5.4.6} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {XZ Utils is free general-purpose data compression software with high} + puts stderr {compression ratio. XZ Utils were written for POSIX-like systems, but} + puts stderr {also work on some not-so-POSIX systems. XZ Utils are the successor to} + puts stderr {LZMA Utils.} +} + +conflict xz + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xz-5.4.6-szk4ytk6wy4nan4q4ep7zhdcoavftlct/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xz-5.4.6-szk4ytk6wy4nan4q4ep7zhdcoavftlct/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xz-5.4.6-szk4ytk6wy4nan4q4ep7zhdcoavftlct/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xz-5.4.6-szk4ytk6wy4nan4q4ep7zhdcoavftlct/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xz-5.4.6-szk4ytk6wy4nan4q4ep7zhdcoavftlct/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xz-5.4.6-szk4ytk6wy4nan4q4ep7zhdcoavftlct/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xz-5.4.6-szk4ytk6wy4nan4q4ep7zhdcoavftlct/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xz-5.4.6-szk4ytk6wy4nan4q4ep7zhdcoavftlct/.} +setenv XZ_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/xz-5.4.6-szk4ytk6wy4nan4q4ep7zhdcoavftlct} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/yaml-cpp/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/yaml-cpp/.modulerc new file mode 100644 index 00000000..9e85b024 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/yaml-cpp/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded yaml-cpp/0.6.3-dsivrnl diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/yaml-cpp/0.6.3-dsivrnl b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/yaml-cpp/0.6.3-dsivrnl new file mode 100644 index 00000000..c20ef1de --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/yaml-cpp/0.6.3-dsivrnl @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:01.579478 +## +## yaml-cpp@0.6.3%gcc@13.2.0~ipo+pic+shared~tests build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/dsivrnl +## +## Configure options: -DBUILD_SHARED_LIBS:BOOL=ON -DYAML_BUILD_SHARED_LIBS:BOOL=ON -DCMAKE_POSITION_INDEPENDENT_CODE:BOOL=ON -DYAML_CPP_BUILD_TESTS:BOOL=OFF +## + + +module-whatis {A YAML parser and emitter in C++} + +proc ModulesHelp { } { + puts stderr {Name : yaml-cpp} + puts stderr {Version: 0.6.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A YAML parser and emitter in C++} +} + +conflict yaml-cpp + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/yaml-cpp-0.6.3-dsivrnlpmfnizi3athh3f7decefs2ke7/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/yaml-cpp-0.6.3-dsivrnlpmfnizi3athh3f7decefs2ke7/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/yaml-cpp-0.6.3-dsivrnlpmfnizi3athh3f7decefs2ke7/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/yaml-cpp-0.6.3-dsivrnlpmfnizi3athh3f7decefs2ke7/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/yaml-cpp-0.6.3-dsivrnlpmfnizi3athh3f7decefs2ke7/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/yaml-cpp-0.6.3-dsivrnlpmfnizi3athh3f7decefs2ke7/.} +setenv YAML_CPP_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/yaml-cpp-0.6.3-dsivrnlpmfnizi3athh3f7decefs2ke7} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/yaml-cpp/0.8.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/yaml-cpp/0.8.0 new file mode 100644 index 00000000..99d49711 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/yaml-cpp/0.8.0 @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:01.587395 +## +## yaml-cpp@0.8.0%gcc@13.2.0~ipo+pic+shared~tests build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-x86_64_v3/el2ekj5 +## +## Configure options: -DBUILD_SHARED_LIBS:BOOL=ON -DYAML_BUILD_SHARED_LIBS:BOOL=ON -DCMAKE_POSITION_INDEPENDENT_CODE:BOOL=ON -DYAML_CPP_BUILD_TESTS:BOOL=OFF +## + + +module-whatis {A YAML parser and emitter in C++} + +proc ModulesHelp { } { + puts stderr {Name : yaml-cpp} + puts stderr {Version: 0.8.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A YAML parser and emitter in C++} +} + +conflict yaml-cpp + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/yaml-cpp-0.8.0/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/yaml-cpp-0.8.0/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/yaml-cpp-0.8.0/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/yaml-cpp-0.8.0/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/yaml-cpp-0.8.0/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/yaml-cpp-0.8.0/.} +setenv YAML_CPP_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/yaml-cpp-0.8.0-el2ekj5ozsqa3bxjmzwerw5culgsuozu} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/yarn/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/yarn/.modulerc new file mode 100644 index 00000000..6b4f59ba --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/yarn/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded yarn/1.22.4-kd7l4fm diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/yarn/1.22.4-kd7l4fm b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/yarn/1.22.4-kd7l4fm new file mode 100644 index 00000000..02ab1fbd --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/yarn/1.22.4-kd7l4fm @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:01.653506 +## +## yarn@1.22.4%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-x86_64_v3/kd7l4fm +## + + +module-whatis {Fast, reliable, and secure dependency management.} + +proc ModulesHelp { } { + puts stderr {Name : yarn} + puts stderr {Version: 1.22.4} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Fast, reliable, and secure dependency management.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load node-js/20.15.1-scagana +} else { + depends-on node-js/20.15.1-scagana +} +conflict yarn + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/yarn-1.22.4-kd7l4fmuksxztesebn7mbwtn3l7riofi/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/yarn-1.22.4-kd7l4fmuksxztesebn7mbwtn3l7riofi/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/yarn-1.22.4-kd7l4fmuksxztesebn7mbwtn3l7riofi/.} +setenv YARN_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/yarn-1.22.4-kd7l4fmuksxztesebn7mbwtn3l7riofi} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/yasm/1.3.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/yasm/1.3.0 new file mode 100644 index 00000000..273e7d6f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/yasm/1.3.0 @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:01.664649 +## +## yasm@1.3.0%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/guj2gfy +## + + +module-whatis {Yasm is a complete rewrite of the NASM-2.11.06 assembler. It supports the x86 and AMD64 instruction sets, accepts NASM and GAS assembler syntaxes and outputs binary, ELF32 and ELF64 object formats.} + +proc ModulesHelp { } { + puts stderr {Name : yasm} + puts stderr {Version: 1.3.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Yasm is a complete rewrite of the NASM-2.11.06 assembler. It supports} + puts stderr {the x86 and AMD64 instruction sets, accepts NASM and GAS assembler} + puts stderr {syntaxes and outputs binary, ELF32 and ELF64 object formats.} +} + +conflict yasm + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/yasm-1.3.0/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/yasm-1.3.0/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/yasm-1.3.0/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/yasm-1.3.0/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/yasm-1.3.0/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/yasm-1.3.0/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/yasm-1.3.0/.} +setenv YASM_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/yasm-1.3.0-guj2gfyvbt5urgiijv2oh3qxgkpel4ji} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/yq/4.44.3 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/yq/4.44.3 new file mode 100644 index 00000000..631a464f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/yq/4.44.3 @@ -0,0 +1,64 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:01.687101 +## +## yq@4.44.3%gcc@13.2.0 build_system=go arch=linux-ubuntu22.04-x86_64_v3/wxdv7i4 +## + + +module-whatis {yq is a portable command-line YAML, JSON, XML, CSV, TOML and properties processor. This is different from the py-yq package that is a wrapper around jq.} + +proc ModulesHelp { } { + puts stderr {Name : yq} + puts stderr {Version: 4.44.3} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {yq is a portable command-line YAML, JSON, XML, CSV, TOML and properties} + puts stderr {processor. This is different from the py-yq package that is a wrapper} + puts stderr {around jq.} +} + +conflict yq + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/yq-4.44.3/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/yq-4.44.3/.} +setenv YQ_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/yq-4.44.3-wxdv7i42nxogtmdbdrflphgm7a5xpzue} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/zfp/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/zfp/.modulerc new file mode 100644 index 00000000..7dbd7f14 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/zfp/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded zfp/1.0.0-rx5agr2 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/zfp/1.0.0-rx5agr2 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/zfp/1.0.0-rx5agr2 new file mode 100644 index 00000000..39212763 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/zfp/1.0.0-rx5agr2 @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:01.709781 +## +## zfp@1.0.0%gcc@13.2.0~aligned~c~cuda~daz~fasthash~fortran~ipo~openmp~profile~python+shared~strided~tight-error~twoway+utilities bsws=8 build_system=cmake build_type=Release generator=make round=never arch=linux-ubuntu22.04-x86_64_v3/rx5agr2 +## +## Configure options: -DBUILD_TESTING:BOOL=OFF -DBUILD_SHARED_LIBS:BOOL=ON -DBUILD_UTILITIES:BOOL=ON -DBUILD_CFP:BOOL=OFF -DBUILD_ZFPY:BOOL=OFF -DBUILD_ZFORP:BOOL=OFF -DZFP_WITH_OPENMP:BOOL=OFF -DZFP_WITH_CUDA:BOOL=OFF -DZFP_WITH_ALIGNED_ALLOC:BOOL=OFF -DZFP_BIT_STREAM_WORD_SIZE:STRING=8 -DZFP_WITH_DAZ:BOOL=OFF -DZFP_WITH_CACHE_FAST_HASH:BOOL=OFF -DZFP_WITH_CACHE_PROFILE:BOOL=OFF -DZFP_WITH_BIT_STREAM_STRIDED:BOOL=OFF -DZFP_WITH_TIGHT_ERROR:BOOL=OFF -DZFP_WITH_CACHE_TWOWAY:BOOL=OFF ZFP_ROUNDING_MODE=ZFP_ROUND_NEVER +## + + +module-whatis {zfp is a compressed number format for multidimensional floating-point and integer arrays.} + +proc ModulesHelp { } { + puts stderr {Name : zfp} + puts stderr {Version: 1.0.0} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {zfp is a compressed number format for multidimensional floating-point} + puts stderr {and integer arrays. zfp provides compressed-array classes that support} + puts stderr {high throughput read and write random access to individual array} + puts stderr {elements. zfp also supports serial and parallel (OpenMP and CUDA)} + puts stderr {compression of whole arrays.} +} + +conflict zfp + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zfp-1.0.0-rx5agr2xxijk6uef3ok6opvwcp53h5yl/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zfp-1.0.0-rx5agr2xxijk6uef3ok6opvwcp53h5yl/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zfp-1.0.0-rx5agr2xxijk6uef3ok6opvwcp53h5yl/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zfp-1.0.0-rx5agr2xxijk6uef3ok6opvwcp53h5yl/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zfp-1.0.0-rx5agr2xxijk6uef3ok6opvwcp53h5yl/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zfp-1.0.0-rx5agr2xxijk6uef3ok6opvwcp53h5yl/.} +setenv ZFP_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zfp-1.0.0-rx5agr2xxijk6uef3ok6opvwcp53h5yl} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/zlib-ng/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/zlib-ng/.modulerc new file mode 100644 index 00000000..121b7e64 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/zlib-ng/.modulerc @@ -0,0 +1,7 @@ +#%Module4.7 +module-hide --soft --hidden-loaded zlib-ng/2.1.6-k556uf7 +module-hide --soft --hidden-loaded zlib-ng/2.1.6-xqtp62n +module-hide --soft --hidden-loaded zlib-ng/2.2.1-erws2y2 +module-hide --soft --hidden-loaded zlib-ng/2.2.1-xc6bedm +module-hide --soft --hidden-loaded zlib-ng/2.2.1-fhud6vq +module-hide --soft --hidden-loaded zlib-ng/2.2.1-ci2x2tj diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/zlib-ng/2.1.6-k556uf7 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/zlib-ng/2.1.6-k556uf7 new file mode 100644 index 00000000..76c695e1 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/zlib-ng/2.1.6-k556uf7 @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:01.806725 +## +## zlib-ng@2.1.6%gcc@11.4.0+compat+new_strategies+opt+pic+shared build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/k556uf7 +## + + +module-whatis {zlib replacement with optimizations for next generation systems.} + +proc ModulesHelp { } { + puts stderr {Name : zlib-ng} + puts stderr {Version: 2.1.6} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {zlib replacement with optimizations for next generation systems.} +} + +conflict zlib-ng + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/zlib-ng-2.1.6-k556uf762y7yzu7zan5tohrrn45pqwp7/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/zlib-ng-2.1.6-k556uf762y7yzu7zan5tohrrn45pqwp7/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/zlib-ng-2.1.6-k556uf762y7yzu7zan5tohrrn45pqwp7/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/zlib-ng-2.1.6-k556uf762y7yzu7zan5tohrrn45pqwp7/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/zlib-ng-2.1.6-k556uf762y7yzu7zan5tohrrn45pqwp7/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/zlib-ng-2.1.6-k556uf762y7yzu7zan5tohrrn45pqwp7/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/zlib-ng-2.1.6-k556uf762y7yzu7zan5tohrrn45pqwp7/.} +setenv ZLIB_NG_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/zlib-ng-2.1.6-k556uf762y7yzu7zan5tohrrn45pqwp7} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/zlib-ng/2.1.6-xqtp62n b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/zlib-ng/2.1.6-xqtp62n new file mode 100644 index 00000000..1a1b22b5 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/zlib-ng/2.1.6-xqtp62n @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:01.813811 +## +## zlib-ng@2.1.6%gcc@11.4.0+compat+new_strategies+opt+pic+shared build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/xqtp62n +## + + +module-whatis {zlib replacement with optimizations for next generation systems.} + +proc ModulesHelp { } { + puts stderr {Name : zlib-ng} + puts stderr {Version: 2.1.6} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {zlib replacement with optimizations for next generation systems.} +} + +conflict zlib-ng + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/zlib-ng-2.1.6-xqtp62nft6pt5slbdljucwnkl5fxd6x4/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/zlib-ng-2.1.6-xqtp62nft6pt5slbdljucwnkl5fxd6x4/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/zlib-ng-2.1.6-xqtp62nft6pt5slbdljucwnkl5fxd6x4/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/zlib-ng-2.1.6-xqtp62nft6pt5slbdljucwnkl5fxd6x4/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/zlib-ng-2.1.6-xqtp62nft6pt5slbdljucwnkl5fxd6x4/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/zlib-ng-2.1.6-xqtp62nft6pt5slbdljucwnkl5fxd6x4/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/zlib-ng-2.1.6-xqtp62nft6pt5slbdljucwnkl5fxd6x4/.} +setenv ZLIB_NG_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/zlib-ng-2.1.6-xqtp62nft6pt5slbdljucwnkl5fxd6x4} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/zlib-ng/2.2.1-ci2x2tj b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/zlib-ng/2.2.1-ci2x2tj new file mode 100644 index 00000000..117c9af4 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/zlib-ng/2.2.1-ci2x2tj @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:01.858583 +## +## zlib-ng@2.2.1%gcc@13.2.0+compat+new_strategies+opt+pic+shared build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/ci2x2tj +## + + +module-whatis {zlib replacement with optimizations for next generation systems.} + +proc ModulesHelp { } { + puts stderr {Name : zlib-ng} + puts stderr {Version: 2.2.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {zlib replacement with optimizations for next generation systems.} +} + +conflict zlib-ng + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zlib-ng-2.2.1-ci2x2tjfpbdihazwtuwsat2anrc47e6u/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zlib-ng-2.2.1-ci2x2tjfpbdihazwtuwsat2anrc47e6u/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zlib-ng-2.2.1-ci2x2tjfpbdihazwtuwsat2anrc47e6u/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zlib-ng-2.2.1-ci2x2tjfpbdihazwtuwsat2anrc47e6u/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zlib-ng-2.2.1-ci2x2tjfpbdihazwtuwsat2anrc47e6u/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zlib-ng-2.2.1-ci2x2tjfpbdihazwtuwsat2anrc47e6u/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zlib-ng-2.2.1-ci2x2tjfpbdihazwtuwsat2anrc47e6u/.} +setenv ZLIB_NG_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zlib-ng-2.2.1-ci2x2tjfpbdihazwtuwsat2anrc47e6u} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/zlib-ng/2.2.1-erws2y2 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/zlib-ng/2.2.1-erws2y2 new file mode 100644 index 00000000..66aa4eff --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/zlib-ng/2.2.1-erws2y2 @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:01.820986 +## +## zlib-ng@2.2.1%gcc@13.2.0+compat~new_strategies+opt+pic+shared build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/erws2y2 +## + + +module-whatis {zlib replacement with optimizations for next generation systems.} + +proc ModulesHelp { } { + puts stderr {Name : zlib-ng} + puts stderr {Version: 2.2.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {zlib replacement with optimizations for next generation systems.} +} + +conflict zlib-ng + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zlib-ng-2.2.1-erws2y2d7l3s4n4tzgh6d5cnkzhzgual/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zlib-ng-2.2.1-erws2y2d7l3s4n4tzgh6d5cnkzhzgual/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zlib-ng-2.2.1-erws2y2d7l3s4n4tzgh6d5cnkzhzgual/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zlib-ng-2.2.1-erws2y2d7l3s4n4tzgh6d5cnkzhzgual/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zlib-ng-2.2.1-erws2y2d7l3s4n4tzgh6d5cnkzhzgual/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zlib-ng-2.2.1-erws2y2d7l3s4n4tzgh6d5cnkzhzgual/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zlib-ng-2.2.1-erws2y2d7l3s4n4tzgh6d5cnkzhzgual/.} +setenv ZLIB_NG_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zlib-ng-2.2.1-erws2y2d7l3s4n4tzgh6d5cnkzhzgual} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/zlib-ng/2.2.1-fhud6vq b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/zlib-ng/2.2.1-fhud6vq new file mode 100644 index 00000000..90230c05 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/zlib-ng/2.2.1-fhud6vq @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:01.851687 +## +## zlib-ng@2.2.1%gcc@11.4.0+compat+new_strategies+opt+pic+shared build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/fhud6vq +## + + +module-whatis {zlib replacement with optimizations for next generation systems.} + +proc ModulesHelp { } { + puts stderr {Name : zlib-ng} + puts stderr {Version: 2.2.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {zlib replacement with optimizations for next generation systems.} +} + +conflict zlib-ng + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/zlib-ng-2.2.1-fhud6vqkh7jaesckalgqg5xxml72in6i/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/zlib-ng-2.2.1-fhud6vqkh7jaesckalgqg5xxml72in6i/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/zlib-ng-2.2.1-fhud6vqkh7jaesckalgqg5xxml72in6i/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/zlib-ng-2.2.1-fhud6vqkh7jaesckalgqg5xxml72in6i/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/zlib-ng-2.2.1-fhud6vqkh7jaesckalgqg5xxml72in6i/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/zlib-ng-2.2.1-fhud6vqkh7jaesckalgqg5xxml72in6i/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/zlib-ng-2.2.1-fhud6vqkh7jaesckalgqg5xxml72in6i/.} +setenv ZLIB_NG_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/zlib-ng-2.2.1-fhud6vqkh7jaesckalgqg5xxml72in6i} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/zlib-ng/2.2.1-xc6bedm b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/zlib-ng/2.2.1-xc6bedm new file mode 100644 index 00000000..813d0577 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/zlib-ng/2.2.1-xc6bedm @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:01.844757 +## +## zlib-ng@2.2.1%gcc@7.5.0+compat+new_strategies+opt+pic+shared build_system=autotools arch=linux-ubuntu22.04-x86_64_v3/xc6bedm +## + + +module-whatis {zlib replacement with optimizations for next generation systems.} + +proc ModulesHelp { } { + puts stderr {Name : zlib-ng} + puts stderr {Version: 2.2.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {zlib replacement with optimizations for next generation systems.} +} + +conflict zlib-ng + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/zlib-ng-2.2.1-xc6bedml5mamyuogenqxaddzhno6q3zl/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/zlib-ng-2.2.1-xc6bedml5mamyuogenqxaddzhno6q3zl/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/zlib-ng-2.2.1-xc6bedml5mamyuogenqxaddzhno6q3zl/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/zlib-ng-2.2.1-xc6bedml5mamyuogenqxaddzhno6q3zl/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/zlib-ng-2.2.1-xc6bedml5mamyuogenqxaddzhno6q3zl/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/zlib-ng-2.2.1-xc6bedml5mamyuogenqxaddzhno6q3zl/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/zlib-ng-2.2.1-xc6bedml5mamyuogenqxaddzhno6q3zl/.} +setenv ZLIB_NG_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/zlib-ng-2.2.1-xc6bedml5mamyuogenqxaddzhno6q3zl} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/zlib/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/zlib/.modulerc new file mode 100644 index 00000000..2c2eebfa --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/zlib/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded zlib/1.3.1-3zms6n7 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/zlib/1.2.13 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/zlib/1.2.13 new file mode 100644 index 00000000..b4c5c8ad --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/zlib/1.2.13 @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:01.734322 +## +## zlib@1.2.13%gcc@13.2.0+optimize+pic+shared build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/b5tyqnk +## + + +module-whatis {A free, general-purpose, legally unencumbered lossless data-compression library. } + +proc ModulesHelp { } { + puts stderr {Name : zlib} + puts stderr {Version: 1.2.13} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A free, general-purpose, legally unencumbered lossless data-compression} + puts stderr {library.} +} + +conflict zlib + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/zlib-1.2.13/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/zlib-1.2.13/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/zlib-1.2.13/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/zlib-1.2.13/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/zlib-1.2.13/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/zlib-1.2.13/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/generic/zlib-1.2.13/.} +setenv ZLIB_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zlib-1.2.13-b5tyqnk2tgqdwubjiplxz7oxeq6fe6gs} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/zlib/1.3.1-3zms6n7 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/zlib/1.3.1-3zms6n7 new file mode 100644 index 00000000..ff2ceb3a --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/zlib/1.3.1-3zms6n7 @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:01.798615 +## +## zlib@1.3.1%gcc@13.2.0+optimize+pic+shared build_system=makefile arch=linux-ubuntu22.04-x86_64_v3/3zms6n7 +## + + +module-whatis {A free, general-purpose, legally unencumbered lossless data-compression library. } + +proc ModulesHelp { } { + puts stderr {Name : zlib} + puts stderr {Version: 1.3.1} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {A free, general-purpose, legally unencumbered lossless data-compression} + puts stderr {library.} +} + +conflict zlib + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zlib-1.3.1-3zms6n7vboobgjug2zpjyu7niasebcuu/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zlib-1.3.1-3zms6n7vboobgjug2zpjyu7niasebcuu/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zlib-1.3.1-3zms6n7vboobgjug2zpjyu7niasebcuu/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zlib-1.3.1-3zms6n7vboobgjug2zpjyu7niasebcuu/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zlib-1.3.1-3zms6n7vboobgjug2zpjyu7niasebcuu/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zlib-1.3.1-3zms6n7vboobgjug2zpjyu7niasebcuu/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zlib-1.3.1-3zms6n7vboobgjug2zpjyu7niasebcuu/.} +setenv ZLIB_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zlib-1.3.1-3zms6n7vboobgjug2zpjyu7niasebcuu} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/zstd/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/zstd/.modulerc new file mode 100644 index 00000000..4c4239e1 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/zstd/.modulerc @@ -0,0 +1,5 @@ +#%Module4.7 +module-hide --soft --hidden-loaded zstd/1.5.6-t7h6imj +module-hide --soft --hidden-loaded zstd/1.5.6-vuo5mbe +module-hide --soft --hidden-loaded zstd/1.5.6-7o5yyvt +module-hide --soft --hidden-loaded zstd/1.5.6-2pajx4y diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/zstd/1.5.6-2pajx4y b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/zstd/1.5.6-2pajx4y new file mode 100644 index 00000000..ae6cea15 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/zstd/1.5.6-2pajx4y @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:01.882590 +## +## zstd@1.5.6%gcc@7.5.0+programs build_system=makefile compression=none libs=shared,static arch=linux-ubuntu22.04-x86_64_v3/2pajx4y +## + + +module-whatis {Zstandard, or zstd as short version, is a fast lossless compression algorithm, targeting real-time compression scenarios at zlib-level and better compression ratios.} + +proc ModulesHelp { } { + puts stderr {Name : zstd} + puts stderr {Version: 1.5.6} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Zstandard, or zstd as short version, is a fast lossless compression} + puts stderr {algorithm, targeting real-time compression scenarios at zlib-level and} + puts stderr {better compression ratios.} +} + +conflict zstd + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/zstd-1.5.6-2pajx4yog26ubtrtnci3wsomwgjxzamm/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/zstd-1.5.6-2pajx4yog26ubtrtnci3wsomwgjxzamm/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/zstd-1.5.6-2pajx4yog26ubtrtnci3wsomwgjxzamm/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/zstd-1.5.6-2pajx4yog26ubtrtnci3wsomwgjxzamm/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/zstd-1.5.6-2pajx4yog26ubtrtnci3wsomwgjxzamm/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/zstd-1.5.6-2pajx4yog26ubtrtnci3wsomwgjxzamm/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/zstd-1.5.6-2pajx4yog26ubtrtnci3wsomwgjxzamm/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/zstd-1.5.6-2pajx4yog26ubtrtnci3wsomwgjxzamm/.} +setenv ZSTD_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-7.5.0/zstd-1.5.6-2pajx4yog26ubtrtnci3wsomwgjxzamm} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/zstd/1.5.6-7o5yyvt b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/zstd/1.5.6-7o5yyvt new file mode 100644 index 00000000..57681f29 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/zstd/1.5.6-7o5yyvt @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:01.920988 +## +## zstd@1.5.6%gcc@13.2.0~programs build_system=makefile libs=shared,static arch=linux-ubuntu22.04-x86_64_v3/7o5yyvt +## + + +module-whatis {Zstandard, or zstd as short version, is a fast lossless compression algorithm, targeting real-time compression scenarios at zlib-level and better compression ratios.} + +proc ModulesHelp { } { + puts stderr {Name : zstd} + puts stderr {Version: 1.5.6} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Zstandard, or zstd as short version, is a fast lossless compression} + puts stderr {algorithm, targeting real-time compression scenarios at zlib-level and} + puts stderr {better compression ratios.} +} + +conflict zstd + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zstd-1.5.6-7o5yyvt7jeukahefon6ya6hxnnmo7xo4/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zstd-1.5.6-7o5yyvt7jeukahefon6ya6hxnnmo7xo4/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zstd-1.5.6-7o5yyvt7jeukahefon6ya6hxnnmo7xo4/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zstd-1.5.6-7o5yyvt7jeukahefon6ya6hxnnmo7xo4/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zstd-1.5.6-7o5yyvt7jeukahefon6ya6hxnnmo7xo4/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zstd-1.5.6-7o5yyvt7jeukahefon6ya6hxnnmo7xo4/.} +setenv ZSTD_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zstd-1.5.6-7o5yyvt7jeukahefon6ya6hxnnmo7xo4} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/zstd/1.5.6-t7h6imj b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/zstd/1.5.6-t7h6imj new file mode 100644 index 00000000..e10b3514 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/zstd/1.5.6-t7h6imj @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:01.889602 +## +## zstd@1.5.6%gcc@11.4.0+programs build_system=makefile compression=none libs=shared,static arch=linux-ubuntu22.04-x86_64_v3/t7h6imj +## + + +module-whatis {Zstandard, or zstd as short version, is a fast lossless compression algorithm, targeting real-time compression scenarios at zlib-level and better compression ratios.} + +proc ModulesHelp { } { + puts stderr {Name : zstd} + puts stderr {Version: 1.5.6} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Zstandard, or zstd as short version, is a fast lossless compression} + puts stderr {algorithm, targeting real-time compression scenarios at zlib-level and} + puts stderr {better compression ratios.} +} + +conflict zstd + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/zstd-1.5.6-t7h6imj35ruac562vr7snzvli2h2tzup/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/zstd-1.5.6-t7h6imj35ruac562vr7snzvli2h2tzup/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/zstd-1.5.6-t7h6imj35ruac562vr7snzvli2h2tzup/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/zstd-1.5.6-t7h6imj35ruac562vr7snzvli2h2tzup/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/zstd-1.5.6-t7h6imj35ruac562vr7snzvli2h2tzup/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/zstd-1.5.6-t7h6imj35ruac562vr7snzvli2h2tzup/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/zstd-1.5.6-t7h6imj35ruac562vr7snzvli2h2tzup/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/zstd-1.5.6-t7h6imj35ruac562vr7snzvli2h2tzup/.} +setenv ZSTD_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-11.4.0/zstd-1.5.6-t7h6imj35ruac562vr7snzvli2h2tzup} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/zstd/1.5.6-vuo5mbe b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/zstd/1.5.6-vuo5mbe new file mode 100644 index 00000000..a5c2c195 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-x86_64_v3/zstd/1.5.6-vuo5mbe @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:01.896881 +## +## zstd@1.5.6%gcc@13.2.0+programs build_system=makefile compression=none libs=shared,static arch=linux-ubuntu22.04-x86_64_v3/vuo5mbe +## + + +module-whatis {Zstandard, or zstd as short version, is a fast lossless compression algorithm, targeting real-time compression scenarios at zlib-level and better compression ratios.} + +proc ModulesHelp { } { + puts stderr {Name : zstd} + puts stderr {Version: 1.5.6} + puts stderr {Target : x86_64_v3} + puts stderr {} + puts stderr {Zstandard, or zstd as short version, is a fast lossless compression} + puts stderr {algorithm, targeting real-time compression scenarios at zlib-level and} + puts stderr {better compression ratios.} +} + +conflict zstd + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zstd-1.5.6-vuo5mbe3zuzkcvisvn77uccdvqr3o2q2/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zstd-1.5.6-vuo5mbe3zuzkcvisvn77uccdvqr3o2q2/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zstd-1.5.6-vuo5mbe3zuzkcvisvn77uccdvqr3o2q2/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zstd-1.5.6-vuo5mbe3zuzkcvisvn77uccdvqr3o2q2/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zstd-1.5.6-vuo5mbe3zuzkcvisvn77uccdvqr3o2q2/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zstd-1.5.6-vuo5mbe3zuzkcvisvn77uccdvqr3o2q2/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zstd-1.5.6-vuo5mbe3zuzkcvisvn77uccdvqr3o2q2/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zstd-1.5.6-vuo5mbe3zuzkcvisvn77uccdvqr3o2q2/.} +setenv ZSTD_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/zstd-1.5.6-vuo5mbe3zuzkcvisvn77uccdvqr3o2q2} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/amdfftw/4.2 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/amdfftw/4.2 new file mode 100644 index 00000000..281ecde1 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/amdfftw/4.2 @@ -0,0 +1,82 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:21.234076 +## +## amdfftw@4.2%gcc@13.2.0~amd-app-opt+amd-dynamic-dispatcher~amd-fast-planner~amd-mpi-vader-limit~debug~mpi+openmp+shared~static~threads build_system=autotools precision=double,float arch=linux-ubuntu22.04-zen2/3ns7chy +## + + +module-whatis {FFTW (AMD Optimized version) is a comprehensive collection of fast C routines for computing the Discrete Fourier Transform (DFT) and various special cases thereof.} + +proc ModulesHelp { } { + puts stderr {Name : amdfftw} + puts stderr {Version: 4.2} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {FFTW (AMD Optimized version) is a comprehensive collection of fast C} + puts stderr {routines for computing the Discrete Fourier Transform (DFT) and various} + puts stderr {special cases thereof. It is an open-source implementation of the Fast} + puts stderr {Fourier transform algorithm. It can compute transforms of real and} + puts stderr {complex-values arrays of arbitrary size and dimension. AMD Optimized} + puts stderr {FFTW is the optimized FFTW implementation targeted for AMD CPUs. For} + puts stderr {single precision build, please use precision value as float. Example :} + puts stderr {spack install amdfftw precision=float LICENSING INFORMATION: By} + puts stderr {downloading, installing and using this software, you agree to the terms} + puts stderr {and conditions of the AMD AOCL-FFTW license agreement. You may obtain a} + puts stderr {copy of this license agreement from} + puts stderr {https://www.amd.com/en/developer/aocl/fftw/eula/fftw-} + puts stderr {libraries-4-2-eula.html} + puts stderr {https://www.amd.com/en/developer/aocl/fftw/eula/fftw-libraries-eula.html} +} + +conflict amdfftw + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/amdfftw-4.2/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/amdfftw-4.2/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/amdfftw-4.2/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/amdfftw-4.2/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/amdfftw-4.2/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/amdfftw-4.2/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/amdfftw-4.2/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/amdfftw-4.2/.} +setenv AMDFFTW_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/amdfftw-4.2-3ns7chythcqsriro7uxdlashdfrmxbu3} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/berkeley-db/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/berkeley-db/.modulerc new file mode 100644 index 00000000..43b7977a --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/berkeley-db/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded berkeley-db/18.1.40-43wjtw6 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/berkeley-db/18.1.40-43wjtw6 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/berkeley-db/18.1.40-43wjtw6 new file mode 100644 index 00000000..62715327 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/berkeley-db/18.1.40-43wjtw6 @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:27.214777 +## +## berkeley-db@18.1.40%gcc@13.2.0+cxx~docs+stl build_system=autotools patches=26090f4,b231fcc arch=linux-ubuntu22.04-zen2/43wjtw6 +## +## Configure options: --disable-static --enable-dbm --enable-compat185 --with-repmgr-ssl=no --enable-cxx --enable-stl +## + + +module-whatis {Oracle Berkeley DB} + +proc ModulesHelp { } { + puts stderr {Name : berkeley-db} + puts stderr {Version: 18.1.40} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {Oracle Berkeley DB} +} + +conflict berkeley-db + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/berkeley-db-18.1.40-43wjtw6laaivjq2sg3t36v7ywtbn5bd3/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/berkeley-db-18.1.40-43wjtw6laaivjq2sg3t36v7ywtbn5bd3/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/berkeley-db-18.1.40-43wjtw6laaivjq2sg3t36v7ywtbn5bd3/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/berkeley-db-18.1.40-43wjtw6laaivjq2sg3t36v7ywtbn5bd3/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/berkeley-db-18.1.40-43wjtw6laaivjq2sg3t36v7ywtbn5bd3/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/berkeley-db-18.1.40-43wjtw6laaivjq2sg3t36v7ywtbn5bd3/.} +setenv BERKELEY_DB_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/berkeley-db-18.1.40-43wjtw6laaivjq2sg3t36v7ywtbn5bd3} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/boost/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/boost/.modulerc new file mode 100644 index 00000000..9525970b --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/boost/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded boost/1.86.0-44flou7 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/boost/1.84.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/boost/1.84.0 new file mode 100644 index 00000000..44249fd6 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/boost/1.84.0 @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:27.828807 +## +## boost@1.84.0%gcc@13.2.0+atomic+chrono~clanglibcpp~cobalt~container+context~contract+coroutine+date_time~debug+exception~fiber+filesystem+graph+graph_parallel+icu+iostreams+json+locale+log+math~mpi+multithreaded~nowide~numpy~pic+program_options~python+random+regex+serialization+shared+signals~singlethreaded+stacktrace+system~taggedlayout+test+thread+timer~type_erasure~url~versionedlayout+wave build_system=generic context-impl=fcontext cxxstd=11 patches=a440f96,b8569d7 visibility=hidden arch=linux-ubuntu22.04-zen2/5fbar56 +## + + +module-whatis {Boost provides free peer-reviewed portable C++ source libraries, emphasizing libraries that work well with the C++ Standard Library.} + +proc ModulesHelp { } { + puts stderr {Name : boost} + puts stderr {Version: 1.84.0} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {Boost provides free peer-reviewed portable C++ source libraries,} + puts stderr {emphasizing libraries that work well with the C++ Standard Library.} + puts stderr {Boost libraries are intended to be widely useful, and usable across a} + puts stderr {broad spectrum of applications. The Boost license encourages both} + puts stderr {commercial and non-commercial use.} +} + +conflict boost + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/boost-1.84.0/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/boost-1.84.0/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/boost-1.84.0/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/boost-1.84.0/include} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/boost-1.84.0/.} +setenv BOOST_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/boost-1.84.0} +setenv BOOST_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/boost-1.84.0-5fbar56ulrmppwnlmpxzveyqx3b4zsix} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/boost/1.86.0-44flou7 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/boost/1.86.0-44flou7 new file mode 100644 index 00000000..8c1e2561 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/boost/1.86.0-44flou7 @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:28.004687 +## +## boost@1.86.0%gcc@13.2.0~atomic~charconv~chrono~clanglibcpp~cobalt+container~context~contract~coroutine~date_time~debug+exception~fiber~filesystem~graph~graph_parallel~icu~iostreams~json~locale~log+math~mpi+multithreaded~nowide~numpy~pic~program_options~python+random~regex~serialization+shared~signals~singlethreaded~stacktrace~system~taggedlayout~test~thread~timer~type_erasure~url~versionedlayout~wave build_system=generic cxxstd=11 patches=a440f96 visibility=hidden arch=linux-ubuntu22.04-zen2/44flou7 +## + + +module-whatis {Boost provides free peer-reviewed portable C++ source libraries, emphasizing libraries that work well with the C++ Standard Library.} + +proc ModulesHelp { } { + puts stderr {Name : boost} + puts stderr {Version: 1.86.0} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {Boost provides free peer-reviewed portable C++ source libraries,} + puts stderr {emphasizing libraries that work well with the C++ Standard Library.} + puts stderr {Boost libraries are intended to be widely useful, and usable across a} + puts stderr {broad spectrum of applications. The Boost license encourages both} + puts stderr {commercial and non-commercial use.} +} + +conflict boost + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/boost-1.86.0-44flou7xnxbyy5ek2kj7uxm6r6ameg6c/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/boost-1.86.0-44flou7xnxbyy5ek2kj7uxm6r6ameg6c/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/boost-1.86.0-44flou7xnxbyy5ek2kj7uxm6r6ameg6c/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/boost-1.86.0-44flou7xnxbyy5ek2kj7uxm6r6ameg6c/include} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/boost-1.86.0-44flou7xnxbyy5ek2kj7uxm6r6ameg6c/.} +setenv BOOST_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/boost-1.86.0-44flou7xnxbyy5ek2kj7uxm6r6ameg6c} +setenv BOOST_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/boost-1.86.0-44flou7xnxbyy5ek2kj7uxm6r6ameg6c} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/bzip2/1.0.8 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/bzip2/1.0.8 new file mode 100644 index 00000000..d68f3ee9 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/bzip2/1.0.8 @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:28.644197 +## +## bzip2@1.0.8%gcc@13.2.0~debug~pic+shared build_system=generic arch=linux-ubuntu22.04-zen2/abxndkj +## + + +module-whatis {bzip2 is a freely available, patent free high-quality data compressor. It typically compresses files to within 10% to 15% of the best available techniques (the PPM family of statistical compressors), whilst being around twice as fast at compression and six times faster at decompression.} + +proc ModulesHelp { } { + puts stderr {Name : bzip2} + puts stderr {Version: 1.0.8} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {bzip2 is a freely available, patent free high-quality data compressor.} + puts stderr {It typically compresses files to within 10% to 15% of the best available} + puts stderr {techniques (the PPM family of statistical compressors), whilst being} + puts stderr {around twice as fast at compression and six times faster at} + puts stderr {decompression.} +} + +conflict bzip2 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/bzip2-1.0.8/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/bzip2-1.0.8/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/bzip2-1.0.8/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/bzip2-1.0.8/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/bzip2-1.0.8/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/bzip2-1.0.8/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/bzip2-1.0.8/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/bzip2-1.0.8/.} +setenv BZIP2_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/bzip2-1.0.8-abxndkj4r5bxhagvvo7dpexjoov3bhu5} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/c-blosc/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/c-blosc/.modulerc new file mode 100644 index 00000000..45015bff --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/c-blosc/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded c-blosc/1.21.5-z3cdid4 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/c-blosc/1.21.5-z3cdid4 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/c-blosc/1.21.5-z3cdid4 new file mode 100644 index 00000000..052efb15 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/c-blosc/1.21.5-z3cdid4 @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:28.795049 +## +## c-blosc@1.21.5%gcc@13.2.0+avx2~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-zen2/z3cdid4 +## +## Configure options: -DDEACTIVATE_AVX2=OFF -DPREFER_EXTERNAL_SNAPPY=ON -DPREFER_EXTERNAL_ZLIB=ON -DPREFER_EXTERNAL_ZSTD=ON -DPREFER_EXTERNAL_LZ4=ON -DBUILD_TESTS=OFF -DBUILD_BENCHMARKS=OFF +## + + +module-whatis {Blosc, an extremely fast, multi-threaded, meta-compressor library} + +proc ModulesHelp { } { + puts stderr {Name : c-blosc} + puts stderr {Version: 1.21.5} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {Blosc, an extremely fast, multi-threaded, meta-compressor library} +} + +conflict c-blosc + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/c-blosc-1.21.5-z3cdid4vqblkcoac6madrsq4sflue4e6/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/c-blosc-1.21.5-z3cdid4vqblkcoac6madrsq4sflue4e6/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/c-blosc-1.21.5-z3cdid4vqblkcoac6madrsq4sflue4e6/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/c-blosc-1.21.5-z3cdid4vqblkcoac6madrsq4sflue4e6/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/c-blosc-1.21.5-z3cdid4vqblkcoac6madrsq4sflue4e6/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/c-blosc-1.21.5-z3cdid4vqblkcoac6madrsq4sflue4e6/.} +setenv C_BLOSC_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/c-blosc-1.21.5-z3cdid4vqblkcoac6madrsq4sflue4e6} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/cgal/5.4.1 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/cgal/5.4.1 new file mode 100644 index 00000000..995f1e17 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/cgal/5.4.1 @@ -0,0 +1,75 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:31.173463 +## +## cgal@5.4.1%gcc@13.2.0~core~demos+eigen~header_only~imageio~ipo+shared build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-zen2/tyfexxn +## +## Configure options: -DBUILD_SHARED_LIBS:BOOL=True -DWITH_CGAL_Core:BOOL=False -DWITH_CGAL_ImageIO:BOOL=False -DWITH_CGAL_Qt5:BOOL=False -DCGAL_HEADER_ONLY:BOOL=False +## + + +module-whatis {The Computational Geometry Algorithms Library (CGAL) is a C++ library that aims to provide easy access to efficient and reliable algorithms in computational geometry. CGAL is used in various areas needing geometric computation, such as geographic information systems, computer aided design, molecular biology, medical imaging, computer graphics, and robotics. } + +proc ModulesHelp { } { + puts stderr {Name : cgal} + puts stderr {Version: 5.4.1} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {The Computational Geometry Algorithms Library (CGAL) is a C++ library} + puts stderr {that aims to provide easy access to efficient and reliable algorithms in} + puts stderr {computational geometry. CGAL is used in various areas needing geometric} + puts stderr {computation, such as geographic information systems, computer aided} + puts stderr {design, molecular biology, medical imaging, computer graphics, and} + puts stderr {robotics.} +} + +conflict cgal + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/cgal-5.4.1/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/cgal-5.4.1/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/cgal-5.4.1/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/cgal-5.4.1/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/cgal-5.4.1/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/cgal-5.4.1/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/cgal-5.4.1/.} +setenv CGAL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/cgal-5.4.1-tyfexxnnzdcxa5s3ysasyx2sycd3zli6} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/curl/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/curl/.modulerc new file mode 100644 index 00000000..c03245aa --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/curl/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded curl/8.10.1-nr5l76a diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/curl/8.10.1-nr5l76a b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/curl/8.10.1-nr5l76a new file mode 100644 index 00000000..4580dff4 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/curl/8.10.1-nr5l76a @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:33.157681 +## +## curl@8.10.1%gcc@13.2.0~gssapi~ldap~libidn2~librtmp~libssh~libssh2+nghttp2 build_system=autotools libs=shared,static tls=openssl arch=linux-ubuntu22.04-zen2/nr5l76a +## + + +module-whatis {cURL is an open source command line tool and library for transferring data with URL syntax} + +proc ModulesHelp { } { + puts stderr {Name : curl} + puts stderr {Version: 8.10.1} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {cURL is an open source command line tool and library for transferring} + puts stderr {data with URL syntax} +} + +conflict curl + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/curl-8.10.1-nr5l76ajycnslfk4awbtpfiozh2wc77w/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/curl-8.10.1-nr5l76ajycnslfk4awbtpfiozh2wc77w/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/curl-8.10.1-nr5l76ajycnslfk4awbtpfiozh2wc77w/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/curl-8.10.1-nr5l76ajycnslfk4awbtpfiozh2wc77w/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/curl-8.10.1-nr5l76ajycnslfk4awbtpfiozh2wc77w/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/curl-8.10.1-nr5l76ajycnslfk4awbtpfiozh2wc77w/share/man} +prepend-path ACLOCAL_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/curl-8.10.1-nr5l76ajycnslfk4awbtpfiozh2wc77w/share/aclocal} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/curl-8.10.1-nr5l76ajycnslfk4awbtpfiozh2wc77w/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/curl-8.10.1-nr5l76ajycnslfk4awbtpfiozh2wc77w/.} +setenv CURL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/curl-8.10.1-nr5l76ajycnslfk4awbtpfiozh2wc77w} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/eigen/3.4.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/eigen/3.4.0 new file mode 100644 index 00000000..31a48586 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/eigen/3.4.0 @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:33.626369 +## +## eigen@3.4.0%gcc@13.2.0~ipo build_system=cmake build_type=RelWithDebInfo generator=make arch=linux-ubuntu22.04-zen2/cplz7bl +## +## Configure options: -DBUILD_TESTING:STRING=ON +## + + +module-whatis {Eigen is a C++ template library for linear algebra matrices, vectors, numerical solvers, and related algorithms. } + +proc ModulesHelp { } { + puts stderr {Name : eigen} + puts stderr {Version: 3.4.0} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {Eigen is a C++ template library for linear algebra matrices, vectors,} + puts stderr {numerical solvers, and related algorithms.} +} + +conflict eigen + +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/eigen-3.4.0/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/eigen-3.4.0/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/eigen-3.4.0/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/eigen-3.4.0/share/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/eigen-3.4.0/.} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/eigen-3.4.0/include/eigen3} +setenv EIGEN_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/eigen-3.4.0-cplz7bludvn5lvqldnnfby3khdli5di4} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/expat/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/expat/.modulerc new file mode 100644 index 00000000..d931999d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/expat/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded expat/2.6.4-mub5nd4 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/expat/2.6.4-mub5nd4 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/expat/2.6.4-mub5nd4 new file mode 100644 index 00000000..bd940c84 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/expat/2.6.4-mub5nd4 @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:33.986991 +## +## expat@2.6.4%gcc@13.2.0+libbsd build_system=autotools arch=linux-ubuntu22.04-zen2/mub5nd4 +## + + +module-whatis {Expat is an XML parser library written in C.} + +proc ModulesHelp { } { + puts stderr {Name : expat} + puts stderr {Version: 2.6.4} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {Expat is an XML parser library written in C.} +} + +conflict expat + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/expat-2.6.4-mub5nd4p4qoame5a7mwiyefe4tike4cg/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/expat-2.6.4-mub5nd4p4qoame5a7mwiyefe4tike4cg/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/expat-2.6.4-mub5nd4p4qoame5a7mwiyefe4tike4cg/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/expat-2.6.4-mub5nd4p4qoame5a7mwiyefe4tike4cg/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/expat-2.6.4-mub5nd4p4qoame5a7mwiyefe4tike4cg/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/expat-2.6.4-mub5nd4p4qoame5a7mwiyefe4tike4cg/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/expat-2.6.4-mub5nd4p4qoame5a7mwiyefe4tike4cg/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/expat-2.6.4-mub5nd4p4qoame5a7mwiyefe4tike4cg/.} +setenv EXPAT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/expat-2.6.4-mub5nd4p4qoame5a7mwiyefe4tike4cg} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/fftw/3.3.10 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/fftw/3.3.10 new file mode 100644 index 00000000..e6c13e95 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/fftw/3.3.10 @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:34.745226 +## +## fftw@3.3.10%gcc@13.2.0~mpi+openmp~pfft_patches+shared build_system=autotools patches=872cff9 precision=double,float arch=linux-ubuntu22.04-zen2/witzkhs +## + + +module-whatis {FFTW is a C subroutine library for computing the discrete Fourier transform (DFT) in one or more dimensions, of arbitrary input size, and of both real and complex data (as well as of even/odd data, i.e. the discrete cosine/sine transforms or DCT/DST). We believe that FFTW, which is free software, should become the FFT library of choice for most applications.} + +proc ModulesHelp { } { + puts stderr {Name : fftw} + puts stderr {Version: 3.3.10} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {FFTW is a C subroutine library for computing the discrete Fourier} + puts stderr {transform (DFT) in one or more dimensions, of arbitrary input size, and} + puts stderr {of both real and complex data (as well as of even/odd data, i.e. the} + puts stderr {discrete cosine/sine transforms or DCT/DST). We believe that FFTW, which} + puts stderr {is free software, should become the FFT library of choice for most} + puts stderr {applications.} +} + +conflict fftw + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/fftw-3.3.10/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/fftw-3.3.10/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/fftw-3.3.10/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/fftw-3.3.10/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/fftw-3.3.10/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/fftw-3.3.10/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/fftw-3.3.10/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/fftw-3.3.10/.} +setenv FFTW_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/fftw-3.3.10-witzkhsitktuillgcx3v52ingtrbf575} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/gdbm/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/gdbm/.modulerc new file mode 100644 index 00000000..e981ccbe --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/gdbm/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded gdbm/1.23-dmhfxva diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/gdbm/1.23-dmhfxva b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/gdbm/1.23-dmhfxva new file mode 100644 index 00000000..f2a3ecd2 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/gdbm/1.23-dmhfxva @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:36.705616 +## +## gdbm@1.23%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-zen2/dmhfxva +## +## Configure options: --enable-libgdbm-compat CPPFLAGS=-D_GNU_SOURCE +## + + +module-whatis {GNU dbm (or GDBM, for short) is a library of database functions that use extensible hashing and work similar to the standard UNIX dbm. These routines are provided to a programmer needing to create and manipulate a hashed database.} + +proc ModulesHelp { } { + puts stderr {Name : gdbm} + puts stderr {Version: 1.23} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {GNU dbm (or GDBM, for short) is a library of database functions that use} + puts stderr {extensible hashing and work similar to the standard UNIX dbm. These} + puts stderr {routines are provided to a programmer needing to create and manipulate a} + puts stderr {hashed database.} +} + +conflict gdbm + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/gdbm-1.23-dmhfxva5qt3fivb6mpyz3gpdfxci76xh/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/gdbm-1.23-dmhfxva5qt3fivb6mpyz3gpdfxci76xh/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/gdbm-1.23-dmhfxva5qt3fivb6mpyz3gpdfxci76xh/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/gdbm-1.23-dmhfxva5qt3fivb6mpyz3gpdfxci76xh/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/gdbm-1.23-dmhfxva5qt3fivb6mpyz3gpdfxci76xh/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/gdbm-1.23-dmhfxva5qt3fivb6mpyz3gpdfxci76xh/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/gdbm-1.23-dmhfxva5qt3fivb6mpyz3gpdfxci76xh/.} +setenv GDBM_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/gdbm-1.23-dmhfxva5qt3fivb6mpyz3gpdfxci76xh} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/gettext/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/gettext/.modulerc new file mode 100644 index 00000000..310e1c91 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/gettext/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded gettext/0.22.5-mzypobo diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/gettext/0.22.5-mzypobo b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/gettext/0.22.5-mzypobo new file mode 100644 index 00000000..77f5949f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/gettext/0.22.5-mzypobo @@ -0,0 +1,78 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:37.507335 +## +## gettext@0.22.5%gcc@13.2.0+bzip2+curses+git~libunistring+libxml2+pic+shared+tar+xz build_system=autotools arch=linux-ubuntu22.04-zen2/mzypobo +## +## Configure options: --disable-java --disable-csharp --with-included-glib --with-included-gettext --with-included-libcroco --without-emacs --with-lispdir=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/gettext-0.22.5-mzypobow7kwewflojbml7g5gn2urc74j/share/emacs/site-lisp/gettext --without-cvs --enable-shared --with-libiconv-prefix=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libiconv-1.17-4ijgqeomz3xoohv6wc2ab5xeqmsghrzg --with-ncurses-prefix=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/ncurses-6.5-pzx2rkweuhk5z7xzc7agkbti5t4humzu --with-libxml2-prefix=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libxml2-2.13.4-tdjwblgsgaump2r3zb2axeugegfew63w --with-included-libunistring --with-pic +## + + +module-whatis {GNU internationalization (i18n) and localization (l10n) library.} + +proc ModulesHelp { } { + puts stderr {Name : gettext} + puts stderr {Version: 0.22.5} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {GNU internationalization (i18n) and localization (l10n) library.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load tar/1.34-jzoadke + module load xz/5.4.6-hrwbhmr +} else { + depends-on tar/1.34-jzoadke + depends-on xz/5.4.6-hrwbhmr +} +conflict gettext + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/gettext-0.22.5-mzypobow7kwewflojbml7g5gn2urc74j/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/gettext-0.22.5-mzypobow7kwewflojbml7g5gn2urc74j/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/gettext-0.22.5-mzypobow7kwewflojbml7g5gn2urc74j/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/gettext-0.22.5-mzypobow7kwewflojbml7g5gn2urc74j/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/gettext-0.22.5-mzypobow7kwewflojbml7g5gn2urc74j/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/gettext-0.22.5-mzypobow7kwewflojbml7g5gn2urc74j/share/man} +prepend-path ACLOCAL_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/gettext-0.22.5-mzypobow7kwewflojbml7g5gn2urc74j/share/aclocal} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/gettext-0.22.5-mzypobow7kwewflojbml7g5gn2urc74j/.} +setenv GETTEXT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/gettext-0.22.5-mzypobow7kwewflojbml7g5gn2urc74j} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/gmp/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/gmp/.modulerc new file mode 100644 index 00000000..fc2b607e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/gmp/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded gmp/6.3.0-635affc diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/gmp/6.2.1 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/gmp/6.2.1 new file mode 100644 index 00000000..2020d75d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/gmp/6.2.1 @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:38.283552 +## +## gmp@6.2.1%gcc@13.2.0+cxx build_system=autotools libs=shared,static patches=69ad2e2 arch=linux-ubuntu22.04-zen2/ourav7m +## +## Configure options: --enable-cxx --enable-shared --enable-static --with-pic +## + + +module-whatis {GMP is a free library for arbitrary precision arithmetic, operating on signed integers, rational numbers, and floating-point numbers.} + +proc ModulesHelp { } { + puts stderr {Name : gmp} + puts stderr {Version: 6.2.1} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {GMP is a free library for arbitrary precision arithmetic, operating on} + puts stderr {signed integers, rational numbers, and floating-point numbers.} +} + +conflict gmp + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/gmp-6.2.1/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/gmp-6.2.1/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/gmp-6.2.1/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/gmp-6.2.1/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/gmp-6.2.1/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/gmp-6.2.1/.} +setenv GMP_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/gmp-6.2.1-ourav7mun2jpkmjodbhdjhsd6pypge2s} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/gmp/6.3.0-635affc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/gmp/6.3.0-635affc new file mode 100644 index 00000000..42a7bbee --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/gmp/6.3.0-635affc @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:38.337626 +## +## gmp@6.3.0%gcc@13.2.0+cxx build_system=autotools libs=shared,static arch=linux-ubuntu22.04-zen2/635affc +## +## Configure options: --enable-cxx --enable-shared --enable-static --with-pic +## + + +module-whatis {GMP is a free library for arbitrary precision arithmetic, operating on signed integers, rational numbers, and floating-point numbers.} + +proc ModulesHelp { } { + puts stderr {Name : gmp} + puts stderr {Version: 6.3.0} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {GMP is a free library for arbitrary precision arithmetic, operating on} + puts stderr {signed integers, rational numbers, and floating-point numbers.} +} + +conflict gmp + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/gmp-6.3.0-635affce77ism44dcc7ihs2yc7rszp2o/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/gmp-6.3.0-635affce77ism44dcc7ihs2yc7rszp2o/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/gmp-6.3.0-635affce77ism44dcc7ihs2yc7rszp2o/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/gmp-6.3.0-635affce77ism44dcc7ihs2yc7rszp2o/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/gmp-6.3.0-635affce77ism44dcc7ihs2yc7rszp2o/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/gmp-6.3.0-635affce77ism44dcc7ihs2yc7rszp2o/.} +setenv GMP_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/gmp-6.3.0-635affce77ism44dcc7ihs2yc7rszp2o} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/gsl/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/gsl/.modulerc new file mode 100644 index 00000000..253989b3 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/gsl/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded gsl/2.8-vmiwgsa diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/gsl/2.7.1 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/gsl/2.7.1 new file mode 100644 index 00000000..b6fe1d76 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/gsl/2.7.1 @@ -0,0 +1,77 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:38.854667 +## +## gsl@2.7.1%gcc@13.2.0~external-cblas+pic+shared build_system=autotools arch=linux-ubuntu22.04-zen2/oq5a6sd +## +## Configure options: --enable-shared --with-pic +## + + +module-whatis {The GNU Scientific Library (GSL) is a numerical library for C and C++ programmers. It is free software under the GNU General Public License. The library provides a wide range of mathematical routines such as random number generators, special functions and least-squares fitting. There are over 1000 functions in total with an extensive test suite.} + +proc ModulesHelp { } { + puts stderr {Name : gsl} + puts stderr {Version: 2.7.1} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {The GNU Scientific Library (GSL) is a numerical library for C and C++} + puts stderr {programmers. It is free software under the GNU General Public License.} + puts stderr {The library provides a wide range of mathematical routines such as} + puts stderr {random number generators, special functions and least-squares fitting.} + puts stderr {There are over 1000 functions in total with an extensive test suite.} +} + +conflict gsl + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/gsl-2.7.1/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/gsl-2.7.1/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/gsl-2.7.1/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/gsl-2.7.1/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/gsl-2.7.1/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/gsl-2.7.1/share/man} +prepend-path ACLOCAL_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/gsl-2.7.1/share/aclocal} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/gsl-2.7.1/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/gsl-2.7.1/.} +setenv GSL_ROOT_DIR {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/gsl-2.7.1} +setenv GSL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/gsl-2.7.1-oq5a6sdlngkcn2cxghcdtcyv2mvx2enx} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/gsl/2.8-vmiwgsa b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/gsl/2.8-vmiwgsa new file mode 100644 index 00000000..93861f46 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/gsl/2.8-vmiwgsa @@ -0,0 +1,77 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:38.906987 +## +## gsl@2.8%gcc@13.2.0~external-cblas+pic+shared build_system=autotools arch=linux-ubuntu22.04-zen2/vmiwgsa +## +## Configure options: --enable-shared --with-pic +## + + +module-whatis {The GNU Scientific Library (GSL) is a numerical library for C and C++ programmers. It is free software under the GNU General Public License. The library provides a wide range of mathematical routines such as random number generators, special functions and least-squares fitting. There are over 1000 functions in total with an extensive test suite.} + +proc ModulesHelp { } { + puts stderr {Name : gsl} + puts stderr {Version: 2.8} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {The GNU Scientific Library (GSL) is a numerical library for C and C++} + puts stderr {programmers. It is free software under the GNU General Public License.} + puts stderr {The library provides a wide range of mathematical routines such as} + puts stderr {random number generators, special functions and least-squares fitting.} + puts stderr {There are over 1000 functions in total with an extensive test suite.} +} + +conflict gsl + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/gsl-2.8-vmiwgsae27iufx63jb4j3txvyv46zjwn/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/gsl-2.8-vmiwgsae27iufx63jb4j3txvyv46zjwn/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/gsl-2.8-vmiwgsae27iufx63jb4j3txvyv46zjwn/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/gsl-2.8-vmiwgsae27iufx63jb4j3txvyv46zjwn/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/gsl-2.8-vmiwgsae27iufx63jb4j3txvyv46zjwn/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/gsl-2.8-vmiwgsae27iufx63jb4j3txvyv46zjwn/share/man} +prepend-path ACLOCAL_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/gsl-2.8-vmiwgsae27iufx63jb4j3txvyv46zjwn/share/aclocal} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/gsl-2.8-vmiwgsae27iufx63jb4j3txvyv46zjwn/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/gsl-2.8-vmiwgsae27iufx63jb4j3txvyv46zjwn/.} +setenv GSL_ROOT_DIR {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/gsl-2.8-vmiwgsae27iufx63jb4j3txvyv46zjwn} +setenv GSL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/gsl-2.8-vmiwgsae27iufx63jb4j3txvyv46zjwn} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/h5cpp/1.10.4-6 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/h5cpp/1.10.4-6 new file mode 100644 index 00000000..a3380596 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/h5cpp/1.10.4-6 @@ -0,0 +1,67 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:38.999060 +## +## h5cpp@1.10.4-6%gcc@13.2.0~ipo~mpi build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-zen2/ey25xfe +## +## Configure options: -DHDF5_INCLUDE_DIRS=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/hdf5-1.14.5-unnshvefivrubnhzc7lb4xbgabex347f/include -DHDF5_LIBRARIES=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/hdf5-1.14.5-unnshvefivrubnhzc7lb4xbgabex347f/lib -DH5CPP_BUILD_TESTS=OFF +## + + +module-whatis {Easy to use HDF5 C++ templates for Serial and Parallel HDF5} + +proc ModulesHelp { } { + puts stderr {Name : h5cpp} + puts stderr {Version: 1.10.4-6} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {Easy to use HDF5 C++ templates for Serial and Parallel HDF5} +} + +conflict h5cpp + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/h5cpp-1.10.4-6/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/h5cpp-1.10.4-6/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/h5cpp-1.10.4-6/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/h5cpp-1.10.4-6/include} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/h5cpp-1.10.4-6/.} +setenv H5CPP_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/h5cpp-1.10.4-6-ey25xfefdwpfg5gliutdxysi52w65uq5} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/h5z-zfp/1.1.1 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/h5z-zfp/1.1.1 new file mode 100644 index 00000000..fb728315 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/h5z-zfp/1.1.1 @@ -0,0 +1,66 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:39.173823 +## +## h5z-zfp@1.1.1%gcc@13.2.0+fortran~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-zen2/cnlenfk +## + + +module-whatis {A highly flexible floating point and integer compression plugin for the HDF5 library using ZFP compression.} + +proc ModulesHelp { } { + puts stderr {Name : h5z-zfp} + puts stderr {Version: 1.1.1} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {A highly flexible floating point and integer compression plugin for the} + puts stderr {HDF5 library using ZFP compression.} +} + +conflict h5z-zfp + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/h5z-zfp-1.1.1/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/h5z-zfp-1.1.1/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/h5z-zfp-1.1.1/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/h5z-zfp-1.1.1/include} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/h5z-zfp-1.1.1/.} +setenv H5Z_ZFP_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/h5z-zfp-1.1.1-cnlenfkbqtakvcgxgjirzyxnedq7hwdq} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/hdf5/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/hdf5/.modulerc new file mode 100644 index 00000000..dd6f11a4 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/hdf5/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded hdf5/1.14.5-unnshve +module-hide --soft --hidden-loaded hdf5/1.14.5-tdp4fvm diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/hdf5/1.14.3 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/hdf5/1.14.3 new file mode 100644 index 00000000..65c8e290 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/hdf5/1.14.3 @@ -0,0 +1,77 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:39.372010 +## +## hdf5@1.14.3%gcc@13.2.0~cxx~fortran~hl~ipo~java~map~mpi+shared~szip~threadsafe+tools api=default build_system=cmake build_type=Release generator=make patches=82088c8,f42732a arch=linux-ubuntu22.04-zen2/ojztsoh +## +## Configure options: -DALLOW_UNSUPPORTED:BOOL=ON -DHDF5_BUILD_EXAMPLES:BOOL=OFF -DBUILD_TESTING:BOOL=OFF -DHDF5_ENABLE_MAP_API:BOOL=OFF -DHDF5_ENABLE_Z_LIB_SUPPORT:BOOL=ON -DHDF5_ENABLE_SZIP_SUPPORT:BOOL=OFF -DHDF5_ENABLE_SZIP_ENCODING:BOOL=OFF -DBUILD_SHARED_LIBS:BOOL=ON -DONLY_SHARED_LIBS:BOOL=OFF -DHDF5_ENABLE_PARALLEL:BOOL=OFF -DHDF5_ENABLE_THREADSAFE:BOOL=OFF -DHDF5_BUILD_HL_LIB:BOOL=OFF -DHDF5_BUILD_CPP_LIB:BOOL=OFF -DHDF5_BUILD_FORTRAN:BOOL=OFF -DHDF5_BUILD_JAVA:BOOL=OFF -DHDF5_BUILD_TOOLS:BOOL=ON +## + + +module-whatis {HDF5 is a data model, library, and file format for storing and managing data. It supports an unlimited variety of datatypes, and is designed for flexible and efficient I/O and for high volume and complex data. } + +proc ModulesHelp { } { + puts stderr {Name : hdf5} + puts stderr {Version: 1.14.3} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {HDF5 is a data model, library, and file format for storing and managing} + puts stderr {data. It supports an unlimited variety of datatypes, and is designed for} + puts stderr {flexible and efficient I/O and for high volume and complex data.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load pkgconf/2.2.0-ghcz7ox +} else { + depends-on pkgconf/2.2.0-ghcz7ox +} +conflict hdf5 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/hdf5-1.14.3/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/hdf5-1.14.3/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/hdf5-1.14.3/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/hdf5-1.14.3/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/hdf5-1.14.3/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/hdf5-1.14.3/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/hdf5-1.14.3/.} +append-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/hdf5-1.14.3/lib} +setenv HDF5_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/hdf5-1.14.3-ojztsohya56owyisbwipozb7owz3qscu} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/hdf5/1.14.5-tdp4fvm b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/hdf5/1.14.5-tdp4fvm new file mode 100644 index 00000000..27c3a0c9 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/hdf5/1.14.5-tdp4fvm @@ -0,0 +1,77 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:39.535077 +## +## hdf5@1.14.5%gcc@13.2.0~cxx+fortran~hl~ipo~java~map~mpi+shared~szip~threadsafe+tools api=default build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-zen2/tdp4fvm +## +## Configure options: -DALLOW_UNSUPPORTED:BOOL=ON -DHDF5_BUILD_EXAMPLES:BOOL=OFF -DBUILD_TESTING:BOOL=OFF -DHDF5_ENABLE_MAP_API:BOOL=OFF -DHDF5_ENABLE_Z_LIB_SUPPORT:BOOL=ON -DHDF5_ENABLE_SZIP_SUPPORT:BOOL=OFF -DHDF5_ENABLE_SZIP_ENCODING:BOOL=OFF -DBUILD_SHARED_LIBS:BOOL=ON -DONLY_SHARED_LIBS:BOOL=OFF -DHDF5_ENABLE_PARALLEL:BOOL=OFF -DHDF5_ENABLE_THREADSAFE:BOOL=OFF -DHDF5_BUILD_HL_LIB:BOOL=OFF -DHDF5_BUILD_CPP_LIB:BOOL=OFF -DHDF5_BUILD_FORTRAN:BOOL=ON -DHDF5_BUILD_JAVA:BOOL=OFF -DHDF5_BUILD_TOOLS:BOOL=ON +## + + +module-whatis {HDF5 is a data model, library, and file format for storing and managing data. It supports an unlimited variety of datatypes, and is designed for flexible and efficient I/O and for high volume and complex data. } + +proc ModulesHelp { } { + puts stderr {Name : hdf5} + puts stderr {Version: 1.14.5} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {HDF5 is a data model, library, and file format for storing and managing} + puts stderr {data. It supports an unlimited variety of datatypes, and is designed for} + puts stderr {flexible and efficient I/O and for high volume and complex data.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load pkgconf/2.2.0-ghcz7ox +} else { + depends-on pkgconf/2.2.0-ghcz7ox +} +conflict hdf5 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/hdf5-1.14.5-tdp4fvm2fpupf3vszxolwzbhzdfzcp7o/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/hdf5-1.14.5-tdp4fvm2fpupf3vszxolwzbhzdfzcp7o/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/hdf5-1.14.5-tdp4fvm2fpupf3vszxolwzbhzdfzcp7o/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/hdf5-1.14.5-tdp4fvm2fpupf3vszxolwzbhzdfzcp7o/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/hdf5-1.14.5-tdp4fvm2fpupf3vszxolwzbhzdfzcp7o/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/hdf5-1.14.5-tdp4fvm2fpupf3vszxolwzbhzdfzcp7o/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/hdf5-1.14.5-tdp4fvm2fpupf3vszxolwzbhzdfzcp7o/.} +append-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/hdf5-1.14.5-tdp4fvm2fpupf3vszxolwzbhzdfzcp7o/lib} +setenv HDF5_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/hdf5-1.14.5-tdp4fvm2fpupf3vszxolwzbhzdfzcp7o} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/hdf5/1.14.5-unnshve b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/hdf5/1.14.5-unnshve new file mode 100644 index 00000000..d40a102e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/hdf5/1.14.5-unnshve @@ -0,0 +1,77 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:39.494433 +## +## hdf5@1.14.5%gcc@13.2.0~cxx~fortran+hl~ipo~java~map~mpi+shared~szip~threadsafe+tools api=default build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-zen2/unnshve +## +## Configure options: -DALLOW_UNSUPPORTED:BOOL=ON -DHDF5_BUILD_EXAMPLES:BOOL=OFF -DBUILD_TESTING:BOOL=OFF -DHDF5_ENABLE_MAP_API:BOOL=OFF -DHDF5_ENABLE_Z_LIB_SUPPORT:BOOL=ON -DHDF5_ENABLE_SZIP_SUPPORT:BOOL=OFF -DHDF5_ENABLE_SZIP_ENCODING:BOOL=OFF -DBUILD_SHARED_LIBS:BOOL=ON -DONLY_SHARED_LIBS:BOOL=OFF -DHDF5_ENABLE_PARALLEL:BOOL=OFF -DHDF5_ENABLE_THREADSAFE:BOOL=OFF -DHDF5_BUILD_HL_LIB:BOOL=ON -DHDF5_BUILD_CPP_LIB:BOOL=OFF -DHDF5_BUILD_FORTRAN:BOOL=OFF -DHDF5_BUILD_JAVA:BOOL=OFF -DHDF5_BUILD_TOOLS:BOOL=ON +## + + +module-whatis {HDF5 is a data model, library, and file format for storing and managing data. It supports an unlimited variety of datatypes, and is designed for flexible and efficient I/O and for high volume and complex data. } + +proc ModulesHelp { } { + puts stderr {Name : hdf5} + puts stderr {Version: 1.14.5} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {HDF5 is a data model, library, and file format for storing and managing} + puts stderr {data. It supports an unlimited variety of datatypes, and is designed for} + puts stderr {flexible and efficient I/O and for high volume and complex data.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load pkgconf/2.2.0-ghcz7ox +} else { + depends-on pkgconf/2.2.0-ghcz7ox +} +conflict hdf5 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/hdf5-1.14.5-unnshvefivrubnhzc7lb4xbgabex347f/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/hdf5-1.14.5-unnshvefivrubnhzc7lb4xbgabex347f/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/hdf5-1.14.5-unnshvefivrubnhzc7lb4xbgabex347f/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/hdf5-1.14.5-unnshvefivrubnhzc7lb4xbgabex347f/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/hdf5-1.14.5-unnshvefivrubnhzc7lb4xbgabex347f/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/hdf5-1.14.5-unnshvefivrubnhzc7lb4xbgabex347f/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/hdf5-1.14.5-unnshvefivrubnhzc7lb4xbgabex347f/.} +append-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/hdf5-1.14.5-unnshvefivrubnhzc7lb4xbgabex347f/lib} +setenv HDF5_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/hdf5-1.14.5-unnshvefivrubnhzc7lb4xbgabex347f} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/icu4c/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/icu4c/.modulerc new file mode 100644 index 00000000..f4c38fb9 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/icu4c/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded icu4c/74.2-sebavf7 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/icu4c/74.2-sebavf7 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/icu4c/74.2-sebavf7 new file mode 100644 index 00000000..1315bb46 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/icu4c/74.2-sebavf7 @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:39.915039 +## +## icu4c@74.2%gcc@13.2.0 build_system=autotools cxxstd=11 arch=linux-ubuntu22.04-zen2/sebavf7 +## + + +module-whatis {ICU is a mature, widely used set of C/C++ and Java libraries providing Unicode and Globalization support for software applications. ICU4C is the C/C++ interface.} + +proc ModulesHelp { } { + puts stderr {Name : icu4c} + puts stderr {Version: 74.2} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {ICU is a mature, widely used set of C/C++ and Java libraries providing} + puts stderr {Unicode and Globalization support for software applications. ICU4C is} + puts stderr {the C/C++ interface.} +} + +conflict icu4c + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/icu4c-74.2-sebavf7z3hdwgenkzrmntkc7vn2zgjin/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/icu4c-74.2-sebavf7z3hdwgenkzrmntkc7vn2zgjin/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/icu4c-74.2-sebavf7z3hdwgenkzrmntkc7vn2zgjin/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/icu4c-74.2-sebavf7z3hdwgenkzrmntkc7vn2zgjin/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/icu4c-74.2-sebavf7z3hdwgenkzrmntkc7vn2zgjin/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/icu4c-74.2-sebavf7z3hdwgenkzrmntkc7vn2zgjin/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/icu4c-74.2-sebavf7z3hdwgenkzrmntkc7vn2zgjin/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/icu4c-74.2-sebavf7z3hdwgenkzrmntkc7vn2zgjin/.} +setenv ICU4C_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/icu4c-74.2-sebavf7z3hdwgenkzrmntkc7vn2zgjin} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/intel-oneapi-mkl/2022.2.1 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/intel-oneapi-mkl/2022.2.1 new file mode 100644 index 00000000..242b93fe --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/intel-oneapi-mkl/2022.2.1 @@ -0,0 +1,79 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:40.612322 +## +## intel-oneapi-mkl@2022.2.1%gcc@13.2.0~cluster+envmods~gfortran~ilp64+shared build_system=generic mpi_family=none threads=none arch=linux-ubuntu22.04-zen2/6tek3np +## + + +module-whatis {Intel oneAPI Math Kernel Library (Intel oneMKL; formerly Intel Math Kernel Library or Intel MKL), is a library of optimized math routines for science, engineering, and financial applications. Core math functions include BLAS, LAPACK, ScaLAPACK, sparse solvers, fast Fourier transforms, and vector math.} + +proc ModulesHelp { } { + puts stderr {Name : intel-oneapi-mkl} + puts stderr {Version: 2022.2.1} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {Intel oneAPI Math Kernel Library (Intel oneMKL; formerly Intel Math} + puts stderr {Kernel Library or Intel MKL), is a library of optimized math routines} + puts stderr {for science, engineering, and financial applications. Core math} + puts stderr {functions include BLAS, LAPACK, ScaLAPACK, sparse solvers, fast Fourier} + puts stderr {transforms, and vector math. LICENSE INFORMATION: By downloading and} + puts stderr {using this software, you agree to the terms and conditions of the} + puts stderr {software license agreements at https://intel.ly/393CijO.} +} + +conflict intel-oneapi-mkl + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/intel-oneapi-mkl-2022.2.1/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/intel-oneapi-mkl-2022.2.1/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/intel-oneapi-mkl-2022.2.1/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/intel-oneapi-mkl-2022.2.1/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/intel-oneapi-mkl-2022.2.1/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/intel-oneapi-mkl-2022.2.1/.} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/intel-oneapi-mkl-2022.2.1/mkl/2022.2.1/include} +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/intel-oneapi-mkl-2022.2.1/mkl/2022.2.1/lib/intel64} +prepend-path LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/intel-oneapi-mkl-2022.2.1/mkl/2022.2.1/lib/intel64} +setenv MKLROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/intel-oneapi-mkl-2022.2.1/mkl/2022.2.1} +prepend-path NLSPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/intel-oneapi-mkl-2022.2.1/mkl/2022.2.1/lib/intel64/locale/%l_%t/%N} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/intel-oneapi-mkl-2022.2.1/mkl/2022.2.1/lib/pkgconfig} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/intel-oneapi-mkl-2022.2.1/mkl/2022.2.1/bin/intel64} +setenv INTEL_ONEAPI_MKL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/intel-oneapi-mkl-2022.2.1-6tek3npelcpfmzmrl6s3wa25wtxqfqtl} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/intel-oneapi-mkl/2023.2.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/intel-oneapi-mkl/2023.2.0 new file mode 100644 index 00000000..de6f3e2f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/intel-oneapi-mkl/2023.2.0 @@ -0,0 +1,79 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:41.053083 +## +## intel-oneapi-mkl@2023.2.0%gcc@13.2.0~cluster+envmods~gfortran~ilp64+shared build_system=generic mpi_family=none threads=none arch=linux-ubuntu22.04-zen2/seq4c2t +## + + +module-whatis {Intel oneAPI Math Kernel Library (Intel oneMKL; formerly Intel Math Kernel Library or Intel MKL), is a library of optimized math routines for science, engineering, and financial applications. Core math functions include BLAS, LAPACK, ScaLAPACK, sparse solvers, fast Fourier transforms, and vector math.} + +proc ModulesHelp { } { + puts stderr {Name : intel-oneapi-mkl} + puts stderr {Version: 2023.2.0} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {Intel oneAPI Math Kernel Library (Intel oneMKL; formerly Intel Math} + puts stderr {Kernel Library or Intel MKL), is a library of optimized math routines} + puts stderr {for science, engineering, and financial applications. Core math} + puts stderr {functions include BLAS, LAPACK, ScaLAPACK, sparse solvers, fast Fourier} + puts stderr {transforms, and vector math. LICENSE INFORMATION: By downloading and} + puts stderr {using this software, you agree to the terms and conditions of the} + puts stderr {software license agreements at https://intel.ly/393CijO.} +} + +conflict intel-oneapi-mkl + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/intel-oneapi-mkl-2023.2.0/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/intel-oneapi-mkl-2023.2.0/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/intel-oneapi-mkl-2023.2.0/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/intel-oneapi-mkl-2023.2.0/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/intel-oneapi-mkl-2023.2.0/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/intel-oneapi-mkl-2023.2.0/.} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/intel-oneapi-mkl-2023.2.0/mkl/2023.2.0/include} +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/intel-oneapi-mkl-2023.2.0/mkl/2023.2.0/lib/intel64} +prepend-path LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/intel-oneapi-mkl-2023.2.0/mkl/2023.2.0/lib/intel64} +setenv MKLROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/intel-oneapi-mkl-2023.2.0/mkl/2023.2.0} +prepend-path NLSPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/intel-oneapi-mkl-2023.2.0/mkl/2023.2.0/lib/intel64/locale/%l_%t/%N} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/intel-oneapi-mkl-2023.2.0/mkl/2023.2.0/lib/pkgconfig} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/intel-oneapi-mkl-2023.2.0/mkl/2023.2.0/bin/intel64} +setenv INTEL_ONEAPI_MKL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/intel-oneapi-mkl-2023.2.0-seq4c2tlk6xqmf2y5577ux5qqkxccrrs} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/intel-oneapi-mkl/2024.0.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/intel-oneapi-mkl/2024.0.0 new file mode 100644 index 00000000..941ac5e4 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/intel-oneapi-mkl/2024.0.0 @@ -0,0 +1,75 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:41.458891 +## +## intel-oneapi-mkl@2024.0.0%gcc@13.2.0~cluster+envmods~gfortran~ilp64+shared build_system=generic mpi_family=none threads=none arch=linux-ubuntu22.04-zen2/szi6jy7 +## + + +module-whatis {Intel oneAPI Math Kernel Library (Intel oneMKL; formerly Intel Math Kernel Library or Intel MKL), is a library of optimized math routines for science, engineering, and financial applications. Core math functions include BLAS, LAPACK, ScaLAPACK, sparse solvers, fast Fourier transforms, and vector math.} + +proc ModulesHelp { } { + puts stderr {Name : intel-oneapi-mkl} + puts stderr {Version: 2024.0.0} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {Intel oneAPI Math Kernel Library (Intel oneMKL; formerly Intel Math} + puts stderr {Kernel Library or Intel MKL), is a library of optimized math routines} + puts stderr {for science, engineering, and financial applications. Core math} + puts stderr {functions include BLAS, LAPACK, ScaLAPACK, sparse solvers, fast Fourier} + puts stderr {transforms, and vector math. LICENSE INFORMATION: By downloading and} + puts stderr {using this software, you agree to the terms and conditions of the} + puts stderr {software license agreements at https://intel.ly/393CijO.} +} + +conflict intel-oneapi-mkl + +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/intel-oneapi-mkl-2024.0.0/.} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/intel-oneapi-mkl-2024.0.0/mkl/2024.0/lib/cmake:} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/intel-oneapi-mkl-2024.0.0/mkl/2024.0/include:} +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/intel-oneapi-mkl-2024.0.0/mkl/2024.0/lib:} +prepend-path LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/intel-oneapi-mkl-2024.0.0/mkl/2024.0/lib/:} +setenv MKLROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/intel-oneapi-mkl-2024.0.0/mkl/2024.0} +prepend-path NLSPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/intel-oneapi-mkl-2024.0.0/mkl/2024.0/share/locale/%l_%t/%N:} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/intel-oneapi-mkl-2024.0.0/mkl/2024.0/lib/pkgconfig:} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/intel-oneapi-mkl-2024.0.0/mkl/2024.0/bin/} +setenv INTEL_ONEAPI_MKL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/intel-oneapi-mkl-2024.0.0-szi6jy7hnmge56i4jaomtd5taynbxgsg} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/intel-oneapi-tbb/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/intel-oneapi-tbb/.modulerc new file mode 100644 index 00000000..377b5580 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/intel-oneapi-tbb/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded intel-oneapi-tbb/2022.0.0-shyruxt diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/intel-oneapi-tbb/2021.11.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/intel-oneapi-tbb/2021.11.0 new file mode 100644 index 00000000..6348f786 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/intel-oneapi-tbb/2021.11.0 @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:41.874209 +## +## intel-oneapi-tbb@2021.11.0%gcc@13.2.0+envmods build_system=generic arch=linux-ubuntu22.04-zen2/cwprezl +## + + +module-whatis {Intel oneAPI Threading Building Blocks (oneTBB) is a flexible performance library that simplifies the work of adding parallelism to complex applications across accelerated architectures, even if you are not a threading expert.} + +proc ModulesHelp { } { + puts stderr {Name : intel-oneapi-tbb} + puts stderr {Version: 2021.11.0} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {Intel oneAPI Threading Building Blocks (oneTBB) is a flexible} + puts stderr {performance library that simplifies the work of adding parallelism to} + puts stderr {complex applications across accelerated architectures, even if you are} + puts stderr {not a threading expert. LICENSE INFORMATION: By downloading and using} + puts stderr {this software, you agree to the terms and conditions of the software} + puts stderr {license agreements at https://intel.ly/393CijO.} +} + +conflict intel-oneapi-tbb + +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/intel-oneapi-tbb-2021.11.0/.} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/intel-oneapi-tbb-2021.11.0/tbb/2021.11/env/..} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/intel-oneapi-tbb-2021.11.0/tbb/2021.11/env/../include} +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/intel-oneapi-tbb-2021.11.0/tbb/2021.11/env/../lib/intel64/gcc4.8} +prepend-path LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/intel-oneapi-tbb-2021.11.0/tbb/2021.11/env/../lib/intel64/gcc4.8} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/intel-oneapi-tbb-2021.11.0/tbb/2021.11/env/../lib/pkgconfig} +setenv TBBROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/intel-oneapi-tbb-2021.11.0/tbb/2021.11/env/..} +setenv INTEL_ONEAPI_TBB_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/intel-oneapi-tbb-2021.11.0-cwprezlyvy5nvpso3p2inxfqyaja4pcz} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/intel-oneapi-tbb/2022.0.0-shyruxt b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/intel-oneapi-tbb/2022.0.0-shyruxt new file mode 100644 index 00000000..3e1a04ad --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/intel-oneapi-tbb/2022.0.0-shyruxt @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:42.801224 +## +## intel-oneapi-tbb@2022.0.0%gcc@13.2.0+envmods build_system=generic arch=linux-ubuntu22.04-zen2/shyruxt +## + + +module-whatis {Intel oneAPI Threading Building Blocks (oneTBB) is a flexible performance library that simplifies the work of adding parallelism to complex applications across accelerated architectures, even if you are not a threading expert.} + +proc ModulesHelp { } { + puts stderr {Name : intel-oneapi-tbb} + puts stderr {Version: 2022.0.0} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {Intel oneAPI Threading Building Blocks (oneTBB) is a flexible} + puts stderr {performance library that simplifies the work of adding parallelism to} + puts stderr {complex applications across accelerated architectures, even if you are} + puts stderr {not a threading expert. LICENSE INFORMATION: By downloading and using} + puts stderr {this software, you agree to the terms and conditions of the software} + puts stderr {license agreements at https://intel.ly/393CijO.} +} + +conflict intel-oneapi-tbb + +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/intel-oneapi-tbb-2022.0.0-shyruxtdvwa3gmuu4ekxelgubkczwadj/.} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/intel-oneapi-tbb-2022.0.0-shyruxtdvwa3gmuu4ekxelgubkczwadj/tbb/2022.0/env/..} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/intel-oneapi-tbb-2022.0.0-shyruxtdvwa3gmuu4ekxelgubkczwadj/tbb/2022.0/env/../include} +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/intel-oneapi-tbb-2022.0.0-shyruxtdvwa3gmuu4ekxelgubkczwadj/tbb/2022.0/env/../lib/intel64/gcc4.8} +prepend-path LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/intel-oneapi-tbb-2022.0.0-shyruxtdvwa3gmuu4ekxelgubkczwadj/tbb/2022.0/env/../lib/intel64/gcc4.8} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/intel-oneapi-tbb-2022.0.0-shyruxtdvwa3gmuu4ekxelgubkczwadj/tbb/2022.0/env/../lib/pkgconfig} +setenv TBBROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/intel-oneapi-tbb-2022.0.0-shyruxtdvwa3gmuu4ekxelgubkczwadj/tbb/2022.0/env/..} +setenv INTEL_ONEAPI_TBB_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/intel-oneapi-tbb-2022.0.0-shyruxtdvwa3gmuu4ekxelgubkczwadj} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/krb5/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/krb5/.modulerc new file mode 100644 index 00000000..43aeb606 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/krb5/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded krb5/1.21.3-geffrzl diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/krb5/1.21.3-geffrzl b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/krb5/1.21.3-geffrzl new file mode 100644 index 00000000..242fcf45 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/krb5/1.21.3-geffrzl @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:43.745343 +## +## krb5@1.21.3%gcc@13.2.0+shared build_system=autotools arch=linux-ubuntu22.04-zen2/geffrzl +## +## Configure options: --without-system-verto --without-keyutils --disable-static CFLAGS=-fcommon +## + + +module-whatis {Network authentication protocol} + +proc ModulesHelp { } { + puts stderr {Name : krb5} + puts stderr {Version: 1.21.3} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {Network authentication protocol} +} + +conflict krb5 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/krb5-1.21.3-geffrzlcnp743yzcomshaz2kj2fnh7pt/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/krb5-1.21.3-geffrzlcnp743yzcomshaz2kj2fnh7pt/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/krb5-1.21.3-geffrzlcnp743yzcomshaz2kj2fnh7pt/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/krb5-1.21.3-geffrzlcnp743yzcomshaz2kj2fnh7pt/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/krb5-1.21.3-geffrzlcnp743yzcomshaz2kj2fnh7pt/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/krb5-1.21.3-geffrzlcnp743yzcomshaz2kj2fnh7pt/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/krb5-1.21.3-geffrzlcnp743yzcomshaz2kj2fnh7pt/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/krb5-1.21.3-geffrzlcnp743yzcomshaz2kj2fnh7pt/.} +setenv KRB5_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/krb5-1.21.3-geffrzlcnp743yzcomshaz2kj2fnh7pt} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libaec/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libaec/.modulerc new file mode 100644 index 00000000..f0fe0a9b --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libaec/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libaec/1.0.6-6h4pmse diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libaec/1.0.6-6h4pmse b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libaec/1.0.6-6h4pmse new file mode 100644 index 00000000..13aeda4f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libaec/1.0.6-6h4pmse @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:44.519631 +## +## libaec@1.0.6%gcc@13.2.0~ipo+shared build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-zen2/6h4pmse +## +## Configure options: -DBUILD_SHARED_LIBS:BOOL=ON +## + + +module-whatis {Libaec provides fast lossless compression of 1 up to 32 bit wide signed or unsigned integers (samples). It implements Golomb-Rice compression method under the BSD license and includes a free drop-in replacement for the SZIP library. } + +proc ModulesHelp { } { + puts stderr {Name : libaec} + puts stderr {Version: 1.0.6} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {Libaec provides fast lossless compression of 1 up to 32 bit wide signed} + puts stderr {or unsigned integers (samples). It implements Golomb-Rice compression} + puts stderr {method under the BSD license and includes a free drop-in replacement for} + puts stderr {the SZIP library.} +} + +conflict libaec + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libaec-1.0.6-6h4pmseagobb2vpcjkuxiks3hefuvo5r/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libaec-1.0.6-6h4pmseagobb2vpcjkuxiks3hefuvo5r/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libaec-1.0.6-6h4pmseagobb2vpcjkuxiks3hefuvo5r/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libaec-1.0.6-6h4pmseagobb2vpcjkuxiks3hefuvo5r/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libaec-1.0.6-6h4pmseagobb2vpcjkuxiks3hefuvo5r/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libaec-1.0.6-6h4pmseagobb2vpcjkuxiks3hefuvo5r/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libaec-1.0.6-6h4pmseagobb2vpcjkuxiks3hefuvo5r/.} +setenv LIBAEC_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libaec-1.0.6-6h4pmseagobb2vpcjkuxiks3hefuvo5r} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libbsd/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libbsd/.modulerc new file mode 100644 index 00000000..8afe5f6b --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libbsd/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libbsd/0.12.2-loy3ha7 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libbsd/0.12.2-loy3ha7 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libbsd/0.12.2-loy3ha7 new file mode 100644 index 00000000..a5bfccf7 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libbsd/0.12.2-loy3ha7 @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:44.596951 +## +## libbsd@0.12.2%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-zen2/loy3ha7 +## + + +module-whatis {This library provides useful functions commonly found on BSD systems, and lacking on others like GNU systems, thus making it easier to port projects with strong BSD origins, without needing to embed the same code over and over again on each project. } + +proc ModulesHelp { } { + puts stderr {Name : libbsd} + puts stderr {Version: 0.12.2} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {This library provides useful functions commonly found on BSD systems,} + puts stderr {and lacking on others like GNU systems, thus making it easier to port} + puts stderr {projects with strong BSD origins, without needing to embed the same code} + puts stderr {over and over again on each project.} +} + +conflict libbsd + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libbsd-0.12.2-loy3ha7i2eyltx4kpcpf4zw6i7hp7jvk/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libbsd-0.12.2-loy3ha7i2eyltx4kpcpf4zw6i7hp7jvk/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libbsd-0.12.2-loy3ha7i2eyltx4kpcpf4zw6i7hp7jvk/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libbsd-0.12.2-loy3ha7i2eyltx4kpcpf4zw6i7hp7jvk/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libbsd-0.12.2-loy3ha7i2eyltx4kpcpf4zw6i7hp7jvk/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libbsd-0.12.2-loy3ha7i2eyltx4kpcpf4zw6i7hp7jvk/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libbsd-0.12.2-loy3ha7i2eyltx4kpcpf4zw6i7hp7jvk/.} +setenv LIBBSD_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libbsd-0.12.2-loy3ha7i2eyltx4kpcpf4zw6i7hp7jvk} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libevent/2.1.12 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libevent/2.1.12 new file mode 100644 index 00000000..7c334999 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libevent/2.1.12 @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:44.675749 +## +## libevent@2.1.12%gcc@13.2.0+openssl build_system=autotools arch=linux-ubuntu22.04-zen2/nxc5rbh +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {The libevent API provides a mechanism to execute a callback function when a specific event occurs on a file descriptor or after a timeout has been reached. Furthermore, libevent also support callbacks due to signals or regular timeouts.} + +proc ModulesHelp { } { + puts stderr {Name : libevent} + puts stderr {Version: 2.1.12} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {The libevent API provides a mechanism to execute a callback function} + puts stderr {when a specific event occurs on a file descriptor or after a timeout has} + puts stderr {been reached. Furthermore, libevent also support callbacks due to} + puts stderr {signals or regular timeouts.} +} + +conflict libevent + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/libevent-2.1.12/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/libevent-2.1.12/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/libevent-2.1.12/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/libevent-2.1.12/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/libevent-2.1.12/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/libevent-2.1.12/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/libevent-2.1.12/.} +setenv LIBEVENT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/libevent-2.1.12} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libffi/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libffi/.modulerc new file mode 100644 index 00000000..48ec2d2b --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libffi/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libffi/3.4.6-vprqrnp diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libffi/3.4.6-vprqrnp b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libffi/3.4.6-vprqrnp new file mode 100644 index 00000000..3d2cc695 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libffi/3.4.6-vprqrnp @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:44.759311 +## +## libffi@3.4.6%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-zen2/vprqrnp +## +## Configure options: --with-pic --without-gcc-arch +## + + +module-whatis {The libffi library provides a portable, high level programming interface to various calling conventions. This allows a programmer to call any function specified by a call interface description at run time.} + +proc ModulesHelp { } { + puts stderr {Name : libffi} + puts stderr {Version: 3.4.6} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {The libffi library provides a portable, high level programming interface} + puts stderr {to various calling conventions. This allows a programmer to call any} + puts stderr {function specified by a call interface description at run time.} +} + +conflict libffi + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libffi-3.4.6-vprqrnp2crtsf6egaaugse4z3w7prr6y/lib64} +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libffi-3.4.6-vprqrnp2crtsf6egaaugse4z3w7prr6y/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libffi-3.4.6-vprqrnp2crtsf6egaaugse4z3w7prr6y/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libffi-3.4.6-vprqrnp2crtsf6egaaugse4z3w7prr6y/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libffi-3.4.6-vprqrnp2crtsf6egaaugse4z3w7prr6y/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libffi-3.4.6-vprqrnp2crtsf6egaaugse4z3w7prr6y/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libffi-3.4.6-vprqrnp2crtsf6egaaugse4z3w7prr6y/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libffi-3.4.6-vprqrnp2crtsf6egaaugse4z3w7prr6y/.} +setenv LIBFFI_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libffi-3.4.6-vprqrnp2crtsf6egaaugse4z3w7prr6y} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libiconv/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libiconv/.modulerc new file mode 100644 index 00000000..a221a216 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libiconv/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libiconv/1.17-4ijgqeo diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libiconv/1.17-4ijgqeo b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libiconv/1.17-4ijgqeo new file mode 100644 index 00000000..33e3db13 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libiconv/1.17-4ijgqeo @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:44.902304 +## +## libiconv@1.17%gcc@13.2.0 build_system=autotools libs=shared,static arch=linux-ubuntu22.04-zen2/4ijgqeo +## +## Configure options: --enable-extra-encodings --enable-shared --enable-static --with-pic +## + + +module-whatis {GNU libiconv provides an implementation of the iconv() function and the iconv program for character set conversion.} + +proc ModulesHelp { } { + puts stderr {Name : libiconv} + puts stderr {Version: 1.17} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {GNU libiconv provides an implementation of the iconv() function and the} + puts stderr {iconv program for character set conversion.} +} + +conflict libiconv + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libiconv-1.17-4ijgqeomz3xoohv6wc2ab5xeqmsghrzg/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libiconv-1.17-4ijgqeomz3xoohv6wc2ab5xeqmsghrzg/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libiconv-1.17-4ijgqeomz3xoohv6wc2ab5xeqmsghrzg/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libiconv-1.17-4ijgqeomz3xoohv6wc2ab5xeqmsghrzg/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libiconv-1.17-4ijgqeomz3xoohv6wc2ab5xeqmsghrzg/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libiconv-1.17-4ijgqeomz3xoohv6wc2ab5xeqmsghrzg/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libiconv-1.17-4ijgqeomz3xoohv6wc2ab5xeqmsghrzg/.} +setenv LIBICONV_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libiconv-1.17-4ijgqeomz3xoohv6wc2ab5xeqmsghrzg} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libmd/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libmd/.modulerc new file mode 100644 index 00000000..9c846a9b --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libmd/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libmd/1.0.4-zk5ydrx diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libmd/1.0.4-zk5ydrx b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libmd/1.0.4-zk5ydrx new file mode 100644 index 00000000..11927ef2 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libmd/1.0.4-zk5ydrx @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.048406 +## +## libmd@1.0.4%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-zen2/zk5ydrx +## + + +module-whatis {This library provides message digest functions found on BSD systems either on their libc (NetBSD, OpenBSD) or libmd (FreeBSD, DragonflyBSD, macOS, Solaris) libraries and lacking on others like GNU systems.} + +proc ModulesHelp { } { + puts stderr {Name : libmd} + puts stderr {Version: 1.0.4} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {This library provides message digest functions found on BSD systems} + puts stderr {either on their libc (NetBSD, OpenBSD) or libmd (FreeBSD, DragonflyBSD,} + puts stderr {macOS, Solaris) libraries and lacking on others like GNU systems.} +} + +conflict libmd + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libmd-1.0.4-zk5ydrxka5rf7lhtcori34aljnl2vupr/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libmd-1.0.4-zk5ydrxka5rf7lhtcori34aljnl2vupr/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libmd-1.0.4-zk5ydrxka5rf7lhtcori34aljnl2vupr/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libmd-1.0.4-zk5ydrxka5rf7lhtcori34aljnl2vupr/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libmd-1.0.4-zk5ydrxka5rf7lhtcori34aljnl2vupr/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libmd-1.0.4-zk5ydrxka5rf7lhtcori34aljnl2vupr/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libmd-1.0.4-zk5ydrxka5rf7lhtcori34aljnl2vupr/.} +setenv LIBMD_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libmd-1.0.4-zk5ydrxka5rf7lhtcori34aljnl2vupr} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libnsl/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libnsl/.modulerc new file mode 100644 index 00000000..cd9fd02c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libnsl/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libnsl/2.0.1-5vjfmoq diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libnsl/2.0.1-5vjfmoq b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libnsl/2.0.1-5vjfmoq new file mode 100644 index 00000000..2e493ba4 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libnsl/2.0.1-5vjfmoq @@ -0,0 +1,67 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.136859 +## +## libnsl@2.0.1%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-zen2/5vjfmoq +## + + +module-whatis {This library contains the public client interface for NIS(YP) and NIS+ in a IPv6 ready version.} + +proc ModulesHelp { } { + puts stderr {Name : libnsl} + puts stderr {Version: 2.0.1} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {This library contains the public client interface for NIS(YP) and NIS+} + puts stderr {in a IPv6 ready version.} +} + +conflict libnsl + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libnsl-2.0.1-5vjfmoqwv4liv4jrklszs5phrnr64xoz/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libnsl-2.0.1-5vjfmoqwv4liv4jrklszs5phrnr64xoz/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libnsl-2.0.1-5vjfmoqwv4liv4jrklszs5phrnr64xoz/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libnsl-2.0.1-5vjfmoqwv4liv4jrklszs5phrnr64xoz/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libnsl-2.0.1-5vjfmoqwv4liv4jrklszs5phrnr64xoz/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libnsl-2.0.1-5vjfmoqwv4liv4jrklszs5phrnr64xoz/.} +setenv LIBNSL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libnsl-2.0.1-5vjfmoqwv4liv4jrklszs5phrnr64xoz} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libsvm/323 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libsvm/323 new file mode 100644 index 00000000..56a898b5 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libsvm/323 @@ -0,0 +1,64 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.398894 +## +## libsvm@323%gcc@13.2.0 build_system=makefile arch=linux-ubuntu22.04-zen2/oznx45a +## + + +module-whatis {Libsvm is a simple, easy-to-use, and efficient software for SVM classification and regression.} + +proc ModulesHelp { } { + puts stderr {Name : libsvm} + puts stderr {Version: 323} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {Libsvm is a simple, easy-to-use, and efficient software for SVM} + puts stderr {classification and regression.} +} + +conflict libsvm + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/libsvm-323/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/libsvm-323/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/libsvm-323/.} +setenv LIBSVM_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libsvm-323-oznx45amyubgeu5bx76vs7wpnn5t5qfn} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libszip/2.1.1 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libszip/2.1.1 new file mode 100644 index 00000000..9108de52 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libszip/2.1.1 @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.463366 +## +## libszip@2.1.1%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-zen2/q5mymcy +## +## Configure options: --enable-production --enable-shared --enable-static --enable-encoding +## + + +module-whatis {Szip is an implementation of the extended-Rice lossless compression algorithm.} + +proc ModulesHelp { } { + puts stderr {Name : libszip} + puts stderr {Version: 2.1.1} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {Szip is an implementation of the extended-Rice lossless compression} + puts stderr {algorithm. It provides lossless compression of scientific data, and is} + puts stderr {provided with HDF software products.} +} + +conflict libszip + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/libszip-2.1.1/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/libszip-2.1.1/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/libszip-2.1.1/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/libszip-2.1.1/include} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/libszip-2.1.1/.} +setenv LIBSZIP_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libszip-2.1.1-q5mymcye6gf7g7ngtqp46w6dyuz7myba} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libtirpc/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libtirpc/.modulerc new file mode 100644 index 00000000..3c96bf5e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libtirpc/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libtirpc/1.3.3-7lnf4ii diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libtirpc/1.3.3-7lnf4ii b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libtirpc/1.3.3-7lnf4ii new file mode 100644 index 00000000..cfc54bee --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libtirpc/1.3.3-7lnf4ii @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.596943 +## +## libtirpc@1.3.3%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-zen2/7lnf4ii +## + + +module-whatis {Libtirpc is a port of Suns Transport-Independent RPC library to Linux.} + +proc ModulesHelp { } { + puts stderr {Name : libtirpc} + puts stderr {Version: 1.3.3} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {Libtirpc is a port of Suns Transport-Independent RPC library to Linux.} +} + +conflict libtirpc + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libtirpc-1.3.3-7lnf4ii4cwk5foksimgw2v3a2rc6wbkf/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libtirpc-1.3.3-7lnf4ii4cwk5foksimgw2v3a2rc6wbkf/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libtirpc-1.3.3-7lnf4ii4cwk5foksimgw2v3a2rc6wbkf/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libtirpc-1.3.3-7lnf4ii4cwk5foksimgw2v3a2rc6wbkf/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libtirpc-1.3.3-7lnf4ii4cwk5foksimgw2v3a2rc6wbkf/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libtirpc-1.3.3-7lnf4ii4cwk5foksimgw2v3a2rc6wbkf/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libtirpc-1.3.3-7lnf4ii4cwk5foksimgw2v3a2rc6wbkf/.} +setenv LIBTIRPC_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libtirpc-1.3.3-7lnf4ii4cwk5foksimgw2v3a2rc6wbkf} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libxc/6.1.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libxc/6.1.0 new file mode 100644 index 00000000..fa6be54c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libxc/6.1.0 @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.775066 +## +## libxc@6.1.0%gcc@13.2.0~cuda~kxc~lxc+shared build_system=autotools arch=linux-ubuntu22.04-zen2/tytadhe +## +## Configure options: --enable-shared --disable-cuda +## + + +module-whatis {Libxc is a library of exchange-correlation functionals for density-functional theory.} + +proc ModulesHelp { } { + puts stderr {Name : libxc} + puts stderr {Version: 6.1.0} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {Libxc is a library of exchange-correlation functionals for density-} + puts stderr {functional theory.} +} + +conflict libxc + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/libxc-6.1.0/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/libxc-6.1.0/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/libxc-6.1.0/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/libxc-6.1.0/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/libxc-6.1.0/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/libxc-6.1.0/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/libxc-6.1.0/.} +setenv LIBXC_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libxc-6.1.0-tytadhei32qrerjw7aot4hbzeqpkx2ax} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libxcrypt/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libxcrypt/.modulerc new file mode 100644 index 00000000..61c52ee1 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libxcrypt/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libxcrypt/4.4.35-jwhfr7o diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libxcrypt/4.4.35-jwhfr7o b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libxcrypt/4.4.35-jwhfr7o new file mode 100644 index 00000000..11185923 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libxcrypt/4.4.35-jwhfr7o @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.882528 +## +## libxcrypt@4.4.35%gcc@13.2.0~obsolete_api build_system=autotools patches=4885da3 arch=linux-ubuntu22.04-zen2/jwhfr7o +## +## Configure options: ac_cv_path_python3_passlib=not found --disable-werror --disable-obsolete-api +## + + +module-whatis {libxcrypt is a modern library for one-way hashing of passwords.} + +proc ModulesHelp { } { + puts stderr {Name : libxcrypt} + puts stderr {Version: 4.4.35} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {libxcrypt is a modern library for one-way hashing of passwords.} +} + +conflict libxcrypt + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libxcrypt-4.4.35-jwhfr7omicexhcvepxbe4osuka2kwrsv/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libxcrypt-4.4.35-jwhfr7omicexhcvepxbe4osuka2kwrsv/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libxcrypt-4.4.35-jwhfr7omicexhcvepxbe4osuka2kwrsv/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libxcrypt-4.4.35-jwhfr7omicexhcvepxbe4osuka2kwrsv/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libxcrypt-4.4.35-jwhfr7omicexhcvepxbe4osuka2kwrsv/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libxcrypt-4.4.35-jwhfr7omicexhcvepxbe4osuka2kwrsv/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libxcrypt-4.4.35-jwhfr7omicexhcvepxbe4osuka2kwrsv/.} +setenv LIBXCRYPT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libxcrypt-4.4.35-jwhfr7omicexhcvepxbe4osuka2kwrsv} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libxml2/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libxml2/.modulerc new file mode 100644 index 00000000..bbe41dae --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libxml2/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libxml2/2.13.4-tdjwblg diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libxml2/2.13.4-tdjwblg b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libxml2/2.13.4-tdjwblg new file mode 100644 index 00000000..257b139a --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/libxml2/2.13.4-tdjwblg @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:46.060301 +## +## libxml2@2.13.4%gcc@13.2.0+ftp+pic~python+shared build_system=autotools arch=linux-ubuntu22.04-zen2/tdjwblg +## + + +module-whatis {Libxml2 is the XML C parser and toolkit developed for the Gnome project (but usable outside of the Gnome platform), it is free software available under the MIT License.} + +proc ModulesHelp { } { + puts stderr {Name : libxml2} + puts stderr {Version: 2.13.4} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {Libxml2 is the XML C parser and toolkit developed for the Gnome project} + puts stderr {(but usable outside of the Gnome platform), it is free software} + puts stderr {available under the MIT License.} +} + +conflict libxml2 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libxml2-2.13.4-tdjwblgsgaump2r3zb2axeugegfew63w/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libxml2-2.13.4-tdjwblgsgaump2r3zb2axeugegfew63w/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libxml2-2.13.4-tdjwblgsgaump2r3zb2axeugegfew63w/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libxml2-2.13.4-tdjwblgsgaump2r3zb2axeugegfew63w/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libxml2-2.13.4-tdjwblgsgaump2r3zb2axeugegfew63w/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libxml2-2.13.4-tdjwblgsgaump2r3zb2axeugegfew63w/share/man} +prepend-path ACLOCAL_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libxml2-2.13.4-tdjwblgsgaump2r3zb2axeugegfew63w/share/aclocal} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libxml2-2.13.4-tdjwblgsgaump2r3zb2axeugegfew63w/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libxml2-2.13.4-tdjwblgsgaump2r3zb2axeugegfew63w/.} +setenv LIBXML2_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libxml2-2.13.4-tdjwblgsgaump2r3zb2axeugegfew63w} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/lz4/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/lz4/.modulerc new file mode 100644 index 00000000..e066e231 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/lz4/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded lz4/1.10.0-p7a6g42 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/lz4/1.10.0-p7a6g42 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/lz4/1.10.0-p7a6g42 new file mode 100644 index 00000000..d9612039 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/lz4/1.10.0-p7a6g42 @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:46.469100 +## +## lz4@1.10.0%gcc@13.2.0+pic build_system=makefile libs=shared,static arch=linux-ubuntu22.04-zen2/p7a6g42 +## + + +module-whatis {LZ4 is lossless compression algorithm, providing compression speed at 400 MB/s per core, scalable with multi-cores CPU. It also features an extremely fast decoder, with speed in multiple GB/s per core, typically reaching RAM speed limits on multi-core systems.} + +proc ModulesHelp { } { + puts stderr {Name : lz4} + puts stderr {Version: 1.10.0} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {LZ4 is lossless compression algorithm, providing compression speed at} + puts stderr {400 MB/s per core, scalable with multi-cores CPU. It also features an} + puts stderr {extremely fast decoder, with speed in multiple GB/s per core, typically} + puts stderr {reaching RAM speed limits on multi-core systems.} +} + +conflict lz4 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/lz4-1.10.0-p7a6g4276do5o4rubbncl7gazouil6kb/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/lz4-1.10.0-p7a6g4276do5o4rubbncl7gazouil6kb/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/lz4-1.10.0-p7a6g4276do5o4rubbncl7gazouil6kb/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/lz4-1.10.0-p7a6g4276do5o4rubbncl7gazouil6kb/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/lz4-1.10.0-p7a6g4276do5o4rubbncl7gazouil6kb/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/lz4-1.10.0-p7a6g4276do5o4rubbncl7gazouil6kb/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/lz4-1.10.0-p7a6g4276do5o4rubbncl7gazouil6kb/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/lz4-1.10.0-p7a6g4276do5o4rubbncl7gazouil6kb/.} +setenv LZ4_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/lz4-1.10.0-p7a6g4276do5o4rubbncl7gazouil6kb} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/mpfr/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/mpfr/.modulerc new file mode 100644 index 00000000..7179e3f3 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/mpfr/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded mpfr/4.2.1-bl7nnpd diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/mpfr/4.2.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/mpfr/4.2.0 new file mode 100644 index 00000000..4a6b59c3 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/mpfr/4.2.0 @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:47.253292 +## +## mpfr@4.2.0%gcc@13.2.0 build_system=autotools libs=shared,static arch=linux-ubuntu22.04-zen2/2bzv6m4 +## +## Configure options: --with-gmp=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/gmp-6.3.0-635affce77ism44dcc7ihs2yc7rszp2o --enable-shared --enable-static --with-pic +## + + +module-whatis {The MPFR library is a C library for multiple-precision floating-point computations with correct rounding.} + +proc ModulesHelp { } { + puts stderr {Name : mpfr} + puts stderr {Version: 4.2.0} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {The MPFR library is a C library for multiple-precision floating-point} + puts stderr {computations with correct rounding.} +} + +conflict mpfr + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/mpfr-4.2.0/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/mpfr-4.2.0/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/mpfr-4.2.0/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/mpfr-4.2.0/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/mpfr-4.2.0/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/mpfr-4.2.0/.} +setenv MPFR_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/mpfr-4.2.0-2bzv6m4azrneychvz5pnphk6pl2fnlwd} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/mpfr/4.2.1-bl7nnpd b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/mpfr/4.2.1-bl7nnpd new file mode 100644 index 00000000..bf773c6f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/mpfr/4.2.1-bl7nnpd @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:47.314375 +## +## mpfr@4.2.1%gcc@13.2.0 build_system=autotools libs=shared,static arch=linux-ubuntu22.04-zen2/bl7nnpd +## +## Configure options: --with-gmp=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/gmp-6.3.0-635affce77ism44dcc7ihs2yc7rszp2o --enable-shared --enable-static --with-pic +## + + +module-whatis {The MPFR library is a C library for multiple-precision floating-point computations with correct rounding.} + +proc ModulesHelp { } { + puts stderr {Name : mpfr} + puts stderr {Version: 4.2.1} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {The MPFR library is a C library for multiple-precision floating-point} + puts stderr {computations with correct rounding.} +} + +conflict mpfr + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/mpfr-4.2.1-bl7nnpd3ytpskzswo5auk7qs6oa7k3qx/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/mpfr-4.2.1-bl7nnpd3ytpskzswo5auk7qs6oa7k3qx/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/mpfr-4.2.1-bl7nnpd3ytpskzswo5auk7qs6oa7k3qx/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/mpfr-4.2.1-bl7nnpd3ytpskzswo5auk7qs6oa7k3qx/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/mpfr-4.2.1-bl7nnpd3ytpskzswo5auk7qs6oa7k3qx/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/mpfr-4.2.1-bl7nnpd3ytpskzswo5auk7qs6oa7k3qx/.} +setenv MPFR_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/mpfr-4.2.1-bl7nnpd3ytpskzswo5auk7qs6oa7k3qx} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/mpich/4.2.1 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/mpich/4.2.1 new file mode 100644 index 00000000..3e4a259e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/mpich/4.2.1 @@ -0,0 +1,76 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:47.376420 +## +## mpich@4.2.1%gcc@13.2.0~argobots+cuda+fortran~hcoll+hwloc+hydra+libxml2+pci~rocm+romio~slurm~vci~verbs+wrapperrpath~xpmem build_system=autotools cuda_arch=75,86 datatype-engine=auto device=ch4 netmod=ucx pmi=pmix arch=linux-ubuntu22.04-zen2/qptifc2 +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {MPICH is a high performance and widely portable implementation of the Message Passing Interface (MPI) standard.} + +proc ModulesHelp { } { + puts stderr {Name : mpich} + puts stderr {Version: 4.2.1} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {MPICH is a high performance and widely portable implementation of the} + puts stderr {Message Passing Interface (MPI) standard.} +} + +conflict mpich + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/mpich-4.2.1/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/mpich-4.2.1/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/mpich-4.2.1/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/mpich-4.2.1/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/mpich-4.2.1/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/mpich-4.2.1/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/mpich-4.2.1/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/mpich-4.2.1/.} +setenv MPICC {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/mpich-4.2.1/bin/mpicc} +setenv MPICXX {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/mpich-4.2.1/bin/mpic++} +setenv MPIF77 {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/mpich-4.2.1/bin/mpif77} +setenv MPIF90 {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/mpich-4.2.1/bin/mpif90} +setenv MPICH_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/mpich-4.2.1} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/ncurses/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/ncurses/.modulerc new file mode 100644 index 00000000..ea5b8a1f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/ncurses/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded ncurses/6.5-pzx2rkw diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/ncurses/6.5-pzx2rkw b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/ncurses/6.5-pzx2rkw new file mode 100644 index 00000000..7e1e05b9 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/ncurses/6.5-pzx2rkw @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:47.800869 +## +## ncurses@6.5%gcc@13.2.0~symlinks+termlib abi=none build_system=autotools patches=7a351bc arch=linux-ubuntu22.04-zen2/pzx2rkw +## + + +module-whatis {The ncurses (new curses) library is a free software emulation of curses in System V Release 4.0, and more. It uses terminfo format, supports pads and color and multiple highlights and forms characters and function-key mapping, and has all the other SYSV-curses enhancements over BSD curses.} + +proc ModulesHelp { } { + puts stderr {Name : ncurses} + puts stderr {Version: 6.5} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {The ncurses (new curses) library is a free software emulation of curses} + puts stderr {in System V Release 4.0, and more. It uses terminfo format, supports} + puts stderr {pads and color and multiple highlights and forms characters and} + puts stderr {function-key mapping, and has all the other SYSV-curses enhancements} + puts stderr {over BSD curses.} +} + +conflict ncurses + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/ncurses-6.5-pzx2rkweuhk5z7xzc7agkbti5t4humzu/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/ncurses-6.5-pzx2rkweuhk5z7xzc7agkbti5t4humzu/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/ncurses-6.5-pzx2rkweuhk5z7xzc7agkbti5t4humzu/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/ncurses-6.5-pzx2rkweuhk5z7xzc7agkbti5t4humzu/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/ncurses-6.5-pzx2rkweuhk5z7xzc7agkbti5t4humzu/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/ncurses-6.5-pzx2rkweuhk5z7xzc7agkbti5t4humzu/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/ncurses-6.5-pzx2rkweuhk5z7xzc7agkbti5t4humzu/.} +setenv NCURSES_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/ncurses-6.5-pzx2rkweuhk5z7xzc7agkbti5t4humzu} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/netcdf-c/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/netcdf-c/.modulerc new file mode 100644 index 00000000..e2ac23d5 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/netcdf-c/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded netcdf-c/4.9.2-i7ogwj7 +module-hide --soft --hidden-loaded netcdf-c/4.9.2-lerzdwc diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/netcdf-c/4.9.2 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/netcdf-c/4.9.2 new file mode 100644 index 00000000..88194509 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/netcdf-c/4.9.2 @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:47.950675 +## +## netcdf-c@4.9.2%gcc@13.2.0+blosc~byterange+dap+fsync~hdf4~jna~logging~mpi~nczarr_zip+optimize~parallel-netcdf+pic+shared+szip+zstd build_system=autotools patches=0161eb8 arch=linux-ubuntu22.04-zen2/b5uzo4r +## + + +module-whatis {NetCDF (network Common Data Form) is a set of software libraries and machine-independent data formats that support the creation, access, and sharing of array-oriented scientific data. This is the C distribution.} + +proc ModulesHelp { } { + puts stderr {Name : netcdf-c} + puts stderr {Version: 4.9.2} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {NetCDF (network Common Data Form) is a set of software libraries and} + puts stderr {machine-independent data formats that support the creation, access, and} + puts stderr {sharing of array-oriented scientific data. This is the C distribution.} +} + +conflict netcdf-c + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/netcdf-c-4.9.2/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/netcdf-c-4.9.2/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/netcdf-c-4.9.2/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/netcdf-c-4.9.2/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/netcdf-c-4.9.2/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/netcdf-c-4.9.2/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/netcdf-c-4.9.2/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/netcdf-c-4.9.2/.} +append-path HDF5_PLUGIN_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/netcdf-c-4.9.2/plugins} +setenv NETCDF_C_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/netcdf-c-4.9.2-b5uzo4r2utske63kirrj73ve5o5l2cta} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/netcdf-c/4.9.2-i7ogwj7 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/netcdf-c/4.9.2-i7ogwj7 new file mode 100644 index 00000000..47b8e7be --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/netcdf-c/4.9.2-i7ogwj7 @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:47.862843 +## +## netcdf-c@4.9.2%gcc@13.2.0+blosc~byterange~dap~fsync~hdf4~jna~logging~mpi~nczarr_zip+optimize~parallel-netcdf+pic+shared+szip+zstd build_system=autotools patches=0161eb8 arch=linux-ubuntu22.04-zen2/i7ogwj7 +## + + +module-whatis {NetCDF (network Common Data Form) is a set of software libraries and machine-independent data formats that support the creation, access, and sharing of array-oriented scientific data. This is the C distribution.} + +proc ModulesHelp { } { + puts stderr {Name : netcdf-c} + puts stderr {Version: 4.9.2} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {NetCDF (network Common Data Form) is a set of software libraries and} + puts stderr {machine-independent data formats that support the creation, access, and} + puts stderr {sharing of array-oriented scientific data. This is the C distribution.} +} + +conflict netcdf-c + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/netcdf-c-4.9.2-i7ogwj7c4kizdnyb6emcsy3bgtuq6kwn/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/netcdf-c-4.9.2-i7ogwj7c4kizdnyb6emcsy3bgtuq6kwn/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/netcdf-c-4.9.2-i7ogwj7c4kizdnyb6emcsy3bgtuq6kwn/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/netcdf-c-4.9.2-i7ogwj7c4kizdnyb6emcsy3bgtuq6kwn/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/netcdf-c-4.9.2-i7ogwj7c4kizdnyb6emcsy3bgtuq6kwn/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/netcdf-c-4.9.2-i7ogwj7c4kizdnyb6emcsy3bgtuq6kwn/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/netcdf-c-4.9.2-i7ogwj7c4kizdnyb6emcsy3bgtuq6kwn/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/netcdf-c-4.9.2-i7ogwj7c4kizdnyb6emcsy3bgtuq6kwn/.} +append-path HDF5_PLUGIN_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/netcdf-c-4.9.2-i7ogwj7c4kizdnyb6emcsy3bgtuq6kwn/plugins} +setenv NETCDF_C_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/netcdf-c-4.9.2-i7ogwj7c4kizdnyb6emcsy3bgtuq6kwn} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/netcdf-c/4.9.2-lerzdwc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/netcdf-c/4.9.2-lerzdwc new file mode 100644 index 00000000..4dfade6d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/netcdf-c/4.9.2-lerzdwc @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:48.056569 +## +## netcdf-c@4.9.2%gcc@13.2.0+blosc~byterange~dap~fsync~hdf4~ipo~jna~logging~mpi~nczarr_zip+optimize~parallel-netcdf+pic+shared+szip+zstd build_system=cmake build_type=Release generator=make patches=0161eb8,3b09181 arch=linux-ubuntu22.04-zen2/lerzdwc +## + + +module-whatis {NetCDF (network Common Data Form) is a set of software libraries and machine-independent data formats that support the creation, access, and sharing of array-oriented scientific data. This is the C distribution.} + +proc ModulesHelp { } { + puts stderr {Name : netcdf-c} + puts stderr {Version: 4.9.2} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {NetCDF (network Common Data Form) is a set of software libraries and} + puts stderr {machine-independent data formats that support the creation, access, and} + puts stderr {sharing of array-oriented scientific data. This is the C distribution.} +} + +conflict netcdf-c + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/netcdf-c-4.9.2-lerzdwct5ggpxo3s4ehwiv4txyjl75cq/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/netcdf-c-4.9.2-lerzdwct5ggpxo3s4ehwiv4txyjl75cq/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/netcdf-c-4.9.2-lerzdwct5ggpxo3s4ehwiv4txyjl75cq/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/netcdf-c-4.9.2-lerzdwct5ggpxo3s4ehwiv4txyjl75cq/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/netcdf-c-4.9.2-lerzdwct5ggpxo3s4ehwiv4txyjl75cq/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/netcdf-c-4.9.2-lerzdwct5ggpxo3s4ehwiv4txyjl75cq/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/netcdf-c-4.9.2-lerzdwct5ggpxo3s4ehwiv4txyjl75cq/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/netcdf-c-4.9.2-lerzdwct5ggpxo3s4ehwiv4txyjl75cq/.} +append-path HDF5_PLUGIN_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/netcdf-c-4.9.2-lerzdwct5ggpxo3s4ehwiv4txyjl75cq/plugins} +setenv NETCDF_C_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/netcdf-c-4.9.2-lerzdwct5ggpxo3s4ehwiv4txyjl75cq} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/netcdf-cxx4/4.3.1 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/netcdf-cxx4/4.3.1 new file mode 100644 index 00000000..49f48683 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/netcdf-cxx4/4.3.1 @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:48.143321 +## +## netcdf-cxx4@4.3.1%gcc@13.2.0~doc~ipo+pic+shared~tests build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-zen2/je5rdwx +## +## Configure options: -DBUILD_SHARED_LIBS:BOOL=ON -DENABLE_DOXYGEN:BOOL=OFF -DNCXX_ENABLE_TESTS:BOOL=OFF +## + + +module-whatis {NetCDF (network Common Data Form) is a set of software libraries and machine-independent data formats that support the creation, access, and sharing of array-oriented scientific data. This is the C++ distribution.} + +proc ModulesHelp { } { + puts stderr {Name : netcdf-cxx4} + puts stderr {Version: 4.3.1} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {NetCDF (network Common Data Form) is a set of software libraries and} + puts stderr {machine-independent data formats that support the creation, access, and} + puts stderr {sharing of array-oriented scientific data. This is the C++ distribution.} +} + +conflict netcdf-cxx4 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/netcdf-cxx4-4.3.1/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/netcdf-cxx4-4.3.1/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/netcdf-cxx4-4.3.1/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/netcdf-cxx4-4.3.1/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/netcdf-cxx4-4.3.1/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/netcdf-cxx4-4.3.1/.} +setenv NETCDF_CXX4_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/netcdf-cxx4-4.3.1-je5rdwxqowxz5gwsovylu45got2s6heo} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/netcdf-fortran/4.6.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/netcdf-fortran/4.6.0 new file mode 100644 index 00000000..5ed2d0d6 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/netcdf-fortran/4.6.0 @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:48.258289 +## +## netcdf-fortran@4.6.0%gcc@13.2.0~doc+pic+shared build_system=autotools arch=linux-ubuntu22.04-zen2/4mvhp3q +## +## Configure options: --enable-static --enable-shared --disable-doxygen +## + + +module-whatis {NetCDF (network Common Data Form) is a set of software libraries and machine-independent data formats that support the creation, access, and sharing of array-oriented scientific data. This is the Fortran distribution.} + +proc ModulesHelp { } { + puts stderr {Name : netcdf-fortran} + puts stderr {Version: 4.6.0} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {NetCDF (network Common Data Form) is a set of software libraries and} + puts stderr {machine-independent data formats that support the creation, access, and} + puts stderr {sharing of array-oriented scientific data. This is the Fortran} + puts stderr {distribution.} +} + +conflict netcdf-fortran + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/netcdf-fortran-4.6.0/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/netcdf-fortran-4.6.0/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/netcdf-fortran-4.6.0/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/netcdf-fortran-4.6.0/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/netcdf-fortran-4.6.0/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/netcdf-fortran-4.6.0/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/netcdf-fortran-4.6.0/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/netcdf-fortran-4.6.0/.} +setenv NETCDF_FORTRAN_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/netcdf-fortran-4.6.0-4mvhp3qzpcxh3z4p55uvbhdqbrx64aaw} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/netlib-lapack/3.11.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/netlib-lapack/3.11.0 new file mode 100644 index 00000000..dbd455a4 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/netlib-lapack/3.11.0 @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:48.359874 +## +## netlib-lapack@3.11.0%gcc@13.2.0~external-blas~ipo+lapacke+pic+shared~xblas build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-zen2/ofopjgv +## + + +module-whatis {LAPACK version 3.X is a comprehensive FORTRAN library that does linear algebra operations including matrix inversions, least squared solutions to linear sets of equations, eigenvector analysis, singular value decomposition, etc. It is a very comprehensive and reputable package that has found extensive use in the scientific community.} + +proc ModulesHelp { } { + puts stderr {Name : netlib-lapack} + puts stderr {Version: 3.11.0} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {LAPACK version 3.X is a comprehensive FORTRAN library that does linear} + puts stderr {algebra operations including matrix inversions, least squared solutions} + puts stderr {to linear sets of equations, eigenvector analysis, singular value} + puts stderr {decomposition, etc. It is a very comprehensive and reputable package} + puts stderr {that has found extensive use in the scientific community.} +} + +conflict netlib-lapack + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/netlib-lapack-3.11.0/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/netlib-lapack-3.11.0/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/netlib-lapack-3.11.0/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/netlib-lapack-3.11.0/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/netlib-lapack-3.11.0/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/netlib-lapack-3.11.0/.} +setenv NETLIB_LAPACK_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/netlib-lapack-3.11.0-ofopjgvxrrbfeulsgtofltij7wbibk7m} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/netlib-xblas/1.0.248 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/netlib-xblas/1.0.248 new file mode 100644 index 00000000..4fde9346 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/netlib-xblas/1.0.248 @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:48.427440 +## +## netlib-xblas@1.0.248%gcc@13.2.0+fortran+plain_blas build_system=autotools arch=linux-ubuntu22.04-zen2/tsozgb6 +## + + +module-whatis {XBLAS is a reference implementation for extra precision BLAS.} + +proc ModulesHelp { } { + puts stderr {Name : netlib-xblas} + puts stderr {Version: 1.0.248} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {XBLAS is a reference implementation for extra precision BLAS. XBLAS is a} + puts stderr {reference implementation for the dense and banded BLAS routines, along} + puts stderr {with extended and mixed precision version. Extended precision is only} + puts stderr {used internally; input and output arguments remain the same as in the} + puts stderr {existing BLAS. Extra precisions is implemented as double-double (i.e.,} + puts stderr {128-bit total, 106-bit significand). Mixed precision permits some} + puts stderr {input/output arguments of different types (mixing real and complex) or} + puts stderr {precisions (mixing single and double). This implementation is proof of} + puts stderr {concept, and no attempt was made to optimize performance; performance} + puts stderr {should be as good as straightforward but careful code written by hand.} +} + +conflict netlib-xblas + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/netlib-xblas-1.0.248/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/netlib-xblas-1.0.248/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/netlib-xblas-1.0.248/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/netlib-xblas-1.0.248/include} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/netlib-xblas-1.0.248/.} +setenv NETLIB_XBLAS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/netlib-xblas-1.0.248-tsozgb6agd7el72unqj62lfx3spagp2k} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/nghttp2/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/nghttp2/.modulerc new file mode 100644 index 00000000..123b54ff --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/nghttp2/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded nghttp2/1.63.0-7dw4mcs diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/nghttp2/1.63.0-7dw4mcs b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/nghttp2/1.63.0-7dw4mcs new file mode 100644 index 00000000..5f8c380f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/nghttp2/1.63.0-7dw4mcs @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:48.524795 +## +## nghttp2@1.63.0%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-zen2/7dw4mcs +## +## Configure options: --enable-lib-only --with-libxml2=no --with-jansson=no --with-zlib=no --with-libevent-openssl=no --with-libcares=no --with-openssl=no --with-libev=no --with-cunit=no --with-jemalloc=no --with-systemd=no --with-mruby=no --with-neverbleed=no --with-boost=no --with-wolfssl=no +## + + +module-whatis {nghttp2 is an implementation of HTTP/2 and its header compression algorithm HPACK in C.} + +proc ModulesHelp { } { + puts stderr {Name : nghttp2} + puts stderr {Version: 1.63.0} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {nghttp2 is an implementation of HTTP/2 and its header compression} + puts stderr {algorithm HPACK in C.} +} + +conflict nghttp2 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/nghttp2-1.63.0-7dw4mcsjc3lhesj6rpef4uqyxw77lnev/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/nghttp2-1.63.0-7dw4mcsjc3lhesj6rpef4uqyxw77lnev/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/nghttp2-1.63.0-7dw4mcsjc3lhesj6rpef4uqyxw77lnev/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/nghttp2-1.63.0-7dw4mcsjc3lhesj6rpef4uqyxw77lnev/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/nghttp2-1.63.0-7dw4mcsjc3lhesj6rpef4uqyxw77lnev/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/nghttp2-1.63.0-7dw4mcsjc3lhesj6rpef4uqyxw77lnev/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/nghttp2-1.63.0-7dw4mcsjc3lhesj6rpef4uqyxw77lnev/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/nghttp2-1.63.0-7dw4mcsjc3lhesj6rpef4uqyxw77lnev/.} +setenv NGHTTP2_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/nghttp2-1.63.0-7dw4mcsjc3lhesj6rpef4uqyxw77lnev} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/nlohmann-json/3.11.2 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/nlohmann-json/3.11.2 new file mode 100644 index 00000000..a0999a48 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/nlohmann-json/3.11.2 @@ -0,0 +1,67 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:48.643203 +## +## nlohmann-json@3.11.2%gcc@13.2.0~ipo+multiple_headers build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-zen2/v2au3lx +## +## Configure options: -DJSON_MultipleHeaders:BOOL=ON -DJSON_BuildTests:BOOL=OFF +## + + +module-whatis {JSON for Modern C++} + +proc ModulesHelp { } { + puts stderr {Name : nlohmann-json} + puts stderr {Version: 3.11.2} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {JSON for Modern C++} +} + +conflict nlohmann-json + +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/nlohmann-json-3.11.2/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/nlohmann-json-3.11.2/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/nlohmann-json-3.11.2/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/nlohmann-json-3.11.2/share/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/nlohmann-json-3.11.2/.} +setenv NLOHMANN_JSON_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/nlohmann-json-3.11.2-v2au3lxuuvxftf6v4z3genizben37lcp} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/nlopt/2.7.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/nlopt/2.7.0 new file mode 100644 index 00000000..cb703a5f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/nlopt/2.7.0 @@ -0,0 +1,83 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:48.957027 +## +## nlopt@2.7.0%gcc@13.2.0~cxx~guile~ipo~matlab~octave+python+shared build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-zen2/zxxb3tg +## +## Configure options: -DNLOPT_OCTAVE:Bool=OFF +## + + +module-whatis {NLopt is a free/open-source library for nonlinear optimization, providing a common interface for a number of different free optimization routines available online as well as original implementations of various other algorithms.} + +proc ModulesHelp { } { + puts stderr {Name : nlopt} + puts stderr {Version: 2.7.0} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {NLopt is a free/open-source library for nonlinear optimization,} + puts stderr {providing a common interface for a number of different free optimization} + puts stderr {routines available online as well as original implementations of various} + puts stderr {other algorithms.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-numpy/2.1.2-eiwpwrp + module load python/3.11.9-xw5rl6p + module load python-venv/1.0-vst37zv +} else { + depends-on py-numpy/2.1.2-eiwpwrp + depends-on python/3.11.9-xw5rl6p + depends-on python-venv/1.0-vst37zv +} +conflict nlopt + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/python-3.11.9/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/python-3.11.9/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/python-3.11.9/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/python-3.11.9/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/python-3.11.9/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/python-3.11.9/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/python-3.11.9/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/python-3.11.9/lib/python3.11/site-packages} +setenv NLOPT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/nlopt-2.7.0-zxxb3tgmj6bjmmpzfaxsrpw33yoxrbly} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/ntirpc/3.2 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/ntirpc/3.2 new file mode 100644 index 00000000..1cfd3b45 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/ntirpc/3.2 @@ -0,0 +1,66 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:50.306714 +## +## ntirpc@3.2%gcc@13.2.0~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-zen2/ol7im3d +## + + +module-whatis {New development on tirpc} + +proc ModulesHelp { } { + puts stderr {Name : ntirpc} + puts stderr {Version: 3.2} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {New development on tirpc} +} + +conflict ntirpc + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/ntirpc-3.2/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/ntirpc-3.2/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/ntirpc-3.2/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/ntirpc-3.2/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/ntirpc-3.2/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/ntirpc-3.2/.} +setenv NTIRPC_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/ntirpc-3.2-ol7im3d5y5b2uwttk3atznwkuikuvcin} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/openblas/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/openblas/.modulerc new file mode 100644 index 00000000..e3d69063 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/openblas/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded openblas/0.3.28-hijclwo diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/openblas/0.3.23 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/openblas/0.3.23 new file mode 100644 index 00000000..6fd706f3 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/openblas/0.3.23 @@ -0,0 +1,67 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:50.632261 +## +## openblas@0.3.23%gcc@13.2.0~bignuma~consistent_fpcsr+dynamic_dispatch+fortran~ilp64+locking+pic+shared build_system=makefile symbol_suffix=none threads=none arch=linux-ubuntu22.04-zen2/4wy2lwr +## + + +module-whatis {OpenBLAS: An optimized BLAS library} + +proc ModulesHelp { } { + puts stderr {Name : openblas} + puts stderr {Version: 0.3.23} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {OpenBLAS: An optimized BLAS library} +} + +conflict openblas + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/openblas-0.3.23/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/openblas-0.3.23/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/openblas-0.3.23/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/openblas-0.3.23/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/openblas-0.3.23/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/openblas-0.3.23/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/openblas-0.3.23/.} +setenv OPENBLAS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/openblas-0.3.23-4wy2lwreyl5tkiuzeuuzop6lnfkaf25g} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/openblas/0.3.28-hijclwo b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/openblas/0.3.28-hijclwo new file mode 100644 index 00000000..a539537d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/openblas/0.3.28-hijclwo @@ -0,0 +1,67 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:50.692369 +## +## openblas@0.3.28%gcc@13.2.0~bignuma~consistent_fpcsr+dynamic_dispatch+fortran~ilp64+locking+pic+shared build_system=makefile patches=d0b9276 symbol_suffix=none threads=none arch=linux-ubuntu22.04-zen2/hijclwo +## + + +module-whatis {OpenBLAS: An optimized BLAS library} + +proc ModulesHelp { } { + puts stderr {Name : openblas} + puts stderr {Version: 0.3.28} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {OpenBLAS: An optimized BLAS library} +} + +conflict openblas + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/openblas-0.3.28-hijclwob3fzge7dvadb5omtcpl2jv4q5/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/openblas-0.3.28-hijclwob3fzge7dvadb5omtcpl2jv4q5/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/openblas-0.3.28-hijclwob3fzge7dvadb5omtcpl2jv4q5/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/openblas-0.3.28-hijclwob3fzge7dvadb5omtcpl2jv4q5/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/openblas-0.3.28-hijclwob3fzge7dvadb5omtcpl2jv4q5/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/openblas-0.3.28-hijclwob3fzge7dvadb5omtcpl2jv4q5/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/openblas-0.3.28-hijclwob3fzge7dvadb5omtcpl2jv4q5/.} +setenv OPENBLAS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/openblas-0.3.28-hijclwob3fzge7dvadb5omtcpl2jv4q5} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/openmpi/4.1.5 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/openmpi/4.1.5 new file mode 100644 index 00000000..7d433ee6 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/openmpi/4.1.5 @@ -0,0 +1,83 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 16:00:08.985579 +## +## openmpi@4.1.5%gcc@13.2.0+atomics+cuda~cxx~cxx_exceptions~debug~gpfs~internal-hwloc~internal-libevent~internal-pmix~java+legacylaunchers~lustre~memchecker~openshmem~orterunprefix~pmi+romio+rsh~singularity~static~two_level_namespace+vt+wrapper-rpath build_system=autotools cuda_arch=75,86 fabrics=ucx romio-filesystem=none schedulers=slurm arch=linux-ubuntu22.04-zen2/qex5s3c +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {An open source Message Passing Interface implementation.} + +proc ModulesHelp { } { + puts stderr {Name : openmpi} + puts stderr {Version: 4.1.5} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {An open source Message Passing Interface implementation. The Open MPI} + puts stderr {Project is an open source Message Passing Interface implementation that} + puts stderr {is developed and maintained by a consortium of academic, research, and} + puts stderr {industry partners. Open MPI is therefore able to combine the expertise,} + puts stderr {technologies, and resources from all across the High Performance} + puts stderr {Computing community in order to build the best MPI library available.} + puts stderr {Open MPI offers advantages for system and software vendors, application} + puts stderr {developers and computer science researchers.} +} + +conflict openmpi + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openmpi-4.1.5/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openmpi-4.1.5/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openmpi-4.1.5/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openmpi-4.1.5/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openmpi-4.1.5/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openmpi-4.1.5/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openmpi-4.1.5/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openmpi-4.1.5/.} +setenv MPICC {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openmpi-4.1.5/bin/mpicc} +setenv MPICXX {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openmpi-4.1.5/bin/mpic++} +setenv MPIF77 {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openmpi-4.1.5/bin/mpif77} +setenv MPIF90 {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openmpi-4.1.5/bin/mpif90} +setenv MPIFC {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openmpi-4.1.5/bin/mpifort} +setenv OPENMPI_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openmpi-4.1.5} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/openmpi/4.1.7 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/openmpi/4.1.7 new file mode 100644 index 00000000..49e63970 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/openmpi/4.1.7 @@ -0,0 +1,83 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:51.134255 +## +## openmpi@4.1.7%gcc@13.2.0+atomics+cuda~cxx~cxx_exceptions~debug~gpfs~internal-hwloc~internal-libevent~internal-pmix~java+legacylaunchers~lustre~memchecker~openshmem~orterunprefix~pmi+romio+rsh~singularity~static~two_level_namespace+vt+wrapper-rpath build_system=autotools cuda_arch=75,86 fabrics=ucx romio-filesystem=none schedulers=slurm arch=linux-ubuntu22.04-zen2/cc3cqrs +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {An open source Message Passing Interface implementation.} + +proc ModulesHelp { } { + puts stderr {Name : openmpi} + puts stderr {Version: 4.1.7} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {An open source Message Passing Interface implementation. The Open MPI} + puts stderr {Project is an open source Message Passing Interface implementation that} + puts stderr {is developed and maintained by a consortium of academic, research, and} + puts stderr {industry partners. Open MPI is therefore able to combine the expertise,} + puts stderr {technologies, and resources from all across the High Performance} + puts stderr {Computing community in order to build the best MPI library available.} + puts stderr {Open MPI offers advantages for system and software vendors, application} + puts stderr {developers and computer science researchers.} +} + +conflict openmpi + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openmpi-4.1.7/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openmpi-4.1.7/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openmpi-4.1.7/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openmpi-4.1.7/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openmpi-4.1.7/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openmpi-4.1.7/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openmpi-4.1.7/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openmpi-4.1.7/.} +setenv MPICC {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openmpi-4.1.7/bin/mpicc} +setenv MPICXX {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openmpi-4.1.7/bin/mpic++} +setenv MPIF77 {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openmpi-4.1.7/bin/mpif77} +setenv MPIF90 {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openmpi-4.1.7/bin/mpif90} +setenv MPIFC {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openmpi-4.1.7/bin/mpifort} +setenv OPENMPI_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openmpi-4.1.7} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/openmpi/5.0.5 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/openmpi/5.0.5 new file mode 100644 index 00000000..0a331e8c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/openmpi/5.0.5 @@ -0,0 +1,83 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:51.192033 +## +## openmpi@5.0.5%gcc@13.2.0+atomics+cuda~debug~gpfs~internal-hwloc~internal-libevent~internal-pmix~java~lustre~memchecker~openshmem~romio+rsh~static~two_level_namespace+vt+wrapper-rpath build_system=autotools cuda_arch=75,86 fabrics=ucx romio-filesystem=nfs,quobytefs schedulers=slurm arch=linux-ubuntu22.04-zen2/x3n7auk +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {An open source Message Passing Interface implementation.} + +proc ModulesHelp { } { + puts stderr {Name : openmpi} + puts stderr {Version: 5.0.5} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {An open source Message Passing Interface implementation. The Open MPI} + puts stderr {Project is an open source Message Passing Interface implementation that} + puts stderr {is developed and maintained by a consortium of academic, research, and} + puts stderr {industry partners. Open MPI is therefore able to combine the expertise,} + puts stderr {technologies, and resources from all across the High Performance} + puts stderr {Computing community in order to build the best MPI library available.} + puts stderr {Open MPI offers advantages for system and software vendors, application} + puts stderr {developers and computer science researchers.} +} + +conflict openmpi + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openmpi-5.0.5/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openmpi-5.0.5/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openmpi-5.0.5/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openmpi-5.0.5/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openmpi-5.0.5/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openmpi-5.0.5/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openmpi-5.0.5/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openmpi-5.0.5/.} +setenv MPICC {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openmpi-5.0.5/bin/mpicc} +setenv MPICXX {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openmpi-5.0.5/bin/mpic++} +setenv MPIF77 {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openmpi-5.0.5/bin/mpif77} +setenv MPIF90 {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openmpi-5.0.5/bin/mpif90} +setenv MPIFC {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openmpi-5.0.5/bin/mpifort} +setenv OPENMPI_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openmpi-5.0.5} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/openssl/1.0.2u b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/openssl/1.0.2u new file mode 100644 index 00000000..24c5c257 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/openssl/1.0.2u @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:51.263141 +## +## openssl@1.0.2u%gcc@13.2.0~docs+shared build_system=generic certs=mozilla arch=linux-ubuntu22.04-zen2/kz4yuqy +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {OpenSSL is an open source project that provides a robust, commercial-grade, and full-featured toolkit for the Transport Layer Security (TLS) and Secure Sockets Layer (SSL) protocols. It is also a general-purpose cryptography library.} + +proc ModulesHelp { } { + puts stderr {Name : openssl} + puts stderr {Version: 1.0.2u} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {OpenSSL is an open source project that provides a robust, commercial-} + puts stderr {grade, and full-featured toolkit for the Transport Layer Security (TLS)} + puts stderr {and Secure Sockets Layer (SSL) protocols. It is also a general-purpose} + puts stderr {cryptography library.} +} + +conflict openssl + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-1.0.2u/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-1.0.2u/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-1.0.2u/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-1.0.2u/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-1.0.2u/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-1.0.2u/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-1.0.2u/.} +setenv OPENSSL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-1.0.2u} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/openssl/1.1.1w b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/openssl/1.1.1w new file mode 100644 index 00000000..81bd8dc3 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/openssl/1.1.1w @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:51.306343 +## +## openssl@1.1.1w%gcc@13.2.0~docs+shared build_system=generic certs=mozilla arch=linux-ubuntu22.04-zen2/75jlmix +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {OpenSSL is an open source project that provides a robust, commercial-grade, and full-featured toolkit for the Transport Layer Security (TLS) and Secure Sockets Layer (SSL) protocols. It is also a general-purpose cryptography library.} + +proc ModulesHelp { } { + puts stderr {Name : openssl} + puts stderr {Version: 1.1.1w} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {OpenSSL is an open source project that provides a robust, commercial-} + puts stderr {grade, and full-featured toolkit for the Transport Layer Security (TLS)} + puts stderr {and Secure Sockets Layer (SSL) protocols. It is also a general-purpose} + puts stderr {cryptography library.} +} + +conflict openssl + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-1.1.1w/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-1.1.1w/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-1.1.1w/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-1.1.1w/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-1.1.1w/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-1.1.1w/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-1.1.1w/.} +setenv OPENSSL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-1.1.1w} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/openssl/3.0.15 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/openssl/3.0.15 new file mode 100644 index 00000000..5f5ca786 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/openssl/3.0.15 @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:51.363035 +## +## openssl@3.0.15%gcc@13.2.0~docs+shared build_system=generic certs=mozilla arch=linux-ubuntu22.04-zen2/dpqzxo4 +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {OpenSSL is an open source project that provides a robust, commercial-grade, and full-featured toolkit for the Transport Layer Security (TLS) and Secure Sockets Layer (SSL) protocols. It is also a general-purpose cryptography library.} + +proc ModulesHelp { } { + puts stderr {Name : openssl} + puts stderr {Version: 3.0.15} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {OpenSSL is an open source project that provides a robust, commercial-} + puts stderr {grade, and full-featured toolkit for the Transport Layer Security (TLS)} + puts stderr {and Secure Sockets Layer (SSL) protocols. It is also a general-purpose} + puts stderr {cryptography library.} +} + +conflict openssl + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-3.0.15/lib64} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-3.0.15/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-3.0.15/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-3.0.15/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-3.0.15/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-3.0.15/lib64/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-3.0.15/.} +setenv OPENSSL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-3.0.15} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/openssl/3.1.7 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/openssl/3.1.7 new file mode 100644 index 00000000..e7d3502d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/openssl/3.1.7 @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:51.419837 +## +## openssl@3.1.7%gcc@13.2.0~docs+shared build_system=generic certs=mozilla arch=linux-ubuntu22.04-zen2/k2u7sb5 +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {OpenSSL is an open source project that provides a robust, commercial-grade, and full-featured toolkit for the Transport Layer Security (TLS) and Secure Sockets Layer (SSL) protocols. It is also a general-purpose cryptography library.} + +proc ModulesHelp { } { + puts stderr {Name : openssl} + puts stderr {Version: 3.1.7} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {OpenSSL is an open source project that provides a robust, commercial-} + puts stderr {grade, and full-featured toolkit for the Transport Layer Security (TLS)} + puts stderr {and Secure Sockets Layer (SSL) protocols. It is also a general-purpose} + puts stderr {cryptography library.} +} + +conflict openssl + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-3.1.7/lib64} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-3.1.7/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-3.1.7/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-3.1.7/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-3.1.7/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-3.1.7/lib64/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-3.1.7/.} +setenv OPENSSL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-3.1.7} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/openssl/3.2.3 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/openssl/3.2.3 new file mode 100644 index 00000000..b22c2fed --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/openssl/3.2.3 @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:51.464065 +## +## openssl@3.2.3%gcc@13.2.0~docs+shared build_system=generic certs=mozilla arch=linux-ubuntu22.04-zen2/lqxggnd +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {OpenSSL is an open source project that provides a robust, commercial-grade, and full-featured toolkit for the Transport Layer Security (TLS) and Secure Sockets Layer (SSL) protocols. It is also a general-purpose cryptography library.} + +proc ModulesHelp { } { + puts stderr {Name : openssl} + puts stderr {Version: 3.2.3} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {OpenSSL is an open source project that provides a robust, commercial-} + puts stderr {grade, and full-featured toolkit for the Transport Layer Security (TLS)} + puts stderr {and Secure Sockets Layer (SSL) protocols. It is also a general-purpose} + puts stderr {cryptography library.} +} + +conflict openssl + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-3.2.3/lib64} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-3.2.3/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-3.2.3/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-3.2.3/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-3.2.3/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-3.2.3/lib64/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-3.2.3/.} +setenv OPENSSL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-3.2.3} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/openssl/3.4.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/openssl/3.4.0 new file mode 100644 index 00000000..5d9875d5 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/openssl/3.4.0 @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:51.521024 +## +## openssl@3.4.0%gcc@13.2.0~docs+shared build_system=generic certs=mozilla arch=linux-ubuntu22.04-zen2/jxlyth4 +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {OpenSSL is an open source project that provides a robust, commercial-grade, and full-featured toolkit for the Transport Layer Security (TLS) and Secure Sockets Layer (SSL) protocols. It is also a general-purpose cryptography library.} + +proc ModulesHelp { } { + puts stderr {Name : openssl} + puts stderr {Version: 3.4.0} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {OpenSSL is an open source project that provides a robust, commercial-} + puts stderr {grade, and full-featured toolkit for the Transport Layer Security (TLS)} + puts stderr {and Secure Sockets Layer (SSL) protocols. It is also a general-purpose} + puts stderr {cryptography library.} +} + +conflict openssl + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-3.4.0/lib64} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-3.4.0/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-3.4.0/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-3.4.0/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-3.4.0/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-3.4.0/lib64/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-3.4.0/.} +setenv OPENSSL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-3.4.0} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/pcre2/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/pcre2/.modulerc new file mode 100644 index 00000000..0c8c53c5 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/pcre2/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded pcre2/10.44-rpp6rd5 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/pcre2/10.44-rpp6rd5 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/pcre2/10.44-rpp6rd5 new file mode 100644 index 00000000..fbd9ac0d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/pcre2/10.44-rpp6rd5 @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:52.472904 +## +## pcre2@10.44%gcc@13.2.0~jit+multibyte build_system=autotools arch=linux-ubuntu22.04-zen2/rpp6rd5 +## + + +module-whatis {The PCRE2 package contains Perl Compatible Regular Expression libraries. These are useful for implementing regular expression pattern matching using the same syntax and semantics as Perl 5.} + +proc ModulesHelp { } { + puts stderr {Name : pcre2} + puts stderr {Version: 10.44} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {The PCRE2 package contains Perl Compatible Regular Expression libraries.} + puts stderr {These are useful for implementing regular expression pattern matching} + puts stderr {using the same syntax and semantics as Perl 5.} +} + +conflict pcre2 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/pcre2-10.44-rpp6rd5xswaahdmtubkm6hhdipujom2u/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/pcre2-10.44-rpp6rd5xswaahdmtubkm6hhdipujom2u/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/pcre2-10.44-rpp6rd5xswaahdmtubkm6hhdipujom2u/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/pcre2-10.44-rpp6rd5xswaahdmtubkm6hhdipujom2u/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/pcre2-10.44-rpp6rd5xswaahdmtubkm6hhdipujom2u/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/pcre2-10.44-rpp6rd5xswaahdmtubkm6hhdipujom2u/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/pcre2-10.44-rpp6rd5xswaahdmtubkm6hhdipujom2u/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/pcre2-10.44-rpp6rd5xswaahdmtubkm6hhdipujom2u/.} +setenv PCRE2_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/pcre2-10.44-rpp6rd5xswaahdmtubkm6hhdipujom2u} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/perl/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/perl/.modulerc new file mode 100644 index 00000000..910c40d7 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/perl/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl/5.40.0-cr2hpfl diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/perl/5.40.0-cr2hpfl b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/perl/5.40.0-cr2hpfl new file mode 100644 index 00000000..2e8609f4 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/perl/5.40.0-cr2hpfl @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:52.524745 +## +## perl@5.40.0%gcc@13.2.0+cpanm+opcode+open+shared+threads build_system=generic arch=linux-ubuntu22.04-zen2/cr2hpfl +## +## Configure options: -des -Dprefix=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/perl-5.40.0-cr2hpfl5woh66xjyxbyvxa2neyu5ypwp -Dlocincpth=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/gdbm-1.23-dmhfxva5qt3fivb6mpyz3gpdfxci76xh/include -Dloclibpth=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/gdbm-1.23-dmhfxva5qt3fivb6mpyz3gpdfxci76xh/lib -Accflags=-DAPPLLIB_EXP=\"/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/perl-5.40.0-cr2hpfl5woh66xjyxbyvxa2neyu5ypwp/lib/perl5\" -Duseshrplib -Dusethreads +## + + +module-whatis {Perl 5 is a highly capable, feature-rich programming language with over 27 years of development.} + +proc ModulesHelp { } { + puts stderr {Name : perl} + puts stderr {Version: 5.40.0} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {Perl 5 is a highly capable, feature-rich programming language with over} + puts stderr {27 years of development.} +} + +conflict perl + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/perl-5.40.0-cr2hpfl5woh66xjyxbyvxa2neyu5ypwp/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/perl-5.40.0-cr2hpfl5woh66xjyxbyvxa2neyu5ypwp/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/perl-5.40.0-cr2hpfl5woh66xjyxbyvxa2neyu5ypwp/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/perl-5.40.0-cr2hpfl5woh66xjyxbyvxa2neyu5ypwp/.} +setenv PERL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/perl-5.40.0-cr2hpfl5woh66xjyxbyvxa2neyu5ypwp} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/pigz/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/pigz/.modulerc new file mode 100644 index 00000000..a52c732e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/pigz/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded pigz/2.8-r2l2m6o diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/pigz/2.8-r2l2m6o b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/pigz/2.8-r2l2m6o new file mode 100644 index 00000000..7fa3a7df --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/pigz/2.8-r2l2m6o @@ -0,0 +1,65 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.534792 +## +## pigz@2.8%gcc@13.2.0 build_system=makefile arch=linux-ubuntu22.04-zen2/r2l2m6o +## + + +module-whatis {A parallel implementation of gzip for modern multi-processor, multi-core machines.} + +proc ModulesHelp { } { + puts stderr {Name : pigz} + puts stderr {Version: 2.8} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {A parallel implementation of gzip for modern multi-processor, multi-core} + puts stderr {machines.} +} + +conflict pigz + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/pigz-2.8-r2l2m6o2smuxbjx2iuaz3p7sqjntkxal/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/pigz-2.8-r2l2m6o2smuxbjx2iuaz3p7sqjntkxal/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/pigz-2.8-r2l2m6o2smuxbjx2iuaz3p7sqjntkxal/.} +setenv PIGZ_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/pigz-2.8-r2l2m6o2smuxbjx2iuaz3p7sqjntkxal} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/pkgconf/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/pkgconf/.modulerc new file mode 100644 index 00000000..7ea0b04d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/pkgconf/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded pkgconf/2.2.0-ghcz7ox diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/pkgconf/2.2.0-ghcz7ox b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/pkgconf/2.2.0-ghcz7ox new file mode 100644 index 00000000..3a59b1c4 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/pkgconf/2.2.0-ghcz7ox @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.617196 +## +## pkgconf@2.2.0%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-zen2/ghcz7ox +## + + +module-whatis {pkgconf is a program which helps to configure compiler and linker flags for development frameworks. It is similar to pkg-config from freedesktop.org, providing additional functionality while also maintaining compatibility.} + +proc ModulesHelp { } { + puts stderr {Name : pkgconf} + puts stderr {Version: 2.2.0} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {pkgconf is a program which helps to configure compiler and linker flags} + puts stderr {for development frameworks. It is similar to pkg-config from} + puts stderr {freedesktop.org, providing additional functionality while also} + puts stderr {maintaining compatibility.} +} + +conflict pkgconf + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/pkgconf-2.2.0-ghcz7oxsaqx36d4xqr5767zgq6ydvc2f/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/pkgconf-2.2.0-ghcz7oxsaqx36d4xqr5767zgq6ydvc2f/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/pkgconf-2.2.0-ghcz7oxsaqx36d4xqr5767zgq6ydvc2f/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/pkgconf-2.2.0-ghcz7oxsaqx36d4xqr5767zgq6ydvc2f/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/pkgconf-2.2.0-ghcz7oxsaqx36d4xqr5767zgq6ydvc2f/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/pkgconf-2.2.0-ghcz7oxsaqx36d4xqr5767zgq6ydvc2f/share/man} +prepend-path ACLOCAL_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/pkgconf-2.2.0-ghcz7oxsaqx36d4xqr5767zgq6ydvc2f/share/aclocal} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/pkgconf-2.2.0-ghcz7oxsaqx36d4xqr5767zgq6ydvc2f/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/pkgconf-2.2.0-ghcz7oxsaqx36d4xqr5767zgq6ydvc2f/.} +setenv PKGCONF_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/pkgconf-2.2.0-ghcz7oxsaqx36d4xqr5767zgq6ydvc2f} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/plumed/2.8.2 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/plumed/2.8.2 new file mode 100644 index 00000000..cc92442c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/plumed/2.8.2 @@ -0,0 +1,76 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.719679 +## +## plumed@2.8.2%gcc@13.2.0+gsl~mpi+shared arrayfire=none build_system=autotools optional_modules=all arch=linux-ubuntu22.04-zen2/d27zqde +## +## Configure options: --disable-ld-r LDFLAGS=-L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/gsl-2.8-vmiwgsae27iufx63jb4j3txvyv46zjwn/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/openblas-0.3.28-hijclwob3fzge7dvadb5omtcpl2jv4q5/lib -lgsl -lopenblas --enable-shared=yes --enable-gsl=yes --enable-af_cpu=no --enable-af_cuda=no --enable-af_ocl=no --enable-modules=all +## + + +module-whatis {PLUMED is an open source library for free energy calculations in molecular systems which works together with some of the most popular molecular dynamics engines.} + +proc ModulesHelp { } { + puts stderr {Name : plumed} + puts stderr {Version: 2.8.2} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {PLUMED is an open source library for free energy calculations in} + puts stderr {molecular systems which works together with some of the most popular} + puts stderr {molecular dynamics engines. Free energy calculations can be performed as} + puts stderr {a function of many order parameters with a particular focus on} + puts stderr {biological problems, using state of the art methods such as} + puts stderr {metadynamics, umbrella sampling and Jarzynski-equation based steered MD.} + puts stderr {The software, written in C++, can be easily interfaced with both fortran} + puts stderr {and C/C++ codes.} +} + +conflict plumed + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/plumed-2.8.2/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/plumed-2.8.2/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/plumed-2.8.2/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/plumed-2.8.2/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/plumed-2.8.2/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/plumed-2.8.2/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/plumed-2.8.2/.} +setenv PLUMED_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/plumed-2.8.2-d27zqder73vgzk4uzsqdm3zg7vnr2zkl} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/pmix/4.2.9 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/pmix/4.2.9 new file mode 100644 index 00000000..1f9c53d8 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/pmix/4.2.9 @@ -0,0 +1,87 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.799786 +## +## pmix@4.2.9%gcc@13.2.0~munge~python~restful build_system=autotools arch=linux-ubuntu22.04-zen2/ljrmjyn +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {The Process Management Interface (PMI) has been used for quite some time as a means of exchanging wireup information needed for interprocess communication. However, meeting the significant orchestration challenges presented by exascale systems requires that the process-to-system interface evolve to permit a tighter integration between the different components of the parallel application and existing and future SMS solutions.} + +proc ModulesHelp { } { + puts stderr {Name : pmix} + puts stderr {Version: 4.2.9} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {The Process Management Interface (PMI) has been used for quite some time} + puts stderr {as a means of exchanging wireup information needed for interprocess} + puts stderr {communication. However, meeting the significant orchestration challenges} + puts stderr {presented by exascale systems requires that the process-to-system} + puts stderr {interface evolve to permit a tighter integration between the different} + puts stderr {components of the parallel application and existing and future SMS} + puts stderr {solutions. PMI Exascale (PMIx) addresses these needs by providing an} + puts stderr {extended version of the PMI definitions specifically designed to support} + puts stderr {exascale and beyond environments by: (a) adding flexibility to the} + puts stderr {functionality expressed in the existing APIs, (b) augmenting the} + puts stderr {interfaces with new APIs that provide extended capabilities, (c) forging} + puts stderr {a collaboration between subsystem providers including resource manager,} + puts stderr {fabric, file system, and programming library developers, (d)} + puts stderr {establishing a standards-like body for maintaining the definitions, and} + puts stderr {(e) providing a reference implementation of the PMIx standard that} + puts stderr {demonstrates the desired level of scalability while maintaining strict} + puts stderr {separation between it and the standard itself.} +} + +conflict pmix + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/pmix-4.2.9/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/pmix-4.2.9/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/pmix-4.2.9/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/pmix-4.2.9/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/pmix-4.2.9/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/pmix-4.2.9/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/pmix-4.2.9/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/pmix-4.2.9/.} +setenv PMIX_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/pmix-4.2.9} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/pmix/5.0.3 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/pmix/5.0.3 new file mode 100644 index 00000000..3eb3181f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/pmix/5.0.3 @@ -0,0 +1,87 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.856263 +## +## pmix@5.0.3%gcc@13.2.0~munge~python~restful build_system=autotools arch=linux-ubuntu22.04-zen2/oxw3efe +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {The Process Management Interface (PMI) has been used for quite some time as a means of exchanging wireup information needed for interprocess communication. However, meeting the significant orchestration challenges presented by exascale systems requires that the process-to-system interface evolve to permit a tighter integration between the different components of the parallel application and existing and future SMS solutions.} + +proc ModulesHelp { } { + puts stderr {Name : pmix} + puts stderr {Version: 5.0.3} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {The Process Management Interface (PMI) has been used for quite some time} + puts stderr {as a means of exchanging wireup information needed for interprocess} + puts stderr {communication. However, meeting the significant orchestration challenges} + puts stderr {presented by exascale systems requires that the process-to-system} + puts stderr {interface evolve to permit a tighter integration between the different} + puts stderr {components of the parallel application and existing and future SMS} + puts stderr {solutions. PMI Exascale (PMIx) addresses these needs by providing an} + puts stderr {extended version of the PMI definitions specifically designed to support} + puts stderr {exascale and beyond environments by: (a) adding flexibility to the} + puts stderr {functionality expressed in the existing APIs, (b) augmenting the} + puts stderr {interfaces with new APIs that provide extended capabilities, (c) forging} + puts stderr {a collaboration between subsystem providers including resource manager,} + puts stderr {fabric, file system, and programming library developers, (d)} + puts stderr {establishing a standards-like body for maintaining the definitions, and} + puts stderr {(e) providing a reference implementation of the PMIx standard that} + puts stderr {demonstrates the desired level of scalability while maintaining strict} + puts stderr {separation between it and the standard itself.} +} + +conflict pmix + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/pmix-5.0.3/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/pmix-5.0.3/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/pmix-5.0.3/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/pmix-5.0.3/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/pmix-5.0.3/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/pmix-5.0.3/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/pmix-5.0.3/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/pmix-5.0.3/.} +setenv PMIX_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/pmix-5.0.3} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/py-numpy/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/py-numpy/.modulerc new file mode 100644 index 00000000..46ca9244 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/py-numpy/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-numpy/2.1.2-eiwpwrp diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/py-numpy/2.1.2-eiwpwrp b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/py-numpy/2.1.2-eiwpwrp new file mode 100644 index 00000000..3502bee5 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/py-numpy/2.1.2-eiwpwrp @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:34.198552 +## +## py-numpy@2.1.2%gcc@13.2.0 build_system=python_pip patches=873745d arch=linux-ubuntu22.04-zen2/eiwpwrp +## + + +module-whatis {Fundamental package for array computing in Python.} + +proc ModulesHelp { } { + puts stderr {Name : py-numpy} + puts stderr {Version: 2.1.2} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {Fundamental package for array computing in Python.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9-xw5rl6p + module load python-venv/1.0-vst37zv +} else { + depends-on python/3.11.9-xw5rl6p + depends-on python-venv/1.0-vst37zv +} +conflict py-numpy + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/py-numpy-2.1.2-eiwpwrpdurvxz5sfsdnp43omv5tudvnk/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/py-numpy-2.1.2-eiwpwrpdurvxz5sfsdnp43omv5tudvnk/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/py-numpy-2.1.2-eiwpwrpdurvxz5sfsdnp43omv5tudvnk/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/py-numpy-2.1.2-eiwpwrpdurvxz5sfsdnp43omv5tudvnk/lib/python3.11/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/py-numpy-2.1.2-eiwpwrpdurvxz5sfsdnp43omv5tudvnk/bin} +setenv PY_NUMPY_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/py-numpy-2.1.2-eiwpwrpdurvxz5sfsdnp43omv5tudvnk} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/python-venv/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/python-venv/.modulerc new file mode 100644 index 00000000..ec271349 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/python-venv/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded python-venv/1.0-vst37zv diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/python-venv/1.0-vst37zv b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/python-venv/1.0-vst37zv new file mode 100644 index 00000000..493694cb --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/python-venv/1.0-vst37zv @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:56.239305 +## +## python-venv@1.0%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-zen2/vst37zv +## + + +module-whatis {A Spack managed Python virtual environment} + +proc ModulesHelp { } { + puts stderr {Name : python-venv} + puts stderr {Version: 1.0} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {A Spack managed Python virtual environment} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9-xw5rl6p +} else { + depends-on python/3.11.9-xw5rl6p +} +conflict python-venv + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/python-venv-1.0-vst37zvdbtjpngjle2wpk2tmi7qrfmoy/lib64} +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/python-venv-1.0-vst37zvdbtjpngjle2wpk2tmi7qrfmoy/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/python-venv-1.0-vst37zvdbtjpngjle2wpk2tmi7qrfmoy/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/python-venv-1.0-vst37zvdbtjpngjle2wpk2tmi7qrfmoy/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/python-venv-1.0-vst37zvdbtjpngjle2wpk2tmi7qrfmoy/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/python-venv-1.0-vst37zvdbtjpngjle2wpk2tmi7qrfmoy/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/python-venv-1.0-vst37zvdbtjpngjle2wpk2tmi7qrfmoy/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/python-venv-1.0-vst37zvdbtjpngjle2wpk2tmi7qrfmoy/lib/python3.11/site-packages} +setenv PYTHON_VENV_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/python-venv-1.0-vst37zvdbtjpngjle2wpk2tmi7qrfmoy} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/python/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/python/.modulerc new file mode 100644 index 00000000..35c3f8a7 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/python/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded python/3.11.9-xw5rl6p diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/python/3.11.9-xw5rl6p b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/python/3.11.9-xw5rl6p new file mode 100644 index 00000000..d419edfe --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/python/3.11.9-xw5rl6p @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:56.083452 +## +## python@3.11.9%gcc@13.2.0+bz2+crypt+ctypes+dbm~debug+libxml2+lzma~nis~optimizations+pic+pyexpat+pythoncmd+readline+shared+sqlite3+ssl~tkinter+uuid+zlib build_system=generic patches=13fa8bf,b0615b2,ebdca64,f2fd060 arch=linux-ubuntu22.04-zen2/xw5rl6p +## +## Configure options: CPPFLAGS=-I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/bzip2-1.0.8-abxndkj4r5bxhagvvo7dpexjoov3bhu5/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/expat-2.6.4-mub5nd4p4qoame5a7mwiyefe4tike4cg/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gcc-runtime-13.2.0-y4ja4trdxkpuyidxmq3vwsmylih2czjs/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/gdbm-1.23-dmhfxva5qt3fivb6mpyz3gpdfxci76xh/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/gettext-0.22.5-mzypobow7kwewflojbml7g5gn2urc74j/include -I/usr/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libffi-3.4.6-vprqrnp2crtsf6egaaugse4z3w7prr6y/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libxcrypt-4.4.35-jwhfr7omicexhcvepxbe4osuka2kwrsv/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/ncurses-6.5-pzx2rkweuhk5z7xzc7agkbti5t4humzu/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-3.4.0/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/readline-8.2-obepzxx2kv5e6b32nbwfvlek2co7kv64/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/sqlite-3.46.0-2k4jyha5mu23dy5zyve4c2s2w6xvitbj/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/util-linux-uuid-2.40.2-hz6ptu3dg574ydjuf4mjg6izvqcf3wpy/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/xz-5.4.6-hrwbhmrbl7gtv6dy6jixrf4fe42ydhkx/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/zlib-ng-2.2.1-4bnugnjldukqdegntfhquqn5ntag4wuh/include LDFLAGS=-L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/bzip2-1.0.8-abxndkj4r5bxhagvvo7dpexjoov3bhu5/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/expat-2.6.4-mub5nd4p4qoame5a7mwiyefe4tike4cg/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/gdbm-1.23-dmhfxva5qt3fivb6mpyz3gpdfxci76xh/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/gettext-0.22.5-mzypobow7kwewflojbml7g5gn2urc74j/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libffi-3.4.6-vprqrnp2crtsf6egaaugse4z3w7prr6y/lib64 -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libxcrypt-4.4.35-jwhfr7omicexhcvepxbe4osuka2kwrsv/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/ncurses-6.5-pzx2rkweuhk5z7xzc7agkbti5t4humzu/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-3.4.0/lib64 -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/readline-8.2-obepzxx2kv5e6b32nbwfvlek2co7kv64/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/sqlite-3.46.0-2k4jyha5mu23dy5zyve4c2s2w6xvitbj/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/util-linux-uuid-2.40.2-hz6ptu3dg574ydjuf4mjg6izvqcf3wpy/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/xz-5.4.6-hrwbhmrbl7gtv6dy6jixrf4fe42ydhkx/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/zlib-ng-2.2.1-4bnugnjldukqdegntfhquqn5ntag4wuh/lib --without-pydebug --enable-shared --without-ensurepip --with-openssl=/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/openssl-3.4.0 --with-dbmliborder=gdbm --with-system-expat --with-system-ffi --enable-loadable-sqlite-extensions CFLAGS=-fPIC +## + + +module-whatis {The Python programming language.} + +proc ModulesHelp { } { + puts stderr {Name : python} + puts stderr {Version: 3.11.9} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {The Python programming language.} +} + +conflict python + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/python-3.11.9-xw5rl6ph7jyvrlvydbdpb6ffqw6kliv3/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/python-3.11.9-xw5rl6ph7jyvrlvydbdpb6ffqw6kliv3/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/python-3.11.9-xw5rl6ph7jyvrlvydbdpb6ffqw6kliv3/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/python-3.11.9-xw5rl6ph7jyvrlvydbdpb6ffqw6kliv3/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/python-3.11.9-xw5rl6ph7jyvrlvydbdpb6ffqw6kliv3/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/python-3.11.9-xw5rl6ph7jyvrlvydbdpb6ffqw6kliv3/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/python-3.11.9-xw5rl6ph7jyvrlvydbdpb6ffqw6kliv3/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/python-3.11.9-xw5rl6ph7jyvrlvydbdpb6ffqw6kliv3/.} +setenv PYTHON_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/python-3.11.9-xw5rl6ph7jyvrlvydbdpb6ffqw6kliv3} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/readline/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/readline/.modulerc new file mode 100644 index 00000000..c467e01f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/readline/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded readline/8.2-obepzxx diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/readline/8.2-obepzxx b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/readline/8.2-obepzxx new file mode 100644 index 00000000..de0993fe --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/readline/8.2-obepzxx @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:56.637052 +## +## readline@8.2%gcc@13.2.0 build_system=autotools patches=bbf97f1 arch=linux-ubuntu22.04-zen2/obepzxx +## + + +module-whatis {The GNU Readline library provides a set of functions for use by applications that allow users to edit command lines as they are typed in. Both Emacs and vi editing modes are available. The Readline library includes additional functions to maintain a list of previously-entered command lines, to recall and perhaps reedit those lines, and perform csh-like history expansion on previous commands.} + +proc ModulesHelp { } { + puts stderr {Name : readline} + puts stderr {Version: 8.2} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {The GNU Readline library provides a set of functions for use by} + puts stderr {applications that allow users to edit command lines as they are typed} + puts stderr {in. Both Emacs and vi editing modes are available. The Readline library} + puts stderr {includes additional functions to maintain a list of previously-entered} + puts stderr {command lines, to recall and perhaps reedit those lines, and perform} + puts stderr {csh-like history expansion on previous commands.} +} + +conflict readline + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/readline-8.2-obepzxx2kv5e6b32nbwfvlek2co7kv64/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/readline-8.2-obepzxx2kv5e6b32nbwfvlek2co7kv64/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/readline-8.2-obepzxx2kv5e6b32nbwfvlek2co7kv64/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/readline-8.2-obepzxx2kv5e6b32nbwfvlek2co7kv64/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/readline-8.2-obepzxx2kv5e6b32nbwfvlek2co7kv64/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/readline-8.2-obepzxx2kv5e6b32nbwfvlek2co7kv64/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/readline-8.2-obepzxx2kv5e6b32nbwfvlek2co7kv64/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/readline-8.2-obepzxx2kv5e6b32nbwfvlek2co7kv64/.} +setenv READLINE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/readline-8.2-obepzxx2kv5e6b32nbwfvlek2co7kv64} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/rpcsvc-proto/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/rpcsvc-proto/.modulerc new file mode 100644 index 00000000..c9119cd1 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/rpcsvc-proto/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded rpcsvc-proto/1.4.4-nvfg43c diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/rpcsvc-proto/1.4.4-nvfg43c b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/rpcsvc-proto/1.4.4-nvfg43c new file mode 100644 index 00000000..1d068258 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/rpcsvc-proto/1.4.4-nvfg43c @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:58.260721 +## +## rpcsvc-proto@1.4.4%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-zen2/nvfg43c +## +## Configure options: LIBS=-lintl +## + + +module-whatis {rpcsvc protocol definitions from glibc.} + +proc ModulesHelp { } { + puts stderr {Name : rpcsvc-proto} + puts stderr {Version: 1.4.4} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {rpcsvc protocol definitions from glibc.} +} + +conflict rpcsvc-proto + +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/rpcsvc-proto-1.4.4-nvfg43ces6e26t4imt5lk7hqcqpcucyh/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/rpcsvc-proto-1.4.4-nvfg43ces6e26t4imt5lk7hqcqpcucyh/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/rpcsvc-proto-1.4.4-nvfg43ces6e26t4imt5lk7hqcqpcucyh/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/rpcsvc-proto-1.4.4-nvfg43ces6e26t4imt5lk7hqcqpcucyh/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/rpcsvc-proto-1.4.4-nvfg43ces6e26t4imt5lk7hqcqpcucyh/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/rpcsvc-proto-1.4.4-nvfg43ces6e26t4imt5lk7hqcqpcucyh/.} +setenv RPCSVC_PROTO_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/rpcsvc-proto-1.4.4-nvfg43ces6e26t4imt5lk7hqcqpcucyh} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/snappy/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/snappy/.modulerc new file mode 100644 index 00000000..64ab1551 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/snappy/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded snappy/1.2.1-zdenkfh diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/snappy/1.2.1-zdenkfh b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/snappy/1.2.1-zdenkfh new file mode 100644 index 00000000..c7451a38 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/snappy/1.2.1-zdenkfh @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:59.017077 +## +## snappy@1.2.1%gcc@13.2.0~ipo+pic+shared build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-zen2/zdenkfh +## +## Configure options: -DCMAKE_INSTALL_LIBDIR:STRING=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/snappy-1.2.1-zdenkfhfymtkxoo6ekjbsaw5km22m76j/lib -DBUILD_SHARED_LIBS:BOOL=ON -DSNAPPY_BUILD_TESTS:BOOL=OFF -DSNAPPY_BUILD_BENCHMARKS:STRING=OFF +## + + +module-whatis {A fast compressor/decompressor: https://code.google.com/p/snappy} + +proc ModulesHelp { } { + puts stderr {Name : snappy} + puts stderr {Version: 1.2.1} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {A fast compressor/decompressor: https://code.google.com/p/snappy} +} + +conflict snappy + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/snappy-1.2.1-zdenkfhfymtkxoo6ekjbsaw5km22m76j/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/snappy-1.2.1-zdenkfhfymtkxoo6ekjbsaw5km22m76j/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/snappy-1.2.1-zdenkfhfymtkxoo6ekjbsaw5km22m76j/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/snappy-1.2.1-zdenkfhfymtkxoo6ekjbsaw5km22m76j/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/snappy-1.2.1-zdenkfhfymtkxoo6ekjbsaw5km22m76j/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/snappy-1.2.1-zdenkfhfymtkxoo6ekjbsaw5km22m76j/.} +setenv SNAPPY_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/snappy-1.2.1-zdenkfhfymtkxoo6ekjbsaw5km22m76j} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/spglib/2.0.2 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/spglib/2.0.2 new file mode 100644 index 00000000..0f16ff4a --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/spglib/2.0.2 @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:59.123732 +## +## spglib@2.0.2%gcc@13.2.0+fortran~ipo+openmp build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-zen2/25sgrf7 +## +## Configure options: -DUSE_OMP:BOOL=ON -DWITH_Fortran:BOOL=ON +## + + +module-whatis {C library for finding and handling crystal symmetries.} + +proc ModulesHelp { } { + puts stderr {Name : spglib} + puts stderr {Version: 2.0.2} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {C library for finding and handling crystal symmetries.} +} + +conflict spglib + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/spglib-2.0.2/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/spglib-2.0.2/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/spglib-2.0.2/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/spglib-2.0.2/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/spglib-2.0.2/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/spglib-2.0.2/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/spglib-2.0.2/.} +setenv SPGLIB_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/spglib-2.0.2-25sgrf7yza5qcpy43qw2v3at32ov3kr6} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/sqlite/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/sqlite/.modulerc new file mode 100644 index 00000000..d701b230 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/sqlite/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded sqlite/3.46.0-2k4jyha diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/sqlite/3.46.0-2k4jyha b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/sqlite/3.46.0-2k4jyha new file mode 100644 index 00000000..cc45af72 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/sqlite/3.46.0-2k4jyha @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:59.202372 +## +## sqlite@3.46.0%gcc@13.2.0+column_metadata+dynamic_extensions+fts~functions+rtree build_system=autotools arch=linux-ubuntu22.04-zen2/2k4jyha +## + + +module-whatis {SQLite is a C-language library that implements a small, fast, self-contained, high-reliability, full-featured, SQL database engine. } + +proc ModulesHelp { } { + puts stderr {Name : sqlite} + puts stderr {Version: 3.46.0} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {SQLite is a C-language library that implements a small, fast, self-} + puts stderr {contained, high-reliability, full-featured, SQL database engine.} +} + +conflict sqlite + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/sqlite-3.46.0-2k4jyha5mu23dy5zyve4c2s2w6xvitbj/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/sqlite-3.46.0-2k4jyha5mu23dy5zyve4c2s2w6xvitbj/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/sqlite-3.46.0-2k4jyha5mu23dy5zyve4c2s2w6xvitbj/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/sqlite-3.46.0-2k4jyha5mu23dy5zyve4c2s2w6xvitbj/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/sqlite-3.46.0-2k4jyha5mu23dy5zyve4c2s2w6xvitbj/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/sqlite-3.46.0-2k4jyha5mu23dy5zyve4c2s2w6xvitbj/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/sqlite-3.46.0-2k4jyha5mu23dy5zyve4c2s2w6xvitbj/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/sqlite-3.46.0-2k4jyha5mu23dy5zyve4c2s2w6xvitbj/.} +setenv SQLITE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/sqlite-3.46.0-2k4jyha5mu23dy5zyve4c2s2w6xvitbj} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/swig/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/swig/.modulerc new file mode 100644 index 00000000..a6c0f0db --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/swig/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded swig/4.1.1-bc6eabp diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/swig/4.1.1-bc6eabp b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/swig/4.1.1-bc6eabp new file mode 100644 index 00000000..86f5b7c3 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/swig/4.1.1-bc6eabp @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:59.367448 +## +## swig@4.1.1%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-zen2/bc6eabp +## + + +module-whatis {SWIG is an interface compiler that connects programs written in C and C++ with scripting languages such as Perl, Python, Ruby, and Tcl. It works by taking the declarations found in C/C++ header files and using them to generate the wrapper code that scripting languages need to access the underlying C/C++ code. In addition, SWIG provides a variety of customization features that let you tailor the wrapping process to suit your application.} + +proc ModulesHelp { } { + puts stderr {Name : swig} + puts stderr {Version: 4.1.1} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {SWIG is an interface compiler that connects programs written in C and} + puts stderr {C++ with scripting languages such as Perl, Python, Ruby, and Tcl. It} + puts stderr {works by taking the declarations found in C/C++ header files and using} + puts stderr {them to generate the wrapper code that scripting languages need to} + puts stderr {access the underlying C/C++ code. In addition, SWIG provides a variety} + puts stderr {of customization features that let you tailor the wrapping process to} + puts stderr {suit your application.} +} + +conflict swig + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/swig-4.1.1-bc6eabppt26rkfmuo7ifdi553kmxqqhr/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/swig-4.1.1-bc6eabppt26rkfmuo7ifdi553kmxqqhr/.} +setenv SWIG_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/swig-4.1.1-bc6eabppt26rkfmuo7ifdi553kmxqqhr} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/tar/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/tar/.modulerc new file mode 100644 index 00000000..0ece4787 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/tar/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded tar/1.34-jzoadke diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/tar/1.34-jzoadke b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/tar/1.34-jzoadke new file mode 100644 index 00000000..d8f4e501 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/tar/1.34-jzoadke @@ -0,0 +1,78 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:59.479293 +## +## tar@1.34%gcc@13.2.0 build_system=autotools zip=pigz arch=linux-ubuntu22.04-zen2/jzoadke +## +## Configure options: --with-xz=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/xz-5.4.6-hrwbhmrbl7gtv6dy6jixrf4fe42ydhkx/bin/xz --with-lzma=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/xz-5.4.6-hrwbhmrbl7gtv6dy6jixrf4fe42ydhkx/bin/lzma --with-bzip2=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/bzip2-1.0.8-abxndkj4r5bxhagvvo7dpexjoov3bhu5/bin/bzip2 --with-libiconv-prefix=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/libiconv-1.17-4ijgqeomz3xoohv6wc2ab5xeqmsghrzg --with-zstd=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/zstd-1.5.6-ataddvz5vg5eh43sgeiio2kkvtt4jtci/bin/zstd --with-gzip=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/pigz-2.8-r2l2m6o2smuxbjx2iuaz3p7sqjntkxal/bin/pigz +## + + +module-whatis {GNU Tar provides the ability to create tar archives, as well as various other kinds of manipulation.} + +proc ModulesHelp { } { + puts stderr {Name : tar} + puts stderr {Version: 1.34} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {GNU Tar provides the ability to create tar archives, as well as various} + puts stderr {other kinds of manipulation.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load bzip2/1.0.8 + module load pigz/2.8-r2l2m6o + module load xz/5.4.6-hrwbhmr + module load zstd/1.5.6-ataddvz +} else { + depends-on bzip2/1.0.8 + depends-on pigz/2.8-r2l2m6o + depends-on xz/5.4.6-hrwbhmr + depends-on zstd/1.5.6-ataddvz +} +conflict tar + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/tar-1.34-jzoadkevv52ncqofq7gb6vayer6d3llm/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/tar-1.34-jzoadkevv52ncqofq7gb6vayer6d3llm/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/tar-1.34-jzoadkevv52ncqofq7gb6vayer6d3llm/.} +setenv TAR_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/tar-1.34-jzoadkevv52ncqofq7gb6vayer6d3llm} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/texinfo/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/texinfo/.modulerc new file mode 100644 index 00000000..33862c31 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/texinfo/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded texinfo/7.1-ceigpbd diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/texinfo/7.1-ceigpbd b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/texinfo/7.1-ceigpbd new file mode 100644 index 00000000..550ba536 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/texinfo/7.1-ceigpbd @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:59.582301 +## +## texinfo@7.1%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-zen2/ceigpbd +## + + +module-whatis {Texinfo is the official documentation format of the GNU project.} + +proc ModulesHelp { } { + puts stderr {Name : texinfo} + puts stderr {Version: 7.1} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {Texinfo is the official documentation format of the GNU project. It was} + puts stderr {invented by Richard Stallman and Bob Chassell many years ago, loosely} + puts stderr {based on Brian Reid's Scribe and other formatting languages of the time.} + puts stderr {It is used by many non-GNU projects as well.} +} + +conflict texinfo + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/texinfo-7.1-ceigpbdhggogrbntujpht3v3ihvjdvnq/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/texinfo-7.1-ceigpbdhggogrbntujpht3v3ihvjdvnq/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/texinfo-7.1-ceigpbdhggogrbntujpht3v3ihvjdvnq/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/texinfo-7.1-ceigpbdhggogrbntujpht3v3ihvjdvnq/.} +setenv TEXINFO_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/texinfo-7.1-ceigpbdhggogrbntujpht3v3ihvjdvnq} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/ucx/1.17.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/ucx/1.17.0 new file mode 100644 index 00000000..519ad2f6 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/ucx/1.17.0 @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:00.066159 +## +## ucx@1.17.0%gcc@13.2.0~assertions~backtrace_detail~cma~cuda~dc~debug~dm+examples~gdrcopy~gtest~ib_hw_tm~java~knem~logging~mlx5_dv+openmp+optimizations~parameter_checking+pic~rc~rdmacm~rocm+thread_multiple~ucg~ud~verbs~vfs~xpmem build_system=autotools libs=shared,static opt=3 simd=auto arch=linux-ubuntu22.04-zen2/pc5cbku +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {a communication library implementing high-performance messaging for MPI/PGAS frameworks} + +proc ModulesHelp { } { + puts stderr {Name : ucx} + puts stderr {Version: 1.17.0} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {a communication library implementing high-performance messaging for} + puts stderr {MPI/PGAS frameworks} +} + +conflict ucx + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/ucx-1.17.0/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/ucx-1.17.0/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/ucx-1.17.0/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/ucx-1.17.0/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/ucx-1.17.0/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/ucx-1.17.0/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/ucx-1.17.0/.} +setenv UCX_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen2/ucx-1.17.0} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/userspace-rcu/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/userspace-rcu/.modulerc new file mode 100644 index 00000000..926d49c8 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/userspace-rcu/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded userspace-rcu/0.13.1-dc75k67 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/userspace-rcu/0.13.1-dc75k67 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/userspace-rcu/0.13.1-dc75k67 new file mode 100644 index 00000000..baac35a1 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/userspace-rcu/0.13.1-dc75k67 @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:00.120094 +## +## userspace-rcu@0.13.1%gcc@13.2.0 build_system=autotools patches=49aa8fa arch=linux-ubuntu22.04-zen2/dc75k67 +## + + +module-whatis {liburcu is a LGPLv2.1 userspace RCU (read-copy-update) library. This data synchronization library provides read-side access which scales linearly with the number of cores.} + +proc ModulesHelp { } { + puts stderr {Name : userspace-rcu} + puts stderr {Version: 0.13.1} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {liburcu is a LGPLv2.1 userspace RCU (read-copy-update) library. This} + puts stderr {data synchronization library provides read-side access which scales} + puts stderr {linearly with the number of cores.} +} + +conflict userspace-rcu + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/userspace-rcu-0.13.1-dc75k67ruxokpp26msi34wld23fgkrl6/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/userspace-rcu-0.13.1-dc75k67ruxokpp26msi34wld23fgkrl6/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/userspace-rcu-0.13.1-dc75k67ruxokpp26msi34wld23fgkrl6/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/userspace-rcu-0.13.1-dc75k67ruxokpp26msi34wld23fgkrl6/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/userspace-rcu-0.13.1-dc75k67ruxokpp26msi34wld23fgkrl6/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/userspace-rcu-0.13.1-dc75k67ruxokpp26msi34wld23fgkrl6/.} +setenv USERSPACE_RCU_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/userspace-rcu-0.13.1-dc75k67ruxokpp26msi34wld23fgkrl6} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/util-linux-uuid/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/util-linux-uuid/.modulerc new file mode 100644 index 00000000..a5f942ea --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/util-linux-uuid/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded util-linux-uuid/2.40.2-hz6ptu3 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/util-linux-uuid/2.40.2-hz6ptu3 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/util-linux-uuid/2.40.2-hz6ptu3 new file mode 100644 index 00000000..1fb6fbd9 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/util-linux-uuid/2.40.2-hz6ptu3 @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:00.157467 +## +## util-linux-uuid@2.40.2%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-zen2/hz6ptu3 +## +## Configure options: --disable-use-tty-group --disable-makeinstall-chown --without-systemd --disable-all-programs --without-python --enable-libuuid --disable-bash-completion +## + + +module-whatis {Util-linux is a suite of essential utilities for any Linux system.} + +proc ModulesHelp { } { + puts stderr {Name : util-linux-uuid} + puts stderr {Version: 2.40.2} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {Util-linux is a suite of essential utilities for any Linux system.} +} + +conflict util-linux-uuid + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/util-linux-uuid-2.40.2-hz6ptu3dg574ydjuf4mjg6izvqcf3wpy/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/util-linux-uuid-2.40.2-hz6ptu3dg574ydjuf4mjg6izvqcf3wpy/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/util-linux-uuid-2.40.2-hz6ptu3dg574ydjuf4mjg6izvqcf3wpy/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/util-linux-uuid-2.40.2-hz6ptu3dg574ydjuf4mjg6izvqcf3wpy/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/util-linux-uuid-2.40.2-hz6ptu3dg574ydjuf4mjg6izvqcf3wpy/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/util-linux-uuid-2.40.2-hz6ptu3dg574ydjuf4mjg6izvqcf3wpy/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/util-linux-uuid-2.40.2-hz6ptu3dg574ydjuf4mjg6izvqcf3wpy/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/util-linux-uuid-2.40.2-hz6ptu3dg574ydjuf4mjg6izvqcf3wpy/.} +setenv UTIL_LINUX_UUID_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/util-linux-uuid-2.40.2-hz6ptu3dg574ydjuf4mjg6izvqcf3wpy} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/voropp/0.4.6 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/voropp/0.4.6 new file mode 100644 index 00000000..66c30566 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/voropp/0.4.6 @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:00.572395 +## +## voropp@0.4.6%gcc@13.2.0~ipo+shared build_system=cmake build_type=Release generator=make patches=b12e401 arch=linux-ubuntu22.04-zen2/nqllwqa +## +## Configure options: -DBUILD_SHARED_LIBS:BOOL=ON +## + + +module-whatis {Voro++ is a open source software library for the computation of the Voronoi diagram, a widely-used tessellation that has applications in many scientific fields.} + +proc ModulesHelp { } { + puts stderr {Name : voropp} + puts stderr {Version: 0.4.6} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {Voro++ is a open source software library for the computation of the} + puts stderr {Voronoi diagram, a widely-used tessellation that has applications in} + puts stderr {many scientific fields.} +} + +conflict voropp + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/voropp-0.4.6/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/voropp-0.4.6/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/voropp-0.4.6/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/voropp-0.4.6/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/voropp-0.4.6/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/voropp-0.4.6/.} +setenv VOROPP_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/voropp-0.4.6-nqllwqam3uydlruqe32vateyf7idqcdu} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/xerces-c/3.2.4 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/xerces-c/3.2.4 new file mode 100644 index 00000000..8320c877 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/xerces-c/3.2.4 @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:01.384556 +## +## xerces-c@3.2.4%gcc@13.2.0 build_system=autotools cxxstd=default netaccessor=curl transcoder=gnuiconv arch=linux-ubuntu22.04-zen2/wb4nllv +## +## Configure options: --enable-netaccessor-curl --enable-transcoder-gnuiconv +## + + +module-whatis {Xerces-C++ is a validating XML parser written in a portable subset of C++. Xerces-C++ makes it easy to give your application the ability to read and write XML data. A shared library is provided for parsing, generating, manipulating, and validating XML documents using the DOM, SAX, and SAX2 APIs.} + +proc ModulesHelp { } { + puts stderr {Name : xerces-c} + puts stderr {Version: 3.2.4} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {Xerces-C++ is a validating XML parser written in a portable subset of} + puts stderr {C++. Xerces-C++ makes it easy to give your application the ability to} + puts stderr {read and write XML data. A shared library is provided for parsing,} + puts stderr {generating, manipulating, and validating XML documents using the DOM,} + puts stderr {SAX, and SAX2 APIs.} +} + +conflict xerces-c + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/xerces-c-3.2.4/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/xerces-c-3.2.4/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/xerces-c-3.2.4/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/xerces-c-3.2.4/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/xerces-c-3.2.4/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/xerces-c-3.2.4/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/xerces-c-3.2.4/.} +setenv XERCES_C_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/xerces-c-3.2.4-wb4nllv77cex6rozlhqryzo2tatfl2yh} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/xz/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/xz/.modulerc new file mode 100644 index 00000000..ebb5e724 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/xz/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded xz/5.4.6-hrwbhmr diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/xz/5.4.6-hrwbhmr b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/xz/5.4.6-hrwbhmr new file mode 100644 index 00000000..87469646 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/xz/5.4.6-hrwbhmr @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:01.563518 +## +## xz@5.4.6%gcc@13.2.0~pic build_system=autotools libs=shared,static arch=linux-ubuntu22.04-zen2/hrwbhmr +## + + +module-whatis {XZ Utils is free general-purpose data compression software with high compression ratio. XZ Utils were written for POSIX-like systems, but also work on some not-so-POSIX systems. XZ Utils are the successor to LZMA Utils.} + +proc ModulesHelp { } { + puts stderr {Name : xz} + puts stderr {Version: 5.4.6} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {XZ Utils is free general-purpose data compression software with high} + puts stderr {compression ratio. XZ Utils were written for POSIX-like systems, but} + puts stderr {also work on some not-so-POSIX systems. XZ Utils are the successor to} + puts stderr {LZMA Utils.} +} + +conflict xz + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/xz-5.4.6-hrwbhmrbl7gtv6dy6jixrf4fe42ydhkx/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/xz-5.4.6-hrwbhmrbl7gtv6dy6jixrf4fe42ydhkx/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/xz-5.4.6-hrwbhmrbl7gtv6dy6jixrf4fe42ydhkx/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/xz-5.4.6-hrwbhmrbl7gtv6dy6jixrf4fe42ydhkx/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/xz-5.4.6-hrwbhmrbl7gtv6dy6jixrf4fe42ydhkx/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/xz-5.4.6-hrwbhmrbl7gtv6dy6jixrf4fe42ydhkx/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/xz-5.4.6-hrwbhmrbl7gtv6dy6jixrf4fe42ydhkx/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/xz-5.4.6-hrwbhmrbl7gtv6dy6jixrf4fe42ydhkx/.} +setenv XZ_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/xz-5.4.6-hrwbhmrbl7gtv6dy6jixrf4fe42ydhkx} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/yaml-cpp/0.8.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/yaml-cpp/0.8.0 new file mode 100644 index 00000000..2eddc282 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/yaml-cpp/0.8.0 @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:01.609615 +## +## yaml-cpp@0.8.0%gcc@13.2.0~ipo+pic+shared~tests build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-zen2/qqejjgk +## +## Configure options: -DBUILD_SHARED_LIBS:BOOL=ON -DYAML_BUILD_SHARED_LIBS:BOOL=ON -DCMAKE_POSITION_INDEPENDENT_CODE:BOOL=ON -DYAML_CPP_BUILD_TESTS:BOOL=OFF +## + + +module-whatis {A YAML parser and emitter in C++} + +proc ModulesHelp { } { + puts stderr {Name : yaml-cpp} + puts stderr {Version: 0.8.0} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {A YAML parser and emitter in C++} +} + +conflict yaml-cpp + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/yaml-cpp-0.8.0/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/yaml-cpp-0.8.0/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/yaml-cpp-0.8.0/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/yaml-cpp-0.8.0/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/yaml-cpp-0.8.0/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/yaml-cpp-0.8.0/.} +setenv YAML_CPP_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/yaml-cpp-0.8.0-qqejjgkvba6hrwt22smdncwemxqimyku} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/zfp/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/zfp/.modulerc new file mode 100644 index 00000000..e0b8ad7f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/zfp/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded zfp/1.0.0-nfwfbto diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/zfp/1.0.0-nfwfbto b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/zfp/1.0.0-nfwfbto new file mode 100644 index 00000000..d670d762 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/zfp/1.0.0-nfwfbto @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:01.718045 +## +## zfp@1.0.0%gcc@13.2.0~aligned~c~cuda~daz~fasthash~fortran~ipo~openmp~profile~python+shared~strided~tight-error~twoway+utilities bsws=8 build_system=cmake build_type=Release generator=make round=never arch=linux-ubuntu22.04-zen2/nfwfbto +## +## Configure options: -DBUILD_TESTING:BOOL=OFF -DBUILD_SHARED_LIBS:BOOL=ON -DBUILD_UTILITIES:BOOL=ON -DBUILD_CFP:BOOL=OFF -DBUILD_ZFPY:BOOL=OFF -DBUILD_ZFORP:BOOL=OFF -DZFP_WITH_OPENMP:BOOL=OFF -DZFP_WITH_CUDA:BOOL=OFF -DZFP_WITH_ALIGNED_ALLOC:BOOL=OFF -DZFP_BIT_STREAM_WORD_SIZE:STRING=8 -DZFP_WITH_DAZ:BOOL=OFF -DZFP_WITH_CACHE_FAST_HASH:BOOL=OFF -DZFP_WITH_CACHE_PROFILE:BOOL=OFF -DZFP_WITH_BIT_STREAM_STRIDED:BOOL=OFF -DZFP_WITH_TIGHT_ERROR:BOOL=OFF -DZFP_WITH_CACHE_TWOWAY:BOOL=OFF ZFP_ROUNDING_MODE=ZFP_ROUND_NEVER +## + + +module-whatis {zfp is a compressed number format for multidimensional floating-point and integer arrays.} + +proc ModulesHelp { } { + puts stderr {Name : zfp} + puts stderr {Version: 1.0.0} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {zfp is a compressed number format for multidimensional floating-point} + puts stderr {and integer arrays. zfp provides compressed-array classes that support} + puts stderr {high throughput read and write random access to individual array} + puts stderr {elements. zfp also supports serial and parallel (OpenMP and CUDA)} + puts stderr {compression of whole arrays.} +} + +conflict zfp + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/zfp-1.0.0-nfwfbtoiimox6sfxriwtx6q45erosceb/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/zfp-1.0.0-nfwfbtoiimox6sfxriwtx6q45erosceb/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/zfp-1.0.0-nfwfbtoiimox6sfxriwtx6q45erosceb/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/zfp-1.0.0-nfwfbtoiimox6sfxriwtx6q45erosceb/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/zfp-1.0.0-nfwfbtoiimox6sfxriwtx6q45erosceb/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/zfp-1.0.0-nfwfbtoiimox6sfxriwtx6q45erosceb/.} +setenv ZFP_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/zfp-1.0.0-nfwfbtoiimox6sfxriwtx6q45erosceb} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/zlib-ng/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/zlib-ng/.modulerc new file mode 100644 index 00000000..f39bf941 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/zlib-ng/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded zlib-ng/2.2.1-jho3gq6 +module-hide --soft --hidden-loaded zlib-ng/2.2.1-4bnugnj diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/zlib-ng/2.2.1-4bnugnj b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/zlib-ng/2.2.1-4bnugnj new file mode 100644 index 00000000..d2f899cc --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/zlib-ng/2.2.1-4bnugnj @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:01.866792 +## +## zlib-ng@2.2.1%gcc@13.2.0+compat+new_strategies+opt+pic+shared build_system=autotools arch=linux-ubuntu22.04-zen2/4bnugnj +## + + +module-whatis {zlib replacement with optimizations for next generation systems.} + +proc ModulesHelp { } { + puts stderr {Name : zlib-ng} + puts stderr {Version: 2.2.1} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {zlib replacement with optimizations for next generation systems.} +} + +conflict zlib-ng + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/zlib-ng-2.2.1-4bnugnjldukqdegntfhquqn5ntag4wuh/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/zlib-ng-2.2.1-4bnugnjldukqdegntfhquqn5ntag4wuh/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/zlib-ng-2.2.1-4bnugnjldukqdegntfhquqn5ntag4wuh/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/zlib-ng-2.2.1-4bnugnjldukqdegntfhquqn5ntag4wuh/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/zlib-ng-2.2.1-4bnugnjldukqdegntfhquqn5ntag4wuh/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/zlib-ng-2.2.1-4bnugnjldukqdegntfhquqn5ntag4wuh/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/zlib-ng-2.2.1-4bnugnjldukqdegntfhquqn5ntag4wuh/.} +setenv ZLIB_NG_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/zlib-ng-2.2.1-4bnugnjldukqdegntfhquqn5ntag4wuh} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/zlib-ng/2.2.1-jho3gq6 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/zlib-ng/2.2.1-jho3gq6 new file mode 100644 index 00000000..2dc6ed8e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/zlib-ng/2.2.1-jho3gq6 @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:01.829042 +## +## zlib-ng@2.2.1%gcc@13.2.0+compat~new_strategies+opt+pic+shared build_system=autotools arch=linux-ubuntu22.04-zen2/jho3gq6 +## + + +module-whatis {zlib replacement with optimizations for next generation systems.} + +proc ModulesHelp { } { + puts stderr {Name : zlib-ng} + puts stderr {Version: 2.2.1} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {zlib replacement with optimizations for next generation systems.} +} + +conflict zlib-ng + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/zlib-ng-2.2.1-jho3gq6dsnchegyl3kc6hv6falhha4te/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/zlib-ng-2.2.1-jho3gq6dsnchegyl3kc6hv6falhha4te/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/zlib-ng-2.2.1-jho3gq6dsnchegyl3kc6hv6falhha4te/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/zlib-ng-2.2.1-jho3gq6dsnchegyl3kc6hv6falhha4te/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/zlib-ng-2.2.1-jho3gq6dsnchegyl3kc6hv6falhha4te/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/zlib-ng-2.2.1-jho3gq6dsnchegyl3kc6hv6falhha4te/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/zlib-ng-2.2.1-jho3gq6dsnchegyl3kc6hv6falhha4te/.} +setenv ZLIB_NG_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/zlib-ng-2.2.1-jho3gq6dsnchegyl3kc6hv6falhha4te} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/zlib/1.2.13 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/zlib/1.2.13 new file mode 100644 index 00000000..0601a048 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/zlib/1.2.13 @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:01.755494 +## +## zlib@1.2.13%gcc@13.2.0+optimize+pic+shared build_system=makefile arch=linux-ubuntu22.04-zen2/xnwx2rs +## + + +module-whatis {A free, general-purpose, legally unencumbered lossless data-compression library. } + +proc ModulesHelp { } { + puts stderr {Name : zlib} + puts stderr {Version: 1.2.13} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {A free, general-purpose, legally unencumbered lossless data-compression} + puts stderr {library.} +} + +conflict zlib + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/zlib-1.2.13/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/zlib-1.2.13/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/zlib-1.2.13/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/zlib-1.2.13/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/zlib-1.2.13/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/zlib-1.2.13/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen2/zlib-1.2.13/.} +setenv ZLIB_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/zlib-1.2.13-xnwx2rs3b6f2fg5vvscmmtoowmsxgcrm} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/zstd/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/zstd/.modulerc new file mode 100644 index 00000000..4b3d756c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/zstd/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded zstd/1.5.6-ataddvz +module-hide --soft --hidden-loaded zstd/1.5.6-oanodzn diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/zstd/1.5.6-ataddvz b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/zstd/1.5.6-ataddvz new file mode 100644 index 00000000..267d26a8 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/zstd/1.5.6-ataddvz @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:01.904970 +## +## zstd@1.5.6%gcc@13.2.0+programs build_system=makefile compression=none libs=shared,static arch=linux-ubuntu22.04-zen2/ataddvz +## + + +module-whatis {Zstandard, or zstd as short version, is a fast lossless compression algorithm, targeting real-time compression scenarios at zlib-level and better compression ratios.} + +proc ModulesHelp { } { + puts stderr {Name : zstd} + puts stderr {Version: 1.5.6} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {Zstandard, or zstd as short version, is a fast lossless compression} + puts stderr {algorithm, targeting real-time compression scenarios at zlib-level and} + puts stderr {better compression ratios.} +} + +conflict zstd + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/zstd-1.5.6-ataddvz5vg5eh43sgeiio2kkvtt4jtci/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/zstd-1.5.6-ataddvz5vg5eh43sgeiio2kkvtt4jtci/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/zstd-1.5.6-ataddvz5vg5eh43sgeiio2kkvtt4jtci/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/zstd-1.5.6-ataddvz5vg5eh43sgeiio2kkvtt4jtci/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/zstd-1.5.6-ataddvz5vg5eh43sgeiio2kkvtt4jtci/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/zstd-1.5.6-ataddvz5vg5eh43sgeiio2kkvtt4jtci/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/zstd-1.5.6-ataddvz5vg5eh43sgeiio2kkvtt4jtci/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/zstd-1.5.6-ataddvz5vg5eh43sgeiio2kkvtt4jtci/.} +setenv ZSTD_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/zstd-1.5.6-ataddvz5vg5eh43sgeiio2kkvtt4jtci} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/zstd/1.5.6-oanodzn b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/zstd/1.5.6-oanodzn new file mode 100644 index 00000000..379b9d6a --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen2/zstd/1.5.6-oanodzn @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:01.928801 +## +## zstd@1.5.6%gcc@13.2.0~programs build_system=makefile libs=shared,static arch=linux-ubuntu22.04-zen2/oanodzn +## + + +module-whatis {Zstandard, or zstd as short version, is a fast lossless compression algorithm, targeting real-time compression scenarios at zlib-level and better compression ratios.} + +proc ModulesHelp { } { + puts stderr {Name : zstd} + puts stderr {Version: 1.5.6} + puts stderr {Target : zen2} + puts stderr {} + puts stderr {Zstandard, or zstd as short version, is a fast lossless compression} + puts stderr {algorithm, targeting real-time compression scenarios at zlib-level and} + puts stderr {better compression ratios.} +} + +conflict zstd + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/zstd-1.5.6-oanodznozdoxyuctseplhq76x2rick6s/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/zstd-1.5.6-oanodznozdoxyuctseplhq76x2rick6s/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/zstd-1.5.6-oanodznozdoxyuctseplhq76x2rick6s/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/zstd-1.5.6-oanodznozdoxyuctseplhq76x2rick6s/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/zstd-1.5.6-oanodznozdoxyuctseplhq76x2rick6s/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/zstd-1.5.6-oanodznozdoxyuctseplhq76x2rick6s/.} +setenv ZSTD_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen2/gcc-13.2.0/zstd-1.5.6-oanodznozdoxyuctseplhq76x2rick6s} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/amdfftw/4.2 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/amdfftw/4.2 new file mode 100644 index 00000000..2d938899 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/amdfftw/4.2 @@ -0,0 +1,82 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:21.478134 +## +## amdfftw@4.2%gcc@13.2.0~amd-app-opt+amd-dynamic-dispatcher~amd-fast-planner~amd-mpi-vader-limit~debug~mpi+openmp+shared~static~threads build_system=autotools precision=double,float arch=linux-ubuntu22.04-zen3/sanans3 +## + + +module-whatis {FFTW (AMD Optimized version) is a comprehensive collection of fast C routines for computing the Discrete Fourier Transform (DFT) and various special cases thereof.} + +proc ModulesHelp { } { + puts stderr {Name : amdfftw} + puts stderr {Version: 4.2} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {FFTW (AMD Optimized version) is a comprehensive collection of fast C} + puts stderr {routines for computing the Discrete Fourier Transform (DFT) and various} + puts stderr {special cases thereof. It is an open-source implementation of the Fast} + puts stderr {Fourier transform algorithm. It can compute transforms of real and} + puts stderr {complex-values arrays of arbitrary size and dimension. AMD Optimized} + puts stderr {FFTW is the optimized FFTW implementation targeted for AMD CPUs. For} + puts stderr {single precision build, please use precision value as float. Example :} + puts stderr {spack install amdfftw precision=float LICENSING INFORMATION: By} + puts stderr {downloading, installing and using this software, you agree to the terms} + puts stderr {and conditions of the AMD AOCL-FFTW license agreement. You may obtain a} + puts stderr {copy of this license agreement from} + puts stderr {https://www.amd.com/en/developer/aocl/fftw/eula/fftw-} + puts stderr {libraries-4-2-eula.html} + puts stderr {https://www.amd.com/en/developer/aocl/fftw/eula/fftw-libraries-eula.html} +} + +conflict amdfftw + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/amdfftw-4.2/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/amdfftw-4.2/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/amdfftw-4.2/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/amdfftw-4.2/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/amdfftw-4.2/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/amdfftw-4.2/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/amdfftw-4.2/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/amdfftw-4.2/.} +setenv AMDFFTW_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/amdfftw-4.2-sanans3uu2llconi5fgh5ltp4kao274c} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/berkeley-db/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/berkeley-db/.modulerc new file mode 100644 index 00000000..da5af1cb --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/berkeley-db/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded berkeley-db/18.1.40-nsmaqlm diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/berkeley-db/18.1.40-nsmaqlm b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/berkeley-db/18.1.40-nsmaqlm new file mode 100644 index 00000000..e5870c80 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/berkeley-db/18.1.40-nsmaqlm @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:27.223056 +## +## berkeley-db@18.1.40%gcc@13.2.0+cxx~docs+stl build_system=autotools patches=26090f4,b231fcc arch=linux-ubuntu22.04-zen3/nsmaqlm +## +## Configure options: --disable-static --enable-dbm --enable-compat185 --with-repmgr-ssl=no --enable-cxx --enable-stl +## + + +module-whatis {Oracle Berkeley DB} + +proc ModulesHelp { } { + puts stderr {Name : berkeley-db} + puts stderr {Version: 18.1.40} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {Oracle Berkeley DB} +} + +conflict berkeley-db + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/berkeley-db-18.1.40-nsmaqlmoeqbhxexa5kwd7rrvwk2zfkeb/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/berkeley-db-18.1.40-nsmaqlmoeqbhxexa5kwd7rrvwk2zfkeb/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/berkeley-db-18.1.40-nsmaqlmoeqbhxexa5kwd7rrvwk2zfkeb/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/berkeley-db-18.1.40-nsmaqlmoeqbhxexa5kwd7rrvwk2zfkeb/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/berkeley-db-18.1.40-nsmaqlmoeqbhxexa5kwd7rrvwk2zfkeb/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/berkeley-db-18.1.40-nsmaqlmoeqbhxexa5kwd7rrvwk2zfkeb/.} +setenv BERKELEY_DB_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/berkeley-db-18.1.40-nsmaqlmoeqbhxexa5kwd7rrvwk2zfkeb} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/boost/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/boost/.modulerc new file mode 100644 index 00000000..4f890a0b --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/boost/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded boost/1.86.0-rudw4us diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/boost/1.84.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/boost/1.84.0 new file mode 100644 index 00000000..9572eee2 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/boost/1.84.0 @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:27.872826 +## +## boost@1.84.0%gcc@13.2.0+atomic+chrono~clanglibcpp~cobalt~container+context~contract+coroutine+date_time~debug+exception~fiber+filesystem+graph+graph_parallel+icu+iostreams+json+locale+log+math~mpi+multithreaded~nowide~numpy~pic+program_options~python+random+regex+serialization+shared+signals~singlethreaded+stacktrace+system~taggedlayout+test+thread+timer~type_erasure~url~versionedlayout+wave build_system=generic context-impl=fcontext cxxstd=11 patches=a440f96,b8569d7 visibility=hidden arch=linux-ubuntu22.04-zen3/r6fmcr7 +## + + +module-whatis {Boost provides free peer-reviewed portable C++ source libraries, emphasizing libraries that work well with the C++ Standard Library.} + +proc ModulesHelp { } { + puts stderr {Name : boost} + puts stderr {Version: 1.84.0} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {Boost provides free peer-reviewed portable C++ source libraries,} + puts stderr {emphasizing libraries that work well with the C++ Standard Library.} + puts stderr {Boost libraries are intended to be widely useful, and usable across a} + puts stderr {broad spectrum of applications. The Boost license encourages both} + puts stderr {commercial and non-commercial use.} +} + +conflict boost + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/boost-1.84.0/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/boost-1.84.0/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/boost-1.84.0/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/boost-1.84.0/include} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/boost-1.84.0/.} +setenv BOOST_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/boost-1.84.0} +setenv BOOST_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/boost-1.84.0-r6fmcr7ffe74ezohudya3lzdvqm6pbl5} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/boost/1.86.0-rudw4us b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/boost/1.86.0-rudw4us new file mode 100644 index 00000000..d1f234aa --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/boost/1.86.0-rudw4us @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:28.026247 +## +## boost@1.86.0%gcc@13.2.0~atomic~charconv~chrono~clanglibcpp~cobalt+container~context~contract~coroutine~date_time~debug+exception~fiber~filesystem~graph~graph_parallel~icu~iostreams~json~locale~log+math~mpi+multithreaded~nowide~numpy~pic~program_options~python+random~regex~serialization+shared~signals~singlethreaded~stacktrace~system~taggedlayout~test~thread~timer~type_erasure~url~versionedlayout~wave build_system=generic cxxstd=11 patches=a440f96 visibility=hidden arch=linux-ubuntu22.04-zen3/rudw4us +## + + +module-whatis {Boost provides free peer-reviewed portable C++ source libraries, emphasizing libraries that work well with the C++ Standard Library.} + +proc ModulesHelp { } { + puts stderr {Name : boost} + puts stderr {Version: 1.86.0} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {Boost provides free peer-reviewed portable C++ source libraries,} + puts stderr {emphasizing libraries that work well with the C++ Standard Library.} + puts stderr {Boost libraries are intended to be widely useful, and usable across a} + puts stderr {broad spectrum of applications. The Boost license encourages both} + puts stderr {commercial and non-commercial use.} +} + +conflict boost + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/boost-1.86.0-rudw4usxwzy5xgftus6vmb452kho3fxn/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/boost-1.86.0-rudw4usxwzy5xgftus6vmb452kho3fxn/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/boost-1.86.0-rudw4usxwzy5xgftus6vmb452kho3fxn/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/boost-1.86.0-rudw4usxwzy5xgftus6vmb452kho3fxn/include} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/boost-1.86.0-rudw4usxwzy5xgftus6vmb452kho3fxn/.} +setenv BOOST_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/boost-1.86.0-rudw4usxwzy5xgftus6vmb452kho3fxn} +setenv BOOST_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/boost-1.86.0-rudw4usxwzy5xgftus6vmb452kho3fxn} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/bzip2/1.0.8 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/bzip2/1.0.8 new file mode 100644 index 00000000..22617f8b --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/bzip2/1.0.8 @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:28.652730 +## +## bzip2@1.0.8%gcc@13.2.0~debug~pic+shared build_system=generic arch=linux-ubuntu22.04-zen3/wz4eegz +## + + +module-whatis {bzip2 is a freely available, patent free high-quality data compressor. It typically compresses files to within 10% to 15% of the best available techniques (the PPM family of statistical compressors), whilst being around twice as fast at compression and six times faster at decompression.} + +proc ModulesHelp { } { + puts stderr {Name : bzip2} + puts stderr {Version: 1.0.8} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {bzip2 is a freely available, patent free high-quality data compressor.} + puts stderr {It typically compresses files to within 10% to 15% of the best available} + puts stderr {techniques (the PPM family of statistical compressors), whilst being} + puts stderr {around twice as fast at compression and six times faster at} + puts stderr {decompression.} +} + +conflict bzip2 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/bzip2-1.0.8/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/bzip2-1.0.8/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/bzip2-1.0.8/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/bzip2-1.0.8/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/bzip2-1.0.8/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/bzip2-1.0.8/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/bzip2-1.0.8/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/bzip2-1.0.8/.} +setenv BZIP2_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/bzip2-1.0.8-wz4eegz6ceqpftqmadi7inc5zosgctzt} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/c-blosc/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/c-blosc/.modulerc new file mode 100644 index 00000000..37b5894a --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/c-blosc/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded c-blosc/1.21.5-mkp55po diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/c-blosc/1.21.5-mkp55po b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/c-blosc/1.21.5-mkp55po new file mode 100644 index 00000000..0a032345 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/c-blosc/1.21.5-mkp55po @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:28.856472 +## +## c-blosc@1.21.5%gcc@13.2.0+avx2~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-zen3/mkp55po +## +## Configure options: -DDEACTIVATE_AVX2=OFF -DPREFER_EXTERNAL_SNAPPY=ON -DPREFER_EXTERNAL_ZLIB=ON -DPREFER_EXTERNAL_ZSTD=ON -DPREFER_EXTERNAL_LZ4=ON -DBUILD_TESTS=OFF -DBUILD_BENCHMARKS=OFF +## + + +module-whatis {Blosc, an extremely fast, multi-threaded, meta-compressor library} + +proc ModulesHelp { } { + puts stderr {Name : c-blosc} + puts stderr {Version: 1.21.5} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {Blosc, an extremely fast, multi-threaded, meta-compressor library} +} + +conflict c-blosc + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/c-blosc-1.21.5-mkp55poxz4nad6k7iinrw6wmxc7ryizq/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/c-blosc-1.21.5-mkp55poxz4nad6k7iinrw6wmxc7ryizq/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/c-blosc-1.21.5-mkp55poxz4nad6k7iinrw6wmxc7ryizq/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/c-blosc-1.21.5-mkp55poxz4nad6k7iinrw6wmxc7ryizq/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/c-blosc-1.21.5-mkp55poxz4nad6k7iinrw6wmxc7ryizq/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/c-blosc-1.21.5-mkp55poxz4nad6k7iinrw6wmxc7ryizq/.} +setenv C_BLOSC_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/c-blosc-1.21.5-mkp55poxz4nad6k7iinrw6wmxc7ryizq} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/cgal/5.4.1 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/cgal/5.4.1 new file mode 100644 index 00000000..1157e70d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/cgal/5.4.1 @@ -0,0 +1,75 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:31.245573 +## +## cgal@5.4.1%gcc@13.2.0~core~demos+eigen~header_only~imageio~ipo+shared build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-zen3/zarrkfl +## +## Configure options: -DBUILD_SHARED_LIBS:BOOL=True -DWITH_CGAL_Core:BOOL=False -DWITH_CGAL_ImageIO:BOOL=False -DWITH_CGAL_Qt5:BOOL=False -DCGAL_HEADER_ONLY:BOOL=False +## + + +module-whatis {The Computational Geometry Algorithms Library (CGAL) is a C++ library that aims to provide easy access to efficient and reliable algorithms in computational geometry. CGAL is used in various areas needing geometric computation, such as geographic information systems, computer aided design, molecular biology, medical imaging, computer graphics, and robotics. } + +proc ModulesHelp { } { + puts stderr {Name : cgal} + puts stderr {Version: 5.4.1} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {The Computational Geometry Algorithms Library (CGAL) is a C++ library} + puts stderr {that aims to provide easy access to efficient and reliable algorithms in} + puts stderr {computational geometry. CGAL is used in various areas needing geometric} + puts stderr {computation, such as geographic information systems, computer aided} + puts stderr {design, molecular biology, medical imaging, computer graphics, and} + puts stderr {robotics.} +} + +conflict cgal + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/cgal-5.4.1/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/cgal-5.4.1/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/cgal-5.4.1/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/cgal-5.4.1/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/cgal-5.4.1/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/cgal-5.4.1/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/cgal-5.4.1/.} +setenv CGAL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/cgal-5.4.1-zarrkflyz5tan46tyeqb3jizyw77wojb} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/curl/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/curl/.modulerc new file mode 100644 index 00000000..ad656f5d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/curl/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded curl/8.10.1-t35nhky diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/curl/8.10.1-t35nhky b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/curl/8.10.1-t35nhky new file mode 100644 index 00000000..2ca249ff --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/curl/8.10.1-t35nhky @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:33.205615 +## +## curl@8.10.1%gcc@13.2.0~gssapi~ldap~libidn2~librtmp~libssh~libssh2+nghttp2 build_system=autotools libs=shared,static tls=openssl arch=linux-ubuntu22.04-zen3/t35nhky +## + + +module-whatis {cURL is an open source command line tool and library for transferring data with URL syntax} + +proc ModulesHelp { } { + puts stderr {Name : curl} + puts stderr {Version: 8.10.1} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {cURL is an open source command line tool and library for transferring} + puts stderr {data with URL syntax} +} + +conflict curl + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/curl-8.10.1-t35nhkyqv45w6apygsfjfkijssqrgjwk/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/curl-8.10.1-t35nhkyqv45w6apygsfjfkijssqrgjwk/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/curl-8.10.1-t35nhkyqv45w6apygsfjfkijssqrgjwk/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/curl-8.10.1-t35nhkyqv45w6apygsfjfkijssqrgjwk/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/curl-8.10.1-t35nhkyqv45w6apygsfjfkijssqrgjwk/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/curl-8.10.1-t35nhkyqv45w6apygsfjfkijssqrgjwk/share/man} +prepend-path ACLOCAL_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/curl-8.10.1-t35nhkyqv45w6apygsfjfkijssqrgjwk/share/aclocal} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/curl-8.10.1-t35nhkyqv45w6apygsfjfkijssqrgjwk/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/curl-8.10.1-t35nhkyqv45w6apygsfjfkijssqrgjwk/.} +setenv CURL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/curl-8.10.1-t35nhkyqv45w6apygsfjfkijssqrgjwk} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/eigen/3.4.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/eigen/3.4.0 new file mode 100644 index 00000000..cd0bad96 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/eigen/3.4.0 @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:33.635370 +## +## eigen@3.4.0%gcc@13.2.0~ipo build_system=cmake build_type=RelWithDebInfo generator=make arch=linux-ubuntu22.04-zen3/xacxrfu +## +## Configure options: -DBUILD_TESTING:STRING=ON +## + + +module-whatis {Eigen is a C++ template library for linear algebra matrices, vectors, numerical solvers, and related algorithms. } + +proc ModulesHelp { } { + puts stderr {Name : eigen} + puts stderr {Version: 3.4.0} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {Eigen is a C++ template library for linear algebra matrices, vectors,} + puts stderr {numerical solvers, and related algorithms.} +} + +conflict eigen + +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/eigen-3.4.0/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/eigen-3.4.0/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/eigen-3.4.0/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/eigen-3.4.0/share/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/eigen-3.4.0/.} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/eigen-3.4.0/include/eigen3} +setenv EIGEN_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/eigen-3.4.0-xacxrfugo53wjdzxy3cyswvhflhqrii7} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/expat/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/expat/.modulerc new file mode 100644 index 00000000..a7462e45 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/expat/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded expat/2.6.4-xfou2yv diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/expat/2.6.4-xfou2yv b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/expat/2.6.4-xfou2yv new file mode 100644 index 00000000..2331f632 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/expat/2.6.4-xfou2yv @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:34.034427 +## +## expat@2.6.4%gcc@13.2.0+libbsd build_system=autotools arch=linux-ubuntu22.04-zen3/xfou2yv +## + + +module-whatis {Expat is an XML parser library written in C.} + +proc ModulesHelp { } { + puts stderr {Name : expat} + puts stderr {Version: 2.6.4} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {Expat is an XML parser library written in C.} +} + +conflict expat + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/expat-2.6.4-xfou2yvufdkg3phfifxc5s5d6lafc3pk/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/expat-2.6.4-xfou2yvufdkg3phfifxc5s5d6lafc3pk/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/expat-2.6.4-xfou2yvufdkg3phfifxc5s5d6lafc3pk/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/expat-2.6.4-xfou2yvufdkg3phfifxc5s5d6lafc3pk/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/expat-2.6.4-xfou2yvufdkg3phfifxc5s5d6lafc3pk/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/expat-2.6.4-xfou2yvufdkg3phfifxc5s5d6lafc3pk/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/expat-2.6.4-xfou2yvufdkg3phfifxc5s5d6lafc3pk/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/expat-2.6.4-xfou2yvufdkg3phfifxc5s5d6lafc3pk/.} +setenv EXPAT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/expat-2.6.4-xfou2yvufdkg3phfifxc5s5d6lafc3pk} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/fftw/3.3.10 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/fftw/3.3.10 new file mode 100644 index 00000000..282a5f24 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/fftw/3.3.10 @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:34.766824 +## +## fftw@3.3.10%gcc@13.2.0~mpi+openmp~pfft_patches+shared build_system=autotools patches=872cff9 precision=double,float arch=linux-ubuntu22.04-zen3/tfdf564 +## + + +module-whatis {FFTW is a C subroutine library for computing the discrete Fourier transform (DFT) in one or more dimensions, of arbitrary input size, and of both real and complex data (as well as of even/odd data, i.e. the discrete cosine/sine transforms or DCT/DST). We believe that FFTW, which is free software, should become the FFT library of choice for most applications.} + +proc ModulesHelp { } { + puts stderr {Name : fftw} + puts stderr {Version: 3.3.10} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {FFTW is a C subroutine library for computing the discrete Fourier} + puts stderr {transform (DFT) in one or more dimensions, of arbitrary input size, and} + puts stderr {of both real and complex data (as well as of even/odd data, i.e. the} + puts stderr {discrete cosine/sine transforms or DCT/DST). We believe that FFTW, which} + puts stderr {is free software, should become the FFT library of choice for most} + puts stderr {applications.} +} + +conflict fftw + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/fftw-3.3.10/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/fftw-3.3.10/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/fftw-3.3.10/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/fftw-3.3.10/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/fftw-3.3.10/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/fftw-3.3.10/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/fftw-3.3.10/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/fftw-3.3.10/.} +setenv FFTW_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/fftw-3.3.10-tfdf564zeftgafxpayawtgqylq3nke4f} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/gdbm/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/gdbm/.modulerc new file mode 100644 index 00000000..c5adab86 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/gdbm/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded gdbm/1.23-dpa6hz2 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/gdbm/1.23-dpa6hz2 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/gdbm/1.23-dpa6hz2 new file mode 100644 index 00000000..ba71cd4f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/gdbm/1.23-dpa6hz2 @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:36.714359 +## +## gdbm@1.23%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-zen3/dpa6hz2 +## +## Configure options: --enable-libgdbm-compat CPPFLAGS=-D_GNU_SOURCE +## + + +module-whatis {GNU dbm (or GDBM, for short) is a library of database functions that use extensible hashing and work similar to the standard UNIX dbm. These routines are provided to a programmer needing to create and manipulate a hashed database.} + +proc ModulesHelp { } { + puts stderr {Name : gdbm} + puts stderr {Version: 1.23} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {GNU dbm (or GDBM, for short) is a library of database functions that use} + puts stderr {extensible hashing and work similar to the standard UNIX dbm. These} + puts stderr {routines are provided to a programmer needing to create and manipulate a} + puts stderr {hashed database.} +} + +conflict gdbm + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/gdbm-1.23-dpa6hz2x2kqyiu7as4rsly7qo3cejwwz/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/gdbm-1.23-dpa6hz2x2kqyiu7as4rsly7qo3cejwwz/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/gdbm-1.23-dpa6hz2x2kqyiu7as4rsly7qo3cejwwz/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/gdbm-1.23-dpa6hz2x2kqyiu7as4rsly7qo3cejwwz/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/gdbm-1.23-dpa6hz2x2kqyiu7as4rsly7qo3cejwwz/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/gdbm-1.23-dpa6hz2x2kqyiu7as4rsly7qo3cejwwz/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/gdbm-1.23-dpa6hz2x2kqyiu7as4rsly7qo3cejwwz/.} +setenv GDBM_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/gdbm-1.23-dpa6hz2x2kqyiu7as4rsly7qo3cejwwz} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/gettext/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/gettext/.modulerc new file mode 100644 index 00000000..41a5f35a --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/gettext/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded gettext/0.22.5-v4szz4y diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/gettext/0.22.5-v4szz4y b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/gettext/0.22.5-v4szz4y new file mode 100644 index 00000000..23510ea0 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/gettext/0.22.5-v4szz4y @@ -0,0 +1,78 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:37.521017 +## +## gettext@0.22.5%gcc@13.2.0+bzip2+curses+git~libunistring+libxml2+pic+shared+tar+xz build_system=autotools arch=linux-ubuntu22.04-zen3/v4szz4y +## +## Configure options: --disable-java --disable-csharp --with-included-glib --with-included-gettext --with-included-libcroco --without-emacs --with-lispdir=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/gettext-0.22.5-v4szz4ygfb3p5jkjflgjndkgoswzkmrt/share/emacs/site-lisp/gettext --without-cvs --enable-shared --with-libiconv-prefix=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libiconv-1.17-wgio5ewy4elzhzv3pnxy7gzyoowgxmp6 --with-ncurses-prefix=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/ncurses-6.5-j3qv5kkifxgwhngmeenblsyaaxjjzbug --with-libxml2-prefix=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libxml2-2.13.4-ekrdz3z3eqpck3akanrhasjhmhe3opjz --with-included-libunistring --with-pic +## + + +module-whatis {GNU internationalization (i18n) and localization (l10n) library.} + +proc ModulesHelp { } { + puts stderr {Name : gettext} + puts stderr {Version: 0.22.5} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {GNU internationalization (i18n) and localization (l10n) library.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load tar/1.34-5wzmjjt + module load xz/5.4.6-a24pazn +} else { + depends-on tar/1.34-5wzmjjt + depends-on xz/5.4.6-a24pazn +} +conflict gettext + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/gettext-0.22.5-v4szz4ygfb3p5jkjflgjndkgoswzkmrt/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/gettext-0.22.5-v4szz4ygfb3p5jkjflgjndkgoswzkmrt/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/gettext-0.22.5-v4szz4ygfb3p5jkjflgjndkgoswzkmrt/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/gettext-0.22.5-v4szz4ygfb3p5jkjflgjndkgoswzkmrt/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/gettext-0.22.5-v4szz4ygfb3p5jkjflgjndkgoswzkmrt/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/gettext-0.22.5-v4szz4ygfb3p5jkjflgjndkgoswzkmrt/share/man} +prepend-path ACLOCAL_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/gettext-0.22.5-v4szz4ygfb3p5jkjflgjndkgoswzkmrt/share/aclocal} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/gettext-0.22.5-v4szz4ygfb3p5jkjflgjndkgoswzkmrt/.} +setenv GETTEXT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/gettext-0.22.5-v4szz4ygfb3p5jkjflgjndkgoswzkmrt} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/gmp/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/gmp/.modulerc new file mode 100644 index 00000000..a5aff9a4 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/gmp/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded gmp/6.3.0-uy37usl diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/gmp/6.2.1 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/gmp/6.2.1 new file mode 100644 index 00000000..11e9f4bf --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/gmp/6.2.1 @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:38.306342 +## +## gmp@6.2.1%gcc@13.2.0+cxx build_system=autotools libs=shared,static patches=69ad2e2 arch=linux-ubuntu22.04-zen3/mrqed3n +## +## Configure options: --enable-cxx --enable-shared --enable-static --with-pic +## + + +module-whatis {GMP is a free library for arbitrary precision arithmetic, operating on signed integers, rational numbers, and floating-point numbers.} + +proc ModulesHelp { } { + puts stderr {Name : gmp} + puts stderr {Version: 6.2.1} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {GMP is a free library for arbitrary precision arithmetic, operating on} + puts stderr {signed integers, rational numbers, and floating-point numbers.} +} + +conflict gmp + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/gmp-6.2.1/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/gmp-6.2.1/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/gmp-6.2.1/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/gmp-6.2.1/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/gmp-6.2.1/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/gmp-6.2.1/.} +setenv GMP_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/gmp-6.2.1-mrqed3nwlyvfukoqqy35fdhuhnxyuohk} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/gmp/6.3.0-uy37usl b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/gmp/6.3.0-uy37usl new file mode 100644 index 00000000..99d6f362 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/gmp/6.3.0-uy37usl @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:38.345594 +## +## gmp@6.3.0%gcc@13.2.0+cxx build_system=autotools libs=shared,static arch=linux-ubuntu22.04-zen3/uy37usl +## +## Configure options: --enable-cxx --enable-shared --enable-static --with-pic +## + + +module-whatis {GMP is a free library for arbitrary precision arithmetic, operating on signed integers, rational numbers, and floating-point numbers.} + +proc ModulesHelp { } { + puts stderr {Name : gmp} + puts stderr {Version: 6.3.0} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {GMP is a free library for arbitrary precision arithmetic, operating on} + puts stderr {signed integers, rational numbers, and floating-point numbers.} +} + +conflict gmp + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/gmp-6.3.0-uy37uslf4y4gpoxzgdjbpt5vwxipb5ra/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/gmp-6.3.0-uy37uslf4y4gpoxzgdjbpt5vwxipb5ra/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/gmp-6.3.0-uy37uslf4y4gpoxzgdjbpt5vwxipb5ra/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/gmp-6.3.0-uy37uslf4y4gpoxzgdjbpt5vwxipb5ra/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/gmp-6.3.0-uy37uslf4y4gpoxzgdjbpt5vwxipb5ra/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/gmp-6.3.0-uy37uslf4y4gpoxzgdjbpt5vwxipb5ra/.} +setenv GMP_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/gmp-6.3.0-uy37uslf4y4gpoxzgdjbpt5vwxipb5ra} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/gsl/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/gsl/.modulerc new file mode 100644 index 00000000..6f7854ab --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/gsl/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded gsl/2.8-sxn4g2v diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/gsl/2.7.1 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/gsl/2.7.1 new file mode 100644 index 00000000..85c06dbd --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/gsl/2.7.1 @@ -0,0 +1,77 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:38.876553 +## +## gsl@2.7.1%gcc@13.2.0~external-cblas+pic+shared build_system=autotools arch=linux-ubuntu22.04-zen3/cjlsegz +## +## Configure options: --enable-shared --with-pic +## + + +module-whatis {The GNU Scientific Library (GSL) is a numerical library for C and C++ programmers. It is free software under the GNU General Public License. The library provides a wide range of mathematical routines such as random number generators, special functions and least-squares fitting. There are over 1000 functions in total with an extensive test suite.} + +proc ModulesHelp { } { + puts stderr {Name : gsl} + puts stderr {Version: 2.7.1} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {The GNU Scientific Library (GSL) is a numerical library for C and C++} + puts stderr {programmers. It is free software under the GNU General Public License.} + puts stderr {The library provides a wide range of mathematical routines such as} + puts stderr {random number generators, special functions and least-squares fitting.} + puts stderr {There are over 1000 functions in total with an extensive test suite.} +} + +conflict gsl + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/gsl-2.7.1/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/gsl-2.7.1/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/gsl-2.7.1/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/gsl-2.7.1/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/gsl-2.7.1/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/gsl-2.7.1/share/man} +prepend-path ACLOCAL_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/gsl-2.7.1/share/aclocal} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/gsl-2.7.1/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/gsl-2.7.1/.} +setenv GSL_ROOT_DIR {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/gsl-2.7.1} +setenv GSL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/gsl-2.7.1-cjlsegzfez3hk5vkbmew5w2s6yzq2dtz} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/gsl/2.8-sxn4g2v b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/gsl/2.8-sxn4g2v new file mode 100644 index 00000000..484e3b8d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/gsl/2.8-sxn4g2v @@ -0,0 +1,77 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:38.928243 +## +## gsl@2.8%gcc@13.2.0~external-cblas+pic+shared build_system=autotools arch=linux-ubuntu22.04-zen3/sxn4g2v +## +## Configure options: --enable-shared --with-pic +## + + +module-whatis {The GNU Scientific Library (GSL) is a numerical library for C and C++ programmers. It is free software under the GNU General Public License. The library provides a wide range of mathematical routines such as random number generators, special functions and least-squares fitting. There are over 1000 functions in total with an extensive test suite.} + +proc ModulesHelp { } { + puts stderr {Name : gsl} + puts stderr {Version: 2.8} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {The GNU Scientific Library (GSL) is a numerical library for C and C++} + puts stderr {programmers. It is free software under the GNU General Public License.} + puts stderr {The library provides a wide range of mathematical routines such as} + puts stderr {random number generators, special functions and least-squares fitting.} + puts stderr {There are over 1000 functions in total with an extensive test suite.} +} + +conflict gsl + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/gsl-2.8-sxn4g2vygpeeqp6ahytdidouwyj3d2hu/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/gsl-2.8-sxn4g2vygpeeqp6ahytdidouwyj3d2hu/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/gsl-2.8-sxn4g2vygpeeqp6ahytdidouwyj3d2hu/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/gsl-2.8-sxn4g2vygpeeqp6ahytdidouwyj3d2hu/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/gsl-2.8-sxn4g2vygpeeqp6ahytdidouwyj3d2hu/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/gsl-2.8-sxn4g2vygpeeqp6ahytdidouwyj3d2hu/share/man} +prepend-path ACLOCAL_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/gsl-2.8-sxn4g2vygpeeqp6ahytdidouwyj3d2hu/share/aclocal} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/gsl-2.8-sxn4g2vygpeeqp6ahytdidouwyj3d2hu/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/gsl-2.8-sxn4g2vygpeeqp6ahytdidouwyj3d2hu/.} +setenv GSL_ROOT_DIR {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/gsl-2.8-sxn4g2vygpeeqp6ahytdidouwyj3d2hu} +setenv GSL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/gsl-2.8-sxn4g2vygpeeqp6ahytdidouwyj3d2hu} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/h5cpp/1.10.4-6 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/h5cpp/1.10.4-6 new file mode 100644 index 00000000..69a3f446 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/h5cpp/1.10.4-6 @@ -0,0 +1,67 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:39.052135 +## +## h5cpp@1.10.4-6%gcc@13.2.0~ipo~mpi build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-zen3/e2icx6r +## +## Configure options: -DHDF5_INCLUDE_DIRS=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/hdf5-1.14.5-fduhmc6jjpeyzoz5aqabwd7avqe2fq3j/include -DHDF5_LIBRARIES=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/hdf5-1.14.5-fduhmc6jjpeyzoz5aqabwd7avqe2fq3j/lib -DH5CPP_BUILD_TESTS=OFF +## + + +module-whatis {Easy to use HDF5 C++ templates for Serial and Parallel HDF5} + +proc ModulesHelp { } { + puts stderr {Name : h5cpp} + puts stderr {Version: 1.10.4-6} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {Easy to use HDF5 C++ templates for Serial and Parallel HDF5} +} + +conflict h5cpp + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/h5cpp-1.10.4-6/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/h5cpp-1.10.4-6/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/h5cpp-1.10.4-6/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/h5cpp-1.10.4-6/include} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/h5cpp-1.10.4-6/.} +setenv H5CPP_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/h5cpp-1.10.4-6-e2icx6rzfwpq2zuekus7ljc7lqbyo4gv} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/h5z-zfp/1.1.1 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/h5z-zfp/1.1.1 new file mode 100644 index 00000000..fff9b5d0 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/h5z-zfp/1.1.1 @@ -0,0 +1,66 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:39.227774 +## +## h5z-zfp@1.1.1%gcc@13.2.0+fortran~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-zen3/22h3yn6 +## + + +module-whatis {A highly flexible floating point and integer compression plugin for the HDF5 library using ZFP compression.} + +proc ModulesHelp { } { + puts stderr {Name : h5z-zfp} + puts stderr {Version: 1.1.1} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {A highly flexible floating point and integer compression plugin for the} + puts stderr {HDF5 library using ZFP compression.} +} + +conflict h5z-zfp + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/h5z-zfp-1.1.1/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/h5z-zfp-1.1.1/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/h5z-zfp-1.1.1/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/h5z-zfp-1.1.1/include} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/h5z-zfp-1.1.1/.} +setenv H5Z_ZFP_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/h5z-zfp-1.1.1-22h3yn6sryz3crvhnriwbox3f4m5co7i} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/hdf5/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/hdf5/.modulerc new file mode 100644 index 00000000..bb711499 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/hdf5/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded hdf5/1.14.5-fduhmc6 +module-hide --soft --hidden-loaded hdf5/1.14.5-o74yz7p diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/hdf5/1.14.3 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/hdf5/1.14.3 new file mode 100644 index 00000000..ee375fdf --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/hdf5/1.14.3 @@ -0,0 +1,77 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:39.410349 +## +## hdf5@1.14.3%gcc@13.2.0~cxx~fortran~hl~ipo~java~map~mpi+shared~szip~threadsafe+tools api=default build_system=cmake build_type=Release generator=make patches=82088c8,f42732a arch=linux-ubuntu22.04-zen3/jm5r7pb +## +## Configure options: -DALLOW_UNSUPPORTED:BOOL=ON -DHDF5_BUILD_EXAMPLES:BOOL=OFF -DBUILD_TESTING:BOOL=OFF -DHDF5_ENABLE_MAP_API:BOOL=OFF -DHDF5_ENABLE_Z_LIB_SUPPORT:BOOL=ON -DHDF5_ENABLE_SZIP_SUPPORT:BOOL=OFF -DHDF5_ENABLE_SZIP_ENCODING:BOOL=OFF -DBUILD_SHARED_LIBS:BOOL=ON -DONLY_SHARED_LIBS:BOOL=OFF -DHDF5_ENABLE_PARALLEL:BOOL=OFF -DHDF5_ENABLE_THREADSAFE:BOOL=OFF -DHDF5_BUILD_HL_LIB:BOOL=OFF -DHDF5_BUILD_CPP_LIB:BOOL=OFF -DHDF5_BUILD_FORTRAN:BOOL=OFF -DHDF5_BUILD_JAVA:BOOL=OFF -DHDF5_BUILD_TOOLS:BOOL=ON +## + + +module-whatis {HDF5 is a data model, library, and file format for storing and managing data. It supports an unlimited variety of datatypes, and is designed for flexible and efficient I/O and for high volume and complex data. } + +proc ModulesHelp { } { + puts stderr {Name : hdf5} + puts stderr {Version: 1.14.3} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {HDF5 is a data model, library, and file format for storing and managing} + puts stderr {data. It supports an unlimited variety of datatypes, and is designed for} + puts stderr {flexible and efficient I/O and for high volume and complex data.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load pkgconf/2.2.0-xe2c2ii +} else { + depends-on pkgconf/2.2.0-xe2c2ii +} +conflict hdf5 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/hdf5-1.14.3/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/hdf5-1.14.3/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/hdf5-1.14.3/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/hdf5-1.14.3/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/hdf5-1.14.3/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/hdf5-1.14.3/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/hdf5-1.14.3/.} +append-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/hdf5-1.14.3/lib} +setenv HDF5_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/hdf5-1.14.3-jm5r7pbj66o4jopojcad4ioa2ryphczt} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/hdf5/1.14.5-fduhmc6 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/hdf5/1.14.5-fduhmc6 new file mode 100644 index 00000000..52be0ca1 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/hdf5/1.14.5-fduhmc6 @@ -0,0 +1,77 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:39.504385 +## +## hdf5@1.14.5%gcc@13.2.0~cxx~fortran+hl~ipo~java~map~mpi+shared~szip~threadsafe+tools api=default build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-zen3/fduhmc6 +## +## Configure options: -DALLOW_UNSUPPORTED:BOOL=ON -DHDF5_BUILD_EXAMPLES:BOOL=OFF -DBUILD_TESTING:BOOL=OFF -DHDF5_ENABLE_MAP_API:BOOL=OFF -DHDF5_ENABLE_Z_LIB_SUPPORT:BOOL=ON -DHDF5_ENABLE_SZIP_SUPPORT:BOOL=OFF -DHDF5_ENABLE_SZIP_ENCODING:BOOL=OFF -DBUILD_SHARED_LIBS:BOOL=ON -DONLY_SHARED_LIBS:BOOL=OFF -DHDF5_ENABLE_PARALLEL:BOOL=OFF -DHDF5_ENABLE_THREADSAFE:BOOL=OFF -DHDF5_BUILD_HL_LIB:BOOL=ON -DHDF5_BUILD_CPP_LIB:BOOL=OFF -DHDF5_BUILD_FORTRAN:BOOL=OFF -DHDF5_BUILD_JAVA:BOOL=OFF -DHDF5_BUILD_TOOLS:BOOL=ON +## + + +module-whatis {HDF5 is a data model, library, and file format for storing and managing data. It supports an unlimited variety of datatypes, and is designed for flexible and efficient I/O and for high volume and complex data. } + +proc ModulesHelp { } { + puts stderr {Name : hdf5} + puts stderr {Version: 1.14.5} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {HDF5 is a data model, library, and file format for storing and managing} + puts stderr {data. It supports an unlimited variety of datatypes, and is designed for} + puts stderr {flexible and efficient I/O and for high volume and complex data.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load pkgconf/2.2.0-xe2c2ii +} else { + depends-on pkgconf/2.2.0-xe2c2ii +} +conflict hdf5 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/hdf5-1.14.5-fduhmc6jjpeyzoz5aqabwd7avqe2fq3j/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/hdf5-1.14.5-fduhmc6jjpeyzoz5aqabwd7avqe2fq3j/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/hdf5-1.14.5-fduhmc6jjpeyzoz5aqabwd7avqe2fq3j/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/hdf5-1.14.5-fduhmc6jjpeyzoz5aqabwd7avqe2fq3j/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/hdf5-1.14.5-fduhmc6jjpeyzoz5aqabwd7avqe2fq3j/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/hdf5-1.14.5-fduhmc6jjpeyzoz5aqabwd7avqe2fq3j/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/hdf5-1.14.5-fduhmc6jjpeyzoz5aqabwd7avqe2fq3j/.} +append-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/hdf5-1.14.5-fduhmc6jjpeyzoz5aqabwd7avqe2fq3j/lib} +setenv HDF5_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/hdf5-1.14.5-fduhmc6jjpeyzoz5aqabwd7avqe2fq3j} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/hdf5/1.14.5-o74yz7p b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/hdf5/1.14.5-o74yz7p new file mode 100644 index 00000000..780ce8e1 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/hdf5/1.14.5-o74yz7p @@ -0,0 +1,77 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:39.545039 +## +## hdf5@1.14.5%gcc@13.2.0~cxx+fortran~hl~ipo~java~map~mpi+shared~szip~threadsafe+tools api=default build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-zen3/o74yz7p +## +## Configure options: -DALLOW_UNSUPPORTED:BOOL=ON -DHDF5_BUILD_EXAMPLES:BOOL=OFF -DBUILD_TESTING:BOOL=OFF -DHDF5_ENABLE_MAP_API:BOOL=OFF -DHDF5_ENABLE_Z_LIB_SUPPORT:BOOL=ON -DHDF5_ENABLE_SZIP_SUPPORT:BOOL=OFF -DHDF5_ENABLE_SZIP_ENCODING:BOOL=OFF -DBUILD_SHARED_LIBS:BOOL=ON -DONLY_SHARED_LIBS:BOOL=OFF -DHDF5_ENABLE_PARALLEL:BOOL=OFF -DHDF5_ENABLE_THREADSAFE:BOOL=OFF -DHDF5_BUILD_HL_LIB:BOOL=OFF -DHDF5_BUILD_CPP_LIB:BOOL=OFF -DHDF5_BUILD_FORTRAN:BOOL=ON -DHDF5_BUILD_JAVA:BOOL=OFF -DHDF5_BUILD_TOOLS:BOOL=ON +## + + +module-whatis {HDF5 is a data model, library, and file format for storing and managing data. It supports an unlimited variety of datatypes, and is designed for flexible and efficient I/O and for high volume and complex data. } + +proc ModulesHelp { } { + puts stderr {Name : hdf5} + puts stderr {Version: 1.14.5} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {HDF5 is a data model, library, and file format for storing and managing} + puts stderr {data. It supports an unlimited variety of datatypes, and is designed for} + puts stderr {flexible and efficient I/O and for high volume and complex data.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load pkgconf/2.2.0-xe2c2ii +} else { + depends-on pkgconf/2.2.0-xe2c2ii +} +conflict hdf5 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/hdf5-1.14.5-o74yz7pnb3ys65hhjix7rpkwysgo22gz/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/hdf5-1.14.5-o74yz7pnb3ys65hhjix7rpkwysgo22gz/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/hdf5-1.14.5-o74yz7pnb3ys65hhjix7rpkwysgo22gz/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/hdf5-1.14.5-o74yz7pnb3ys65hhjix7rpkwysgo22gz/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/hdf5-1.14.5-o74yz7pnb3ys65hhjix7rpkwysgo22gz/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/hdf5-1.14.5-o74yz7pnb3ys65hhjix7rpkwysgo22gz/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/hdf5-1.14.5-o74yz7pnb3ys65hhjix7rpkwysgo22gz/.} +append-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/hdf5-1.14.5-o74yz7pnb3ys65hhjix7rpkwysgo22gz/lib} +setenv HDF5_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/hdf5-1.14.5-o74yz7pnb3ys65hhjix7rpkwysgo22gz} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/icu4c/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/icu4c/.modulerc new file mode 100644 index 00000000..35298bd4 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/icu4c/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded icu4c/74.2-ugz2uhs diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/icu4c/74.2-ugz2uhs b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/icu4c/74.2-ugz2uhs new file mode 100644 index 00000000..65f54ecc --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/icu4c/74.2-ugz2uhs @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:39.922870 +## +## icu4c@74.2%gcc@13.2.0 build_system=autotools cxxstd=11 arch=linux-ubuntu22.04-zen3/ugz2uhs +## + + +module-whatis {ICU is a mature, widely used set of C/C++ and Java libraries providing Unicode and Globalization support for software applications. ICU4C is the C/C++ interface.} + +proc ModulesHelp { } { + puts stderr {Name : icu4c} + puts stderr {Version: 74.2} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {ICU is a mature, widely used set of C/C++ and Java libraries providing} + puts stderr {Unicode and Globalization support for software applications. ICU4C is} + puts stderr {the C/C++ interface.} +} + +conflict icu4c + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/icu4c-74.2-ugz2uhss4qdviophbfyknayvtwkoph3k/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/icu4c-74.2-ugz2uhss4qdviophbfyknayvtwkoph3k/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/icu4c-74.2-ugz2uhss4qdviophbfyknayvtwkoph3k/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/icu4c-74.2-ugz2uhss4qdviophbfyknayvtwkoph3k/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/icu4c-74.2-ugz2uhss4qdviophbfyknayvtwkoph3k/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/icu4c-74.2-ugz2uhss4qdviophbfyknayvtwkoph3k/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/icu4c-74.2-ugz2uhss4qdviophbfyknayvtwkoph3k/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/icu4c-74.2-ugz2uhss4qdviophbfyknayvtwkoph3k/.} +setenv ICU4C_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/icu4c-74.2-ugz2uhss4qdviophbfyknayvtwkoph3k} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/intel-oneapi-mkl/2022.2.1 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/intel-oneapi-mkl/2022.2.1 new file mode 100644 index 00000000..afd0bf5d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/intel-oneapi-mkl/2022.2.1 @@ -0,0 +1,79 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:40.762825 +## +## intel-oneapi-mkl@2022.2.1%gcc@13.2.0~cluster+envmods~gfortran~ilp64+shared build_system=generic mpi_family=none threads=none arch=linux-ubuntu22.04-zen3/s5vb4uj +## + + +module-whatis {Intel oneAPI Math Kernel Library (Intel oneMKL; formerly Intel Math Kernel Library or Intel MKL), is a library of optimized math routines for science, engineering, and financial applications. Core math functions include BLAS, LAPACK, ScaLAPACK, sparse solvers, fast Fourier transforms, and vector math.} + +proc ModulesHelp { } { + puts stderr {Name : intel-oneapi-mkl} + puts stderr {Version: 2022.2.1} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {Intel oneAPI Math Kernel Library (Intel oneMKL; formerly Intel Math} + puts stderr {Kernel Library or Intel MKL), is a library of optimized math routines} + puts stderr {for science, engineering, and financial applications. Core math} + puts stderr {functions include BLAS, LAPACK, ScaLAPACK, sparse solvers, fast Fourier} + puts stderr {transforms, and vector math. LICENSE INFORMATION: By downloading and} + puts stderr {using this software, you agree to the terms and conditions of the} + puts stderr {software license agreements at https://intel.ly/393CijO.} +} + +conflict intel-oneapi-mkl + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/intel-oneapi-mkl-2022.2.1/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/intel-oneapi-mkl-2022.2.1/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/intel-oneapi-mkl-2022.2.1/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/intel-oneapi-mkl-2022.2.1/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/intel-oneapi-mkl-2022.2.1/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/intel-oneapi-mkl-2022.2.1/.} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/intel-oneapi-mkl-2022.2.1/mkl/2022.2.1/include} +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/intel-oneapi-mkl-2022.2.1/mkl/2022.2.1/lib/intel64} +prepend-path LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/intel-oneapi-mkl-2022.2.1/mkl/2022.2.1/lib/intel64} +setenv MKLROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/intel-oneapi-mkl-2022.2.1/mkl/2022.2.1} +prepend-path NLSPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/intel-oneapi-mkl-2022.2.1/mkl/2022.2.1/lib/intel64/locale/%l_%t/%N} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/intel-oneapi-mkl-2022.2.1/mkl/2022.2.1/lib/pkgconfig} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/intel-oneapi-mkl-2022.2.1/mkl/2022.2.1/bin/intel64} +setenv INTEL_ONEAPI_MKL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/intel-oneapi-mkl-2022.2.1-s5vb4uj2qf5jz5r7x2mtxfpgwjbtgzio} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/intel-oneapi-mkl/2023.2.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/intel-oneapi-mkl/2023.2.0 new file mode 100644 index 00000000..800de22e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/intel-oneapi-mkl/2023.2.0 @@ -0,0 +1,79 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:41.177146 +## +## intel-oneapi-mkl@2023.2.0%gcc@13.2.0~cluster+envmods~gfortran~ilp64+shared build_system=generic mpi_family=none threads=none arch=linux-ubuntu22.04-zen3/ghjwadj +## + + +module-whatis {Intel oneAPI Math Kernel Library (Intel oneMKL; formerly Intel Math Kernel Library or Intel MKL), is a library of optimized math routines for science, engineering, and financial applications. Core math functions include BLAS, LAPACK, ScaLAPACK, sparse solvers, fast Fourier transforms, and vector math.} + +proc ModulesHelp { } { + puts stderr {Name : intel-oneapi-mkl} + puts stderr {Version: 2023.2.0} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {Intel oneAPI Math Kernel Library (Intel oneMKL; formerly Intel Math} + puts stderr {Kernel Library or Intel MKL), is a library of optimized math routines} + puts stderr {for science, engineering, and financial applications. Core math} + puts stderr {functions include BLAS, LAPACK, ScaLAPACK, sparse solvers, fast Fourier} + puts stderr {transforms, and vector math. LICENSE INFORMATION: By downloading and} + puts stderr {using this software, you agree to the terms and conditions of the} + puts stderr {software license agreements at https://intel.ly/393CijO.} +} + +conflict intel-oneapi-mkl + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/intel-oneapi-mkl-2023.2.0/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/intel-oneapi-mkl-2023.2.0/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/intel-oneapi-mkl-2023.2.0/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/intel-oneapi-mkl-2023.2.0/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/intel-oneapi-mkl-2023.2.0/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/intel-oneapi-mkl-2023.2.0/.} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/intel-oneapi-mkl-2023.2.0/mkl/2023.2.0/include} +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/intel-oneapi-mkl-2023.2.0/mkl/2023.2.0/lib/intel64} +prepend-path LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/intel-oneapi-mkl-2023.2.0/mkl/2023.2.0/lib/intel64} +setenv MKLROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/intel-oneapi-mkl-2023.2.0/mkl/2023.2.0} +prepend-path NLSPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/intel-oneapi-mkl-2023.2.0/mkl/2023.2.0/lib/intel64/locale/%l_%t/%N} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/intel-oneapi-mkl-2023.2.0/mkl/2023.2.0/lib/pkgconfig} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/intel-oneapi-mkl-2023.2.0/mkl/2023.2.0/bin/intel64} +setenv INTEL_ONEAPI_MKL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/intel-oneapi-mkl-2023.2.0-ghjwadjtbzzt4zxd572i3dor6kmtme4x} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/intel-oneapi-mkl/2024.0.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/intel-oneapi-mkl/2024.0.0 new file mode 100644 index 00000000..2cee790d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/intel-oneapi-mkl/2024.0.0 @@ -0,0 +1,75 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:41.590045 +## +## intel-oneapi-mkl@2024.0.0%gcc@13.2.0~cluster+envmods~gfortran~ilp64+shared build_system=generic mpi_family=none threads=none arch=linux-ubuntu22.04-zen3/t42dulp +## + + +module-whatis {Intel oneAPI Math Kernel Library (Intel oneMKL; formerly Intel Math Kernel Library or Intel MKL), is a library of optimized math routines for science, engineering, and financial applications. Core math functions include BLAS, LAPACK, ScaLAPACK, sparse solvers, fast Fourier transforms, and vector math.} + +proc ModulesHelp { } { + puts stderr {Name : intel-oneapi-mkl} + puts stderr {Version: 2024.0.0} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {Intel oneAPI Math Kernel Library (Intel oneMKL; formerly Intel Math} + puts stderr {Kernel Library or Intel MKL), is a library of optimized math routines} + puts stderr {for science, engineering, and financial applications. Core math} + puts stderr {functions include BLAS, LAPACK, ScaLAPACK, sparse solvers, fast Fourier} + puts stderr {transforms, and vector math. LICENSE INFORMATION: By downloading and} + puts stderr {using this software, you agree to the terms and conditions of the} + puts stderr {software license agreements at https://intel.ly/393CijO.} +} + +conflict intel-oneapi-mkl + +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/intel-oneapi-mkl-2024.0.0/.} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/intel-oneapi-mkl-2024.0.0/mkl/2024.0/lib/cmake:} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/intel-oneapi-mkl-2024.0.0/mkl/2024.0/include:} +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/intel-oneapi-mkl-2024.0.0/mkl/2024.0/lib:} +prepend-path LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/intel-oneapi-mkl-2024.0.0/mkl/2024.0/lib/:} +setenv MKLROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/intel-oneapi-mkl-2024.0.0/mkl/2024.0} +prepend-path NLSPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/intel-oneapi-mkl-2024.0.0/mkl/2024.0/share/locale/%l_%t/%N:} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/intel-oneapi-mkl-2024.0.0/mkl/2024.0/lib/pkgconfig:} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/intel-oneapi-mkl-2024.0.0/mkl/2024.0/bin/} +setenv INTEL_ONEAPI_MKL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/intel-oneapi-mkl-2024.0.0-t42dulpna2evdwxivulatdd5rilwzx7y} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/intel-oneapi-tbb/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/intel-oneapi-tbb/.modulerc new file mode 100644 index 00000000..2edd8067 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/intel-oneapi-tbb/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded intel-oneapi-tbb/2022.0.0-ootxdet diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/intel-oneapi-tbb/2021.11.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/intel-oneapi-tbb/2021.11.0 new file mode 100644 index 00000000..7a02e53f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/intel-oneapi-tbb/2021.11.0 @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:42.030341 +## +## intel-oneapi-tbb@2021.11.0%gcc@13.2.0+envmods build_system=generic arch=linux-ubuntu22.04-zen3/cvfkfhh +## + + +module-whatis {Intel oneAPI Threading Building Blocks (oneTBB) is a flexible performance library that simplifies the work of adding parallelism to complex applications across accelerated architectures, even if you are not a threading expert.} + +proc ModulesHelp { } { + puts stderr {Name : intel-oneapi-tbb} + puts stderr {Version: 2021.11.0} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {Intel oneAPI Threading Building Blocks (oneTBB) is a flexible} + puts stderr {performance library that simplifies the work of adding parallelism to} + puts stderr {complex applications across accelerated architectures, even if you are} + puts stderr {not a threading expert. LICENSE INFORMATION: By downloading and using} + puts stderr {this software, you agree to the terms and conditions of the software} + puts stderr {license agreements at https://intel.ly/393CijO.} +} + +conflict intel-oneapi-tbb + +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/intel-oneapi-tbb-2021.11.0/.} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/intel-oneapi-tbb-2021.11.0/tbb/2021.11/env/..} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/intel-oneapi-tbb-2021.11.0/tbb/2021.11/env/../include} +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/intel-oneapi-tbb-2021.11.0/tbb/2021.11/env/../lib/intel64/gcc4.8} +prepend-path LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/intel-oneapi-tbb-2021.11.0/tbb/2021.11/env/../lib/intel64/gcc4.8} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/intel-oneapi-tbb-2021.11.0/tbb/2021.11/env/../lib/pkgconfig} +setenv TBBROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/intel-oneapi-tbb-2021.11.0/tbb/2021.11/env/..} +setenv INTEL_ONEAPI_TBB_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/intel-oneapi-tbb-2021.11.0-cvfkfhhh2d7s75ynsea4akpoa7umnpyn} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/intel-oneapi-tbb/2022.0.0-ootxdet b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/intel-oneapi-tbb/2022.0.0-ootxdet new file mode 100644 index 00000000..294b737d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/intel-oneapi-tbb/2022.0.0-ootxdet @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:42.922167 +## +## intel-oneapi-tbb@2022.0.0%gcc@13.2.0+envmods build_system=generic arch=linux-ubuntu22.04-zen3/ootxdet +## + + +module-whatis {Intel oneAPI Threading Building Blocks (oneTBB) is a flexible performance library that simplifies the work of adding parallelism to complex applications across accelerated architectures, even if you are not a threading expert.} + +proc ModulesHelp { } { + puts stderr {Name : intel-oneapi-tbb} + puts stderr {Version: 2022.0.0} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {Intel oneAPI Threading Building Blocks (oneTBB) is a flexible} + puts stderr {performance library that simplifies the work of adding parallelism to} + puts stderr {complex applications across accelerated architectures, even if you are} + puts stderr {not a threading expert. LICENSE INFORMATION: By downloading and using} + puts stderr {this software, you agree to the terms and conditions of the software} + puts stderr {license agreements at https://intel.ly/393CijO.} +} + +conflict intel-oneapi-tbb + +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/intel-oneapi-tbb-2022.0.0-ootxdetcocpprvpavgt5oo2vypzkmdcm/.} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/intel-oneapi-tbb-2022.0.0-ootxdetcocpprvpavgt5oo2vypzkmdcm/tbb/2022.0/env/..} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/intel-oneapi-tbb-2022.0.0-ootxdetcocpprvpavgt5oo2vypzkmdcm/tbb/2022.0/env/../include} +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/intel-oneapi-tbb-2022.0.0-ootxdetcocpprvpavgt5oo2vypzkmdcm/tbb/2022.0/env/../lib/intel64/gcc4.8} +prepend-path LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/intel-oneapi-tbb-2022.0.0-ootxdetcocpprvpavgt5oo2vypzkmdcm/tbb/2022.0/env/../lib/intel64/gcc4.8} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/intel-oneapi-tbb-2022.0.0-ootxdetcocpprvpavgt5oo2vypzkmdcm/tbb/2022.0/env/../lib/pkgconfig} +setenv TBBROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/intel-oneapi-tbb-2022.0.0-ootxdetcocpprvpavgt5oo2vypzkmdcm/tbb/2022.0/env/..} +setenv INTEL_ONEAPI_TBB_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/intel-oneapi-tbb-2022.0.0-ootxdetcocpprvpavgt5oo2vypzkmdcm} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/krb5/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/krb5/.modulerc new file mode 100644 index 00000000..7f6c8fde --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/krb5/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded krb5/1.21.3-yavdoml diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/krb5/1.21.3-yavdoml b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/krb5/1.21.3-yavdoml new file mode 100644 index 00000000..42c25ff7 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/krb5/1.21.3-yavdoml @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:43.769853 +## +## krb5@1.21.3%gcc@13.2.0+shared build_system=autotools arch=linux-ubuntu22.04-zen3/yavdoml +## +## Configure options: --without-system-verto --without-keyutils --disable-static CFLAGS=-fcommon +## + + +module-whatis {Network authentication protocol} + +proc ModulesHelp { } { + puts stderr {Name : krb5} + puts stderr {Version: 1.21.3} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {Network authentication protocol} +} + +conflict krb5 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/krb5-1.21.3-yavdomlb6ihulsogakp254hz3jje4n5o/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/krb5-1.21.3-yavdomlb6ihulsogakp254hz3jje4n5o/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/krb5-1.21.3-yavdomlb6ihulsogakp254hz3jje4n5o/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/krb5-1.21.3-yavdomlb6ihulsogakp254hz3jje4n5o/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/krb5-1.21.3-yavdomlb6ihulsogakp254hz3jje4n5o/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/krb5-1.21.3-yavdomlb6ihulsogakp254hz3jje4n5o/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/krb5-1.21.3-yavdomlb6ihulsogakp254hz3jje4n5o/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/krb5-1.21.3-yavdomlb6ihulsogakp254hz3jje4n5o/.} +setenv KRB5_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/krb5-1.21.3-yavdomlb6ihulsogakp254hz3jje4n5o} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libaec/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libaec/.modulerc new file mode 100644 index 00000000..a29d386c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libaec/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libaec/1.0.6-nhnp335 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libaec/1.0.6-nhnp335 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libaec/1.0.6-nhnp335 new file mode 100644 index 00000000..fe5bd2c9 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libaec/1.0.6-nhnp335 @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:44.540992 +## +## libaec@1.0.6%gcc@13.2.0~ipo+shared build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-zen3/nhnp335 +## +## Configure options: -DBUILD_SHARED_LIBS:BOOL=ON +## + + +module-whatis {Libaec provides fast lossless compression of 1 up to 32 bit wide signed or unsigned integers (samples). It implements Golomb-Rice compression method under the BSD license and includes a free drop-in replacement for the SZIP library. } + +proc ModulesHelp { } { + puts stderr {Name : libaec} + puts stderr {Version: 1.0.6} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {Libaec provides fast lossless compression of 1 up to 32 bit wide signed} + puts stderr {or unsigned integers (samples). It implements Golomb-Rice compression} + puts stderr {method under the BSD license and includes a free drop-in replacement for} + puts stderr {the SZIP library.} +} + +conflict libaec + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libaec-1.0.6-nhnp335z4pi2prnsai3aiyjdbbwxqt2h/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libaec-1.0.6-nhnp335z4pi2prnsai3aiyjdbbwxqt2h/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libaec-1.0.6-nhnp335z4pi2prnsai3aiyjdbbwxqt2h/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libaec-1.0.6-nhnp335z4pi2prnsai3aiyjdbbwxqt2h/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libaec-1.0.6-nhnp335z4pi2prnsai3aiyjdbbwxqt2h/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libaec-1.0.6-nhnp335z4pi2prnsai3aiyjdbbwxqt2h/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libaec-1.0.6-nhnp335z4pi2prnsai3aiyjdbbwxqt2h/.} +setenv LIBAEC_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libaec-1.0.6-nhnp335z4pi2prnsai3aiyjdbbwxqt2h} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libbsd/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libbsd/.modulerc new file mode 100644 index 00000000..60d80923 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libbsd/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libbsd/0.12.2-uou3i2c diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libbsd/0.12.2-uou3i2c b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libbsd/0.12.2-uou3i2c new file mode 100644 index 00000000..55cdd2d4 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libbsd/0.12.2-uou3i2c @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:44.605309 +## +## libbsd@0.12.2%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-zen3/uou3i2c +## + + +module-whatis {This library provides useful functions commonly found on BSD systems, and lacking on others like GNU systems, thus making it easier to port projects with strong BSD origins, without needing to embed the same code over and over again on each project. } + +proc ModulesHelp { } { + puts stderr {Name : libbsd} + puts stderr {Version: 0.12.2} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {This library provides useful functions commonly found on BSD systems,} + puts stderr {and lacking on others like GNU systems, thus making it easier to port} + puts stderr {projects with strong BSD origins, without needing to embed the same code} + puts stderr {over and over again on each project.} +} + +conflict libbsd + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libbsd-0.12.2-uou3i2cqmwwrqptoyfhi5orpeef64k2f/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libbsd-0.12.2-uou3i2cqmwwrqptoyfhi5orpeef64k2f/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libbsd-0.12.2-uou3i2cqmwwrqptoyfhi5orpeef64k2f/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libbsd-0.12.2-uou3i2cqmwwrqptoyfhi5orpeef64k2f/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libbsd-0.12.2-uou3i2cqmwwrqptoyfhi5orpeef64k2f/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libbsd-0.12.2-uou3i2cqmwwrqptoyfhi5orpeef64k2f/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libbsd-0.12.2-uou3i2cqmwwrqptoyfhi5orpeef64k2f/.} +setenv LIBBSD_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libbsd-0.12.2-uou3i2cqmwwrqptoyfhi5orpeef64k2f} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libevent/2.1.12 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libevent/2.1.12 new file mode 100644 index 00000000..7618383c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libevent/2.1.12 @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:44.694525 +## +## libevent@2.1.12%gcc@13.2.0+openssl build_system=autotools arch=linux-ubuntu22.04-zen3/ilwoa7f +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {The libevent API provides a mechanism to execute a callback function when a specific event occurs on a file descriptor or after a timeout has been reached. Furthermore, libevent also support callbacks due to signals or regular timeouts.} + +proc ModulesHelp { } { + puts stderr {Name : libevent} + puts stderr {Version: 2.1.12} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {The libevent API provides a mechanism to execute a callback function} + puts stderr {when a specific event occurs on a file descriptor or after a timeout has} + puts stderr {been reached. Furthermore, libevent also support callbacks due to} + puts stderr {signals or regular timeouts.} +} + +conflict libevent + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/libevent-2.1.12/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/libevent-2.1.12/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/libevent-2.1.12/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/libevent-2.1.12/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/libevent-2.1.12/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/libevent-2.1.12/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/libevent-2.1.12/.} +setenv LIBEVENT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/libevent-2.1.12} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libffi/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libffi/.modulerc new file mode 100644 index 00000000..e75f4585 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libffi/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libffi/3.4.6-i3o5gew diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libffi/3.4.6-i3o5gew b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libffi/3.4.6-i3o5gew new file mode 100644 index 00000000..5ad1e5fe --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libffi/3.4.6-i3o5gew @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:44.780390 +## +## libffi@3.4.6%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-zen3/i3o5gew +## +## Configure options: --with-pic --without-gcc-arch +## + + +module-whatis {The libffi library provides a portable, high level programming interface to various calling conventions. This allows a programmer to call any function specified by a call interface description at run time.} + +proc ModulesHelp { } { + puts stderr {Name : libffi} + puts stderr {Version: 3.4.6} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {The libffi library provides a portable, high level programming interface} + puts stderr {to various calling conventions. This allows a programmer to call any} + puts stderr {function specified by a call interface description at run time.} +} + +conflict libffi + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libffi-3.4.6-i3o5gewxauoumplqmbw7uukm7jp2nbxk/lib64} +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libffi-3.4.6-i3o5gewxauoumplqmbw7uukm7jp2nbxk/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libffi-3.4.6-i3o5gewxauoumplqmbw7uukm7jp2nbxk/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libffi-3.4.6-i3o5gewxauoumplqmbw7uukm7jp2nbxk/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libffi-3.4.6-i3o5gewxauoumplqmbw7uukm7jp2nbxk/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libffi-3.4.6-i3o5gewxauoumplqmbw7uukm7jp2nbxk/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libffi-3.4.6-i3o5gewxauoumplqmbw7uukm7jp2nbxk/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libffi-3.4.6-i3o5gewxauoumplqmbw7uukm7jp2nbxk/.} +setenv LIBFFI_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libffi-3.4.6-i3o5gewxauoumplqmbw7uukm7jp2nbxk} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libiconv/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libiconv/.modulerc new file mode 100644 index 00000000..b935c47c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libiconv/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libiconv/1.17-wgio5ew diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libiconv/1.17-wgio5ew b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libiconv/1.17-wgio5ew new file mode 100644 index 00000000..e3e5520e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libiconv/1.17-wgio5ew @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:44.910252 +## +## libiconv@1.17%gcc@13.2.0 build_system=autotools libs=shared,static arch=linux-ubuntu22.04-zen3/wgio5ew +## +## Configure options: --enable-extra-encodings --enable-shared --enable-static --with-pic +## + + +module-whatis {GNU libiconv provides an implementation of the iconv() function and the iconv program for character set conversion.} + +proc ModulesHelp { } { + puts stderr {Name : libiconv} + puts stderr {Version: 1.17} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {GNU libiconv provides an implementation of the iconv() function and the} + puts stderr {iconv program for character set conversion.} +} + +conflict libiconv + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libiconv-1.17-wgio5ewy4elzhzv3pnxy7gzyoowgxmp6/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libiconv-1.17-wgio5ewy4elzhzv3pnxy7gzyoowgxmp6/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libiconv-1.17-wgio5ewy4elzhzv3pnxy7gzyoowgxmp6/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libiconv-1.17-wgio5ewy4elzhzv3pnxy7gzyoowgxmp6/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libiconv-1.17-wgio5ewy4elzhzv3pnxy7gzyoowgxmp6/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libiconv-1.17-wgio5ewy4elzhzv3pnxy7gzyoowgxmp6/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libiconv-1.17-wgio5ewy4elzhzv3pnxy7gzyoowgxmp6/.} +setenv LIBICONV_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libiconv-1.17-wgio5ewy4elzhzv3pnxy7gzyoowgxmp6} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libmd/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libmd/.modulerc new file mode 100644 index 00000000..10354a4a --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libmd/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libmd/1.0.4-ivvopia diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libmd/1.0.4-ivvopia b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libmd/1.0.4-ivvopia new file mode 100644 index 00000000..aff1a3ce --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libmd/1.0.4-ivvopia @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.056340 +## +## libmd@1.0.4%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-zen3/ivvopia +## + + +module-whatis {This library provides message digest functions found on BSD systems either on their libc (NetBSD, OpenBSD) or libmd (FreeBSD, DragonflyBSD, macOS, Solaris) libraries and lacking on others like GNU systems.} + +proc ModulesHelp { } { + puts stderr {Name : libmd} + puts stderr {Version: 1.0.4} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {This library provides message digest functions found on BSD systems} + puts stderr {either on their libc (NetBSD, OpenBSD) or libmd (FreeBSD, DragonflyBSD,} + puts stderr {macOS, Solaris) libraries and lacking on others like GNU systems.} +} + +conflict libmd + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libmd-1.0.4-ivvopiamgkk32c4nzjwbdy54bju5c2c3/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libmd-1.0.4-ivvopiamgkk32c4nzjwbdy54bju5c2c3/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libmd-1.0.4-ivvopiamgkk32c4nzjwbdy54bju5c2c3/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libmd-1.0.4-ivvopiamgkk32c4nzjwbdy54bju5c2c3/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libmd-1.0.4-ivvopiamgkk32c4nzjwbdy54bju5c2c3/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libmd-1.0.4-ivvopiamgkk32c4nzjwbdy54bju5c2c3/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libmd-1.0.4-ivvopiamgkk32c4nzjwbdy54bju5c2c3/.} +setenv LIBMD_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libmd-1.0.4-ivvopiamgkk32c4nzjwbdy54bju5c2c3} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libnsl/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libnsl/.modulerc new file mode 100644 index 00000000..95c97042 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libnsl/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libnsl/2.0.1-7sokvaq diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libnsl/2.0.1-7sokvaq b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libnsl/2.0.1-7sokvaq new file mode 100644 index 00000000..2e312a78 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libnsl/2.0.1-7sokvaq @@ -0,0 +1,67 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.187809 +## +## libnsl@2.0.1%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-zen3/7sokvaq +## + + +module-whatis {This library contains the public client interface for NIS(YP) and NIS+ in a IPv6 ready version.} + +proc ModulesHelp { } { + puts stderr {Name : libnsl} + puts stderr {Version: 2.0.1} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {This library contains the public client interface for NIS(YP) and NIS+} + puts stderr {in a IPv6 ready version.} +} + +conflict libnsl + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libnsl-2.0.1-7sokvaq63wo5vedgjtfh3eks4eqe5i7w/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libnsl-2.0.1-7sokvaq63wo5vedgjtfh3eks4eqe5i7w/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libnsl-2.0.1-7sokvaq63wo5vedgjtfh3eks4eqe5i7w/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libnsl-2.0.1-7sokvaq63wo5vedgjtfh3eks4eqe5i7w/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libnsl-2.0.1-7sokvaq63wo5vedgjtfh3eks4eqe5i7w/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libnsl-2.0.1-7sokvaq63wo5vedgjtfh3eks4eqe5i7w/.} +setenv LIBNSL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libnsl-2.0.1-7sokvaq63wo5vedgjtfh3eks4eqe5i7w} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libsvm/323 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libsvm/323 new file mode 100644 index 00000000..bb6f939e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libsvm/323 @@ -0,0 +1,64 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.420191 +## +## libsvm@323%gcc@13.2.0 build_system=makefile arch=linux-ubuntu22.04-zen3/leftqzg +## + + +module-whatis {Libsvm is a simple, easy-to-use, and efficient software for SVM classification and regression.} + +proc ModulesHelp { } { + puts stderr {Name : libsvm} + puts stderr {Version: 323} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {Libsvm is a simple, easy-to-use, and efficient software for SVM} + puts stderr {classification and regression.} +} + +conflict libsvm + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/libsvm-323/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/libsvm-323/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/libsvm-323/.} +setenv LIBSVM_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libsvm-323-leftqzgf5o35wgswnysbpmdm7q3mkr2m} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libszip/2.1.1 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libszip/2.1.1 new file mode 100644 index 00000000..b803d9e0 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libszip/2.1.1 @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.484845 +## +## libszip@2.1.1%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-zen3/fldhtes +## +## Configure options: --enable-production --enable-shared --enable-static --enable-encoding +## + + +module-whatis {Szip is an implementation of the extended-Rice lossless compression algorithm.} + +proc ModulesHelp { } { + puts stderr {Name : libszip} + puts stderr {Version: 2.1.1} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {Szip is an implementation of the extended-Rice lossless compression} + puts stderr {algorithm. It provides lossless compression of scientific data, and is} + puts stderr {provided with HDF software products.} +} + +conflict libszip + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/libszip-2.1.1/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/libszip-2.1.1/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/libszip-2.1.1/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/libszip-2.1.1/include} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/libszip-2.1.1/.} +setenv LIBSZIP_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libszip-2.1.1-fldhtescldkuz4rz3v4iryjrjxk6xsjj} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libtirpc/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libtirpc/.modulerc new file mode 100644 index 00000000..53d16bd6 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libtirpc/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libtirpc/1.3.3-zvh3w2u diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libtirpc/1.3.3-zvh3w2u b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libtirpc/1.3.3-zvh3w2u new file mode 100644 index 00000000..7b13fe28 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libtirpc/1.3.3-zvh3w2u @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.608459 +## +## libtirpc@1.3.3%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-zen3/zvh3w2u +## + + +module-whatis {Libtirpc is a port of Suns Transport-Independent RPC library to Linux.} + +proc ModulesHelp { } { + puts stderr {Name : libtirpc} + puts stderr {Version: 1.3.3} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {Libtirpc is a port of Suns Transport-Independent RPC library to Linux.} +} + +conflict libtirpc + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libtirpc-1.3.3-zvh3w2uhfsraold6oz3rrsksb7upbihv/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libtirpc-1.3.3-zvh3w2uhfsraold6oz3rrsksb7upbihv/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libtirpc-1.3.3-zvh3w2uhfsraold6oz3rrsksb7upbihv/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libtirpc-1.3.3-zvh3w2uhfsraold6oz3rrsksb7upbihv/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libtirpc-1.3.3-zvh3w2uhfsraold6oz3rrsksb7upbihv/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libtirpc-1.3.3-zvh3w2uhfsraold6oz3rrsksb7upbihv/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libtirpc-1.3.3-zvh3w2uhfsraold6oz3rrsksb7upbihv/.} +setenv LIBTIRPC_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libtirpc-1.3.3-zvh3w2uhfsraold6oz3rrsksb7upbihv} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libxc/6.1.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libxc/6.1.0 new file mode 100644 index 00000000..09fcefa8 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libxc/6.1.0 @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.797601 +## +## libxc@6.1.0%gcc@13.2.0~cuda~kxc~lxc+shared build_system=autotools arch=linux-ubuntu22.04-zen3/l535h2i +## +## Configure options: --enable-shared --disable-cuda +## + + +module-whatis {Libxc is a library of exchange-correlation functionals for density-functional theory.} + +proc ModulesHelp { } { + puts stderr {Name : libxc} + puts stderr {Version: 6.1.0} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {Libxc is a library of exchange-correlation functionals for density-} + puts stderr {functional theory.} +} + +conflict libxc + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/libxc-6.1.0/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/libxc-6.1.0/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/libxc-6.1.0/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/libxc-6.1.0/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/libxc-6.1.0/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/libxc-6.1.0/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/libxc-6.1.0/.} +setenv LIBXC_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libxc-6.1.0-l535h2illirpaa3cvx4yyyhl4spuq3pf} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libxcrypt/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libxcrypt/.modulerc new file mode 100644 index 00000000..1882e429 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libxcrypt/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libxcrypt/4.4.35-wctjlpi diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libxcrypt/4.4.35-wctjlpi b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libxcrypt/4.4.35-wctjlpi new file mode 100644 index 00000000..12f5c696 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libxcrypt/4.4.35-wctjlpi @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:45.903582 +## +## libxcrypt@4.4.35%gcc@13.2.0~obsolete_api build_system=autotools patches=4885da3 arch=linux-ubuntu22.04-zen3/wctjlpi +## +## Configure options: ac_cv_path_python3_passlib=not found --disable-werror --disable-obsolete-api +## + + +module-whatis {libxcrypt is a modern library for one-way hashing of passwords.} + +proc ModulesHelp { } { + puts stderr {Name : libxcrypt} + puts stderr {Version: 4.4.35} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {libxcrypt is a modern library for one-way hashing of passwords.} +} + +conflict libxcrypt + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libxcrypt-4.4.35-wctjlpi7jfd7es6zuvi7z3ymktiwzrqq/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libxcrypt-4.4.35-wctjlpi7jfd7es6zuvi7z3ymktiwzrqq/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libxcrypt-4.4.35-wctjlpi7jfd7es6zuvi7z3ymktiwzrqq/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libxcrypt-4.4.35-wctjlpi7jfd7es6zuvi7z3ymktiwzrqq/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libxcrypt-4.4.35-wctjlpi7jfd7es6zuvi7z3ymktiwzrqq/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libxcrypt-4.4.35-wctjlpi7jfd7es6zuvi7z3ymktiwzrqq/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libxcrypt-4.4.35-wctjlpi7jfd7es6zuvi7z3ymktiwzrqq/.} +setenv LIBXCRYPT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libxcrypt-4.4.35-wctjlpi7jfd7es6zuvi7z3ymktiwzrqq} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libxml2/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libxml2/.modulerc new file mode 100644 index 00000000..c21a351c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libxml2/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded libxml2/2.13.4-ekrdz3z diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libxml2/2.13.4-ekrdz3z b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libxml2/2.13.4-ekrdz3z new file mode 100644 index 00000000..56ead3df --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/libxml2/2.13.4-ekrdz3z @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:46.069245 +## +## libxml2@2.13.4%gcc@13.2.0+ftp+pic~python+shared build_system=autotools arch=linux-ubuntu22.04-zen3/ekrdz3z +## + + +module-whatis {Libxml2 is the XML C parser and toolkit developed for the Gnome project (but usable outside of the Gnome platform), it is free software available under the MIT License.} + +proc ModulesHelp { } { + puts stderr {Name : libxml2} + puts stderr {Version: 2.13.4} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {Libxml2 is the XML C parser and toolkit developed for the Gnome project} + puts stderr {(but usable outside of the Gnome platform), it is free software} + puts stderr {available under the MIT License.} +} + +conflict libxml2 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libxml2-2.13.4-ekrdz3z3eqpck3akanrhasjhmhe3opjz/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libxml2-2.13.4-ekrdz3z3eqpck3akanrhasjhmhe3opjz/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libxml2-2.13.4-ekrdz3z3eqpck3akanrhasjhmhe3opjz/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libxml2-2.13.4-ekrdz3z3eqpck3akanrhasjhmhe3opjz/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libxml2-2.13.4-ekrdz3z3eqpck3akanrhasjhmhe3opjz/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libxml2-2.13.4-ekrdz3z3eqpck3akanrhasjhmhe3opjz/share/man} +prepend-path ACLOCAL_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libxml2-2.13.4-ekrdz3z3eqpck3akanrhasjhmhe3opjz/share/aclocal} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libxml2-2.13.4-ekrdz3z3eqpck3akanrhasjhmhe3opjz/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libxml2-2.13.4-ekrdz3z3eqpck3akanrhasjhmhe3opjz/.} +setenv LIBXML2_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libxml2-2.13.4-ekrdz3z3eqpck3akanrhasjhmhe3opjz} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/lz4/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/lz4/.modulerc new file mode 100644 index 00000000..e51f56f6 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/lz4/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded lz4/1.10.0-fihys4s diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/lz4/1.10.0-fihys4s b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/lz4/1.10.0-fihys4s new file mode 100644 index 00000000..e4d1dbb4 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/lz4/1.10.0-fihys4s @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:46.477250 +## +## lz4@1.10.0%gcc@13.2.0+pic build_system=makefile libs=shared,static arch=linux-ubuntu22.04-zen3/fihys4s +## + + +module-whatis {LZ4 is lossless compression algorithm, providing compression speed at 400 MB/s per core, scalable with multi-cores CPU. It also features an extremely fast decoder, with speed in multiple GB/s per core, typically reaching RAM speed limits on multi-core systems.} + +proc ModulesHelp { } { + puts stderr {Name : lz4} + puts stderr {Version: 1.10.0} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {LZ4 is lossless compression algorithm, providing compression speed at} + puts stderr {400 MB/s per core, scalable with multi-cores CPU. It also features an} + puts stderr {extremely fast decoder, with speed in multiple GB/s per core, typically} + puts stderr {reaching RAM speed limits on multi-core systems.} +} + +conflict lz4 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/lz4-1.10.0-fihys4sedbvep4gcgl7ptaroumyew27x/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/lz4-1.10.0-fihys4sedbvep4gcgl7ptaroumyew27x/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/lz4-1.10.0-fihys4sedbvep4gcgl7ptaroumyew27x/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/lz4-1.10.0-fihys4sedbvep4gcgl7ptaroumyew27x/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/lz4-1.10.0-fihys4sedbvep4gcgl7ptaroumyew27x/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/lz4-1.10.0-fihys4sedbvep4gcgl7ptaroumyew27x/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/lz4-1.10.0-fihys4sedbvep4gcgl7ptaroumyew27x/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/lz4-1.10.0-fihys4sedbvep4gcgl7ptaroumyew27x/.} +setenv LZ4_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/lz4-1.10.0-fihys4sedbvep4gcgl7ptaroumyew27x} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/mpfr/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/mpfr/.modulerc new file mode 100644 index 00000000..d46f6a3f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/mpfr/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded mpfr/4.2.1-lmz55hq diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/mpfr/4.2.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/mpfr/4.2.0 new file mode 100644 index 00000000..256c5bec --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/mpfr/4.2.0 @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:47.279378 +## +## mpfr@4.2.0%gcc@13.2.0 build_system=autotools libs=shared,static arch=linux-ubuntu22.04-zen3/isqiwof +## +## Configure options: --with-gmp=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/gmp-6.3.0-uy37uslf4y4gpoxzgdjbpt5vwxipb5ra --enable-shared --enable-static --with-pic +## + + +module-whatis {The MPFR library is a C library for multiple-precision floating-point computations with correct rounding.} + +proc ModulesHelp { } { + puts stderr {Name : mpfr} + puts stderr {Version: 4.2.0} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {The MPFR library is a C library for multiple-precision floating-point} + puts stderr {computations with correct rounding.} +} + +conflict mpfr + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/mpfr-4.2.0/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/mpfr-4.2.0/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/mpfr-4.2.0/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/mpfr-4.2.0/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/mpfr-4.2.0/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/mpfr-4.2.0/.} +setenv MPFR_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/mpfr-4.2.0-isqiwoftrtw722sdu3p3ebtjrasttnob} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/mpfr/4.2.1-lmz55hq b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/mpfr/4.2.1-lmz55hq new file mode 100644 index 00000000..e54d28b8 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/mpfr/4.2.1-lmz55hq @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:47.322593 +## +## mpfr@4.2.1%gcc@13.2.0 build_system=autotools libs=shared,static arch=linux-ubuntu22.04-zen3/lmz55hq +## +## Configure options: --with-gmp=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/gmp-6.3.0-uy37uslf4y4gpoxzgdjbpt5vwxipb5ra --enable-shared --enable-static --with-pic +## + + +module-whatis {The MPFR library is a C library for multiple-precision floating-point computations with correct rounding.} + +proc ModulesHelp { } { + puts stderr {Name : mpfr} + puts stderr {Version: 4.2.1} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {The MPFR library is a C library for multiple-precision floating-point} + puts stderr {computations with correct rounding.} +} + +conflict mpfr + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/mpfr-4.2.1-lmz55hqnqimnktrbh7l6lq6w7pvnnyni/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/mpfr-4.2.1-lmz55hqnqimnktrbh7l6lq6w7pvnnyni/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/mpfr-4.2.1-lmz55hqnqimnktrbh7l6lq6w7pvnnyni/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/mpfr-4.2.1-lmz55hqnqimnktrbh7l6lq6w7pvnnyni/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/mpfr-4.2.1-lmz55hqnqimnktrbh7l6lq6w7pvnnyni/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/mpfr-4.2.1-lmz55hqnqimnktrbh7l6lq6w7pvnnyni/.} +setenv MPFR_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/mpfr-4.2.1-lmz55hqnqimnktrbh7l6lq6w7pvnnyni} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/mpich/4.2.1 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/mpich/4.2.1 new file mode 100644 index 00000000..d86e2409 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/mpich/4.2.1 @@ -0,0 +1,76 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:47.394979 +## +## mpich@4.2.1%gcc@13.2.0~argobots+cuda+fortran~hcoll+hwloc+hydra+libxml2+pci~rocm+romio~slurm~vci~verbs+wrapperrpath~xpmem build_system=autotools cuda_arch=75,86 datatype-engine=auto device=ch4 netmod=ucx pmi=pmix arch=linux-ubuntu22.04-zen3/bt5pk4i +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {MPICH is a high performance and widely portable implementation of the Message Passing Interface (MPI) standard.} + +proc ModulesHelp { } { + puts stderr {Name : mpich} + puts stderr {Version: 4.2.1} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {MPICH is a high performance and widely portable implementation of the} + puts stderr {Message Passing Interface (MPI) standard.} +} + +conflict mpich + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/mpich-4.2.1/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/mpich-4.2.1/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/mpich-4.2.1/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/mpich-4.2.1/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/mpich-4.2.1/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/mpich-4.2.1/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/mpich-4.2.1/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/mpich-4.2.1/.} +setenv MPICC {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/mpich-4.2.1/bin/mpicc} +setenv MPICXX {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/mpich-4.2.1/bin/mpic++} +setenv MPIF77 {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/mpich-4.2.1/bin/mpif77} +setenv MPIF90 {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/mpich-4.2.1/bin/mpif90} +setenv MPICH_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/mpich-4.2.1} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/ncurses/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/ncurses/.modulerc new file mode 100644 index 00000000..d47f4cd5 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/ncurses/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded ncurses/6.5-j3qv5kk diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/ncurses/6.5-j3qv5kk b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/ncurses/6.5-j3qv5kk new file mode 100644 index 00000000..b0ae68ed --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/ncurses/6.5-j3qv5kk @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:47.808883 +## +## ncurses@6.5%gcc@13.2.0~symlinks+termlib abi=none build_system=autotools patches=7a351bc arch=linux-ubuntu22.04-zen3/j3qv5kk +## + + +module-whatis {The ncurses (new curses) library is a free software emulation of curses in System V Release 4.0, and more. It uses terminfo format, supports pads and color and multiple highlights and forms characters and function-key mapping, and has all the other SYSV-curses enhancements over BSD curses.} + +proc ModulesHelp { } { + puts stderr {Name : ncurses} + puts stderr {Version: 6.5} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {The ncurses (new curses) library is a free software emulation of curses} + puts stderr {in System V Release 4.0, and more. It uses terminfo format, supports} + puts stderr {pads and color and multiple highlights and forms characters and} + puts stderr {function-key mapping, and has all the other SYSV-curses enhancements} + puts stderr {over BSD curses.} +} + +conflict ncurses + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/ncurses-6.5-j3qv5kkifxgwhngmeenblsyaaxjjzbug/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/ncurses-6.5-j3qv5kkifxgwhngmeenblsyaaxjjzbug/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/ncurses-6.5-j3qv5kkifxgwhngmeenblsyaaxjjzbug/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/ncurses-6.5-j3qv5kkifxgwhngmeenblsyaaxjjzbug/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/ncurses-6.5-j3qv5kkifxgwhngmeenblsyaaxjjzbug/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/ncurses-6.5-j3qv5kkifxgwhngmeenblsyaaxjjzbug/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/ncurses-6.5-j3qv5kkifxgwhngmeenblsyaaxjjzbug/.} +setenv NCURSES_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/ncurses-6.5-j3qv5kkifxgwhngmeenblsyaaxjjzbug} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/netcdf-c/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/netcdf-c/.modulerc new file mode 100644 index 00000000..bff31246 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/netcdf-c/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded netcdf-c/4.9.2-2tn3lxm +module-hide --soft --hidden-loaded netcdf-c/4.9.2-ltnkane diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/netcdf-c/4.9.2 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/netcdf-c/4.9.2 new file mode 100644 index 00000000..670cd3bb --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/netcdf-c/4.9.2 @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:47.991088 +## +## netcdf-c@4.9.2%gcc@13.2.0+blosc~byterange+dap+fsync~hdf4~jna~logging~mpi~nczarr_zip+optimize~parallel-netcdf+pic+shared+szip+zstd build_system=autotools patches=0161eb8 arch=linux-ubuntu22.04-zen3/6oir5zc +## + + +module-whatis {NetCDF (network Common Data Form) is a set of software libraries and machine-independent data formats that support the creation, access, and sharing of array-oriented scientific data. This is the C distribution.} + +proc ModulesHelp { } { + puts stderr {Name : netcdf-c} + puts stderr {Version: 4.9.2} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {NetCDF (network Common Data Form) is a set of software libraries and} + puts stderr {machine-independent data formats that support the creation, access, and} + puts stderr {sharing of array-oriented scientific data. This is the C distribution.} +} + +conflict netcdf-c + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/netcdf-c-4.9.2/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/netcdf-c-4.9.2/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/netcdf-c-4.9.2/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/netcdf-c-4.9.2/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/netcdf-c-4.9.2/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/netcdf-c-4.9.2/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/netcdf-c-4.9.2/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/netcdf-c-4.9.2/.} +append-path HDF5_PLUGIN_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/netcdf-c-4.9.2/plugins} +setenv NETCDF_C_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/netcdf-c-4.9.2-6oir5zc74rkzbbt3eu3royi3beywmyij} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/netcdf-c/4.9.2-2tn3lxm b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/netcdf-c/4.9.2-2tn3lxm new file mode 100644 index 00000000..0144d0fc --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/netcdf-c/4.9.2-2tn3lxm @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:47.886758 +## +## netcdf-c@4.9.2%gcc@13.2.0+blosc~byterange~dap~fsync~hdf4~jna~logging~mpi~nczarr_zip+optimize~parallel-netcdf+pic+shared+szip+zstd build_system=autotools patches=0161eb8 arch=linux-ubuntu22.04-zen3/2tn3lxm +## + + +module-whatis {NetCDF (network Common Data Form) is a set of software libraries and machine-independent data formats that support the creation, access, and sharing of array-oriented scientific data. This is the C distribution.} + +proc ModulesHelp { } { + puts stderr {Name : netcdf-c} + puts stderr {Version: 4.9.2} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {NetCDF (network Common Data Form) is a set of software libraries and} + puts stderr {machine-independent data formats that support the creation, access, and} + puts stderr {sharing of array-oriented scientific data. This is the C distribution.} +} + +conflict netcdf-c + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/netcdf-c-4.9.2-2tn3lxmqhtpcwjcle4xlkucfsowico4v/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/netcdf-c-4.9.2-2tn3lxmqhtpcwjcle4xlkucfsowico4v/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/netcdf-c-4.9.2-2tn3lxmqhtpcwjcle4xlkucfsowico4v/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/netcdf-c-4.9.2-2tn3lxmqhtpcwjcle4xlkucfsowico4v/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/netcdf-c-4.9.2-2tn3lxmqhtpcwjcle4xlkucfsowico4v/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/netcdf-c-4.9.2-2tn3lxmqhtpcwjcle4xlkucfsowico4v/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/netcdf-c-4.9.2-2tn3lxmqhtpcwjcle4xlkucfsowico4v/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/netcdf-c-4.9.2-2tn3lxmqhtpcwjcle4xlkucfsowico4v/.} +append-path HDF5_PLUGIN_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/netcdf-c-4.9.2-2tn3lxmqhtpcwjcle4xlkucfsowico4v/plugins} +setenv NETCDF_C_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/netcdf-c-4.9.2-2tn3lxmqhtpcwjcle4xlkucfsowico4v} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/netcdf-c/4.9.2-ltnkane b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/netcdf-c/4.9.2-ltnkane new file mode 100644 index 00000000..e54e168d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/netcdf-c/4.9.2-ltnkane @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:48.081102 +## +## netcdf-c@4.9.2%gcc@13.2.0+blosc~byterange~dap~fsync~hdf4~ipo~jna~logging~mpi~nczarr_zip+optimize~parallel-netcdf+pic+shared+szip+zstd build_system=cmake build_type=Release generator=make patches=0161eb8,3b09181 arch=linux-ubuntu22.04-zen3/ltnkane +## + + +module-whatis {NetCDF (network Common Data Form) is a set of software libraries and machine-independent data formats that support the creation, access, and sharing of array-oriented scientific data. This is the C distribution.} + +proc ModulesHelp { } { + puts stderr {Name : netcdf-c} + puts stderr {Version: 4.9.2} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {NetCDF (network Common Data Form) is a set of software libraries and} + puts stderr {machine-independent data formats that support the creation, access, and} + puts stderr {sharing of array-oriented scientific data. This is the C distribution.} +} + +conflict netcdf-c + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/netcdf-c-4.9.2-ltnkanex2xpswrkq655je6xtnwfdhf2h/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/netcdf-c-4.9.2-ltnkanex2xpswrkq655je6xtnwfdhf2h/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/netcdf-c-4.9.2-ltnkanex2xpswrkq655je6xtnwfdhf2h/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/netcdf-c-4.9.2-ltnkanex2xpswrkq655je6xtnwfdhf2h/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/netcdf-c-4.9.2-ltnkanex2xpswrkq655je6xtnwfdhf2h/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/netcdf-c-4.9.2-ltnkanex2xpswrkq655je6xtnwfdhf2h/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/netcdf-c-4.9.2-ltnkanex2xpswrkq655je6xtnwfdhf2h/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/netcdf-c-4.9.2-ltnkanex2xpswrkq655je6xtnwfdhf2h/.} +append-path HDF5_PLUGIN_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/netcdf-c-4.9.2-ltnkanex2xpswrkq655je6xtnwfdhf2h/plugins} +setenv NETCDF_C_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/netcdf-c-4.9.2-ltnkanex2xpswrkq655je6xtnwfdhf2h} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/netcdf-cxx4/4.3.1 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/netcdf-cxx4/4.3.1 new file mode 100644 index 00000000..6b05adf8 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/netcdf-cxx4/4.3.1 @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:48.180322 +## +## netcdf-cxx4@4.3.1%gcc@13.2.0~doc~ipo+pic+shared~tests build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-zen3/ly3ielu +## +## Configure options: -DBUILD_SHARED_LIBS:BOOL=ON -DENABLE_DOXYGEN:BOOL=OFF -DNCXX_ENABLE_TESTS:BOOL=OFF +## + + +module-whatis {NetCDF (network Common Data Form) is a set of software libraries and machine-independent data formats that support the creation, access, and sharing of array-oriented scientific data. This is the C++ distribution.} + +proc ModulesHelp { } { + puts stderr {Name : netcdf-cxx4} + puts stderr {Version: 4.3.1} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {NetCDF (network Common Data Form) is a set of software libraries and} + puts stderr {machine-independent data formats that support the creation, access, and} + puts stderr {sharing of array-oriented scientific data. This is the C++ distribution.} +} + +conflict netcdf-cxx4 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/netcdf-cxx4-4.3.1/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/netcdf-cxx4-4.3.1/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/netcdf-cxx4-4.3.1/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/netcdf-cxx4-4.3.1/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/netcdf-cxx4-4.3.1/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/netcdf-cxx4-4.3.1/.} +setenv NETCDF_CXX4_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/netcdf-cxx4-4.3.1-ly3ieluodumrs3dyjonlinw5adjwli4h} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/netcdf-fortran/4.6.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/netcdf-fortran/4.6.0 new file mode 100644 index 00000000..c082b04c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/netcdf-fortran/4.6.0 @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:48.295104 +## +## netcdf-fortran@4.6.0%gcc@13.2.0~doc+pic+shared build_system=autotools arch=linux-ubuntu22.04-zen3/ty56a65 +## +## Configure options: --enable-static --enable-shared --disable-doxygen +## + + +module-whatis {NetCDF (network Common Data Form) is a set of software libraries and machine-independent data formats that support the creation, access, and sharing of array-oriented scientific data. This is the Fortran distribution.} + +proc ModulesHelp { } { + puts stderr {Name : netcdf-fortran} + puts stderr {Version: 4.6.0} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {NetCDF (network Common Data Form) is a set of software libraries and} + puts stderr {machine-independent data formats that support the creation, access, and} + puts stderr {sharing of array-oriented scientific data. This is the Fortran} + puts stderr {distribution.} +} + +conflict netcdf-fortran + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/netcdf-fortran-4.6.0/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/netcdf-fortran-4.6.0/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/netcdf-fortran-4.6.0/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/netcdf-fortran-4.6.0/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/netcdf-fortran-4.6.0/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/netcdf-fortran-4.6.0/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/netcdf-fortran-4.6.0/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/netcdf-fortran-4.6.0/.} +setenv NETCDF_FORTRAN_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/netcdf-fortran-4.6.0-ty56a65vu5ut3mjenzd6rwwpp6eyfsli} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/netlib-lapack/3.11.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/netlib-lapack/3.11.0 new file mode 100644 index 00000000..76e87c75 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/netlib-lapack/3.11.0 @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:48.382079 +## +## netlib-lapack@3.11.0%gcc@13.2.0~external-blas~ipo+lapacke+pic+shared~xblas build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-zen3/frm4yhh +## + + +module-whatis {LAPACK version 3.X is a comprehensive FORTRAN library that does linear algebra operations including matrix inversions, least squared solutions to linear sets of equations, eigenvector analysis, singular value decomposition, etc. It is a very comprehensive and reputable package that has found extensive use in the scientific community.} + +proc ModulesHelp { } { + puts stderr {Name : netlib-lapack} + puts stderr {Version: 3.11.0} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {LAPACK version 3.X is a comprehensive FORTRAN library that does linear} + puts stderr {algebra operations including matrix inversions, least squared solutions} + puts stderr {to linear sets of equations, eigenvector analysis, singular value} + puts stderr {decomposition, etc. It is a very comprehensive and reputable package} + puts stderr {that has found extensive use in the scientific community.} +} + +conflict netlib-lapack + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/netlib-lapack-3.11.0/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/netlib-lapack-3.11.0/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/netlib-lapack-3.11.0/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/netlib-lapack-3.11.0/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/netlib-lapack-3.11.0/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/netlib-lapack-3.11.0/.} +setenv NETLIB_LAPACK_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/netlib-lapack-3.11.0-frm4yhhwjumrck4oyl3ysdun4pvdlyso} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/netlib-xblas/1.0.248 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/netlib-xblas/1.0.248 new file mode 100644 index 00000000..ef6ea34a --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/netlib-xblas/1.0.248 @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:48.449053 +## +## netlib-xblas@1.0.248%gcc@13.2.0+fortran+plain_blas build_system=autotools arch=linux-ubuntu22.04-zen3/tnequgb +## + + +module-whatis {XBLAS is a reference implementation for extra precision BLAS.} + +proc ModulesHelp { } { + puts stderr {Name : netlib-xblas} + puts stderr {Version: 1.0.248} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {XBLAS is a reference implementation for extra precision BLAS. XBLAS is a} + puts stderr {reference implementation for the dense and banded BLAS routines, along} + puts stderr {with extended and mixed precision version. Extended precision is only} + puts stderr {used internally; input and output arguments remain the same as in the} + puts stderr {existing BLAS. Extra precisions is implemented as double-double (i.e.,} + puts stderr {128-bit total, 106-bit significand). Mixed precision permits some} + puts stderr {input/output arguments of different types (mixing real and complex) or} + puts stderr {precisions (mixing single and double). This implementation is proof of} + puts stderr {concept, and no attempt was made to optimize performance; performance} + puts stderr {should be as good as straightforward but careful code written by hand.} +} + +conflict netlib-xblas + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/netlib-xblas-1.0.248/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/netlib-xblas-1.0.248/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/netlib-xblas-1.0.248/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/netlib-xblas-1.0.248/include} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/netlib-xblas-1.0.248/.} +setenv NETLIB_XBLAS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/netlib-xblas-1.0.248-tnequgbctfzzeuyxuh34itc3a6wrspnl} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/nghttp2/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/nghttp2/.modulerc new file mode 100644 index 00000000..39921733 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/nghttp2/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded nghttp2/1.63.0-zykig3i diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/nghttp2/1.63.0-zykig3i b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/nghttp2/1.63.0-zykig3i new file mode 100644 index 00000000..ba77cf2f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/nghttp2/1.63.0-zykig3i @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:48.532767 +## +## nghttp2@1.63.0%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-zen3/zykig3i +## +## Configure options: --enable-lib-only --with-libxml2=no --with-jansson=no --with-zlib=no --with-libevent-openssl=no --with-libcares=no --with-openssl=no --with-libev=no --with-cunit=no --with-jemalloc=no --with-systemd=no --with-mruby=no --with-neverbleed=no --with-boost=no --with-wolfssl=no +## + + +module-whatis {nghttp2 is an implementation of HTTP/2 and its header compression algorithm HPACK in C.} + +proc ModulesHelp { } { + puts stderr {Name : nghttp2} + puts stderr {Version: 1.63.0} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {nghttp2 is an implementation of HTTP/2 and its header compression} + puts stderr {algorithm HPACK in C.} +} + +conflict nghttp2 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/nghttp2-1.63.0-zykig3izk6asvoxvozzqulmm7pp35zix/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/nghttp2-1.63.0-zykig3izk6asvoxvozzqulmm7pp35zix/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/nghttp2-1.63.0-zykig3izk6asvoxvozzqulmm7pp35zix/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/nghttp2-1.63.0-zykig3izk6asvoxvozzqulmm7pp35zix/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/nghttp2-1.63.0-zykig3izk6asvoxvozzqulmm7pp35zix/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/nghttp2-1.63.0-zykig3izk6asvoxvozzqulmm7pp35zix/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/nghttp2-1.63.0-zykig3izk6asvoxvozzqulmm7pp35zix/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/nghttp2-1.63.0-zykig3izk6asvoxvozzqulmm7pp35zix/.} +setenv NGHTTP2_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/nghttp2-1.63.0-zykig3izk6asvoxvozzqulmm7pp35zix} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/nlohmann-json/3.11.2 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/nlohmann-json/3.11.2 new file mode 100644 index 00000000..7e593ff8 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/nlohmann-json/3.11.2 @@ -0,0 +1,67 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:48.665327 +## +## nlohmann-json@3.11.2%gcc@13.2.0~ipo+multiple_headers build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-zen3/edxkjap +## +## Configure options: -DJSON_MultipleHeaders:BOOL=ON -DJSON_BuildTests:BOOL=OFF +## + + +module-whatis {JSON for Modern C++} + +proc ModulesHelp { } { + puts stderr {Name : nlohmann-json} + puts stderr {Version: 3.11.2} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {JSON for Modern C++} +} + +conflict nlohmann-json + +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/nlohmann-json-3.11.2/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/nlohmann-json-3.11.2/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/nlohmann-json-3.11.2/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/nlohmann-json-3.11.2/share/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/nlohmann-json-3.11.2/.} +setenv NLOHMANN_JSON_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/nlohmann-json-3.11.2-edxkjapyhyc6v456bjnqwir6z65oq4nd} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/nlopt/2.7.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/nlopt/2.7.0 new file mode 100644 index 00000000..2cf583e4 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/nlopt/2.7.0 @@ -0,0 +1,83 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:49.797726 +## +## nlopt@2.7.0%gcc@13.2.0~cxx~guile~ipo~matlab~octave+python+shared build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-zen3/dqgxd3k +## +## Configure options: -DNLOPT_OCTAVE:Bool=OFF +## + + +module-whatis {NLopt is a free/open-source library for nonlinear optimization, providing a common interface for a number of different free optimization routines available online as well as original implementations of various other algorithms.} + +proc ModulesHelp { } { + puts stderr {Name : nlopt} + puts stderr {Version: 2.7.0} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {NLopt is a free/open-source library for nonlinear optimization,} + puts stderr {providing a common interface for a number of different free optimization} + puts stderr {routines available online as well as original implementations of various} + puts stderr {other algorithms.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load py-numpy/2.1.2-jkfklhx + module load python/3.11.9-vsxht6m + module load python-venv/1.0-6be6x2t +} else { + depends-on py-numpy/2.1.2-jkfklhx + depends-on python/3.11.9-vsxht6m + depends-on python-venv/1.0-6be6x2t +} +conflict nlopt + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/python-3.11.9/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/python-3.11.9/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/python-3.11.9/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/python-3.11.9/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/python-3.11.9/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/python-3.11.9/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/python-3.11.9/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/python-3.11.9/lib/python3.11/site-packages} +setenv NLOPT_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/nlopt-2.7.0-dqgxd3kkfa4fwcrlgxje4atreoci2cb2} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/ntirpc/3.2 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/ntirpc/3.2 new file mode 100644 index 00000000..2bd32f53 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/ntirpc/3.2 @@ -0,0 +1,66 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:50.368709 +## +## ntirpc@3.2%gcc@13.2.0~ipo build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-zen3/lh632kr +## + + +module-whatis {New development on tirpc} + +proc ModulesHelp { } { + puts stderr {Name : ntirpc} + puts stderr {Version: 3.2} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {New development on tirpc} +} + +conflict ntirpc + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/ntirpc-3.2/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/ntirpc-3.2/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/ntirpc-3.2/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/ntirpc-3.2/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/ntirpc-3.2/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/ntirpc-3.2/.} +setenv NTIRPC_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/ntirpc-3.2-lh632krauhdq34pqni243quukxwyebne} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/openblas/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/openblas/.modulerc new file mode 100644 index 00000000..e47b61de --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/openblas/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded openblas/0.3.28-vyye2ah diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/openblas/0.3.23 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/openblas/0.3.23 new file mode 100644 index 00000000..212b4214 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/openblas/0.3.23 @@ -0,0 +1,67 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:50.654125 +## +## openblas@0.3.23%gcc@13.2.0~bignuma~consistent_fpcsr+dynamic_dispatch+fortran~ilp64+locking+pic+shared build_system=makefile symbol_suffix=none threads=none arch=linux-ubuntu22.04-zen3/42inopb +## + + +module-whatis {OpenBLAS: An optimized BLAS library} + +proc ModulesHelp { } { + puts stderr {Name : openblas} + puts stderr {Version: 0.3.23} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {OpenBLAS: An optimized BLAS library} +} + +conflict openblas + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/openblas-0.3.23/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/openblas-0.3.23/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/openblas-0.3.23/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/openblas-0.3.23/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/openblas-0.3.23/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/openblas-0.3.23/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/openblas-0.3.23/.} +setenv OPENBLAS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/openblas-0.3.23-42inopbq44enk25yi5vj6m5nb77ywnqr} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/openblas/0.3.28-vyye2ah b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/openblas/0.3.28-vyye2ah new file mode 100644 index 00000000..718706b9 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/openblas/0.3.28-vyye2ah @@ -0,0 +1,67 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:50.700521 +## +## openblas@0.3.28%gcc@13.2.0~bignuma~consistent_fpcsr+dynamic_dispatch+fortran~ilp64+locking+pic+shared build_system=makefile patches=d0b9276 symbol_suffix=none threads=none arch=linux-ubuntu22.04-zen3/vyye2ah +## + + +module-whatis {OpenBLAS: An optimized BLAS library} + +proc ModulesHelp { } { + puts stderr {Name : openblas} + puts stderr {Version: 0.3.28} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {OpenBLAS: An optimized BLAS library} +} + +conflict openblas + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/openblas-0.3.28-vyye2ah4qz45anbafrilwg4q44gpgu4q/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/openblas-0.3.28-vyye2ah4qz45anbafrilwg4q44gpgu4q/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/openblas-0.3.28-vyye2ah4qz45anbafrilwg4q44gpgu4q/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/openblas-0.3.28-vyye2ah4qz45anbafrilwg4q44gpgu4q/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/openblas-0.3.28-vyye2ah4qz45anbafrilwg4q44gpgu4q/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/openblas-0.3.28-vyye2ah4qz45anbafrilwg4q44gpgu4q/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/openblas-0.3.28-vyye2ah4qz45anbafrilwg4q44gpgu4q/.} +setenv OPENBLAS_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/openblas-0.3.28-vyye2ah4qz45anbafrilwg4q44gpgu4q} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/openmpi/4.1.5 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/openmpi/4.1.5 new file mode 100644 index 00000000..e838caa6 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/openmpi/4.1.5 @@ -0,0 +1,83 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 16:00:09.308635 +## +## openmpi@4.1.5%gcc@13.2.0+atomics+cuda~cxx~cxx_exceptions~debug~gpfs~internal-hwloc~internal-libevent~internal-pmix~java+legacylaunchers~lustre~memchecker~openshmem~orterunprefix~pmi+romio+rsh~singularity~static~two_level_namespace+vt+wrapper-rpath build_system=autotools cuda_arch=75,86 fabrics=ucx romio-filesystem=none schedulers=slurm arch=linux-ubuntu22.04-zen3/n4rfbrm +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {An open source Message Passing Interface implementation.} + +proc ModulesHelp { } { + puts stderr {Name : openmpi} + puts stderr {Version: 4.1.5} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {An open source Message Passing Interface implementation. The Open MPI} + puts stderr {Project is an open source Message Passing Interface implementation that} + puts stderr {is developed and maintained by a consortium of academic, research, and} + puts stderr {industry partners. Open MPI is therefore able to combine the expertise,} + puts stderr {technologies, and resources from all across the High Performance} + puts stderr {Computing community in order to build the best MPI library available.} + puts stderr {Open MPI offers advantages for system and software vendors, application} + puts stderr {developers and computer science researchers.} +} + +conflict openmpi + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openmpi-4.1.5/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openmpi-4.1.5/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openmpi-4.1.5/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openmpi-4.1.5/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openmpi-4.1.5/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openmpi-4.1.5/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openmpi-4.1.5/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openmpi-4.1.5/.} +setenv MPICC {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openmpi-4.1.5/bin/mpicc} +setenv MPICXX {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openmpi-4.1.5/bin/mpic++} +setenv MPIF77 {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openmpi-4.1.5/bin/mpif77} +setenv MPIF90 {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openmpi-4.1.5/bin/mpif90} +setenv MPIFC {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openmpi-4.1.5/bin/mpifort} +setenv OPENMPI_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openmpi-4.1.5} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/openmpi/4.1.7 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/openmpi/4.1.7 new file mode 100644 index 00000000..def7e831 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/openmpi/4.1.7 @@ -0,0 +1,83 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:51.153434 +## +## openmpi@4.1.7%gcc@13.2.0+atomics+cuda~cxx~cxx_exceptions~debug~gpfs~internal-hwloc~internal-libevent~internal-pmix~java+legacylaunchers~lustre~memchecker~openshmem~orterunprefix~pmi+romio+rsh~singularity~static~two_level_namespace+vt+wrapper-rpath build_system=autotools cuda_arch=75,86 fabrics=ucx romio-filesystem=none schedulers=slurm arch=linux-ubuntu22.04-zen3/j6dzfsh +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {An open source Message Passing Interface implementation.} + +proc ModulesHelp { } { + puts stderr {Name : openmpi} + puts stderr {Version: 4.1.7} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {An open source Message Passing Interface implementation. The Open MPI} + puts stderr {Project is an open source Message Passing Interface implementation that} + puts stderr {is developed and maintained by a consortium of academic, research, and} + puts stderr {industry partners. Open MPI is therefore able to combine the expertise,} + puts stderr {technologies, and resources from all across the High Performance} + puts stderr {Computing community in order to build the best MPI library available.} + puts stderr {Open MPI offers advantages for system and software vendors, application} + puts stderr {developers and computer science researchers.} +} + +conflict openmpi + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openmpi-4.1.7/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openmpi-4.1.7/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openmpi-4.1.7/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openmpi-4.1.7/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openmpi-4.1.7/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openmpi-4.1.7/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openmpi-4.1.7/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openmpi-4.1.7/.} +setenv MPICC {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openmpi-4.1.7/bin/mpicc} +setenv MPICXX {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openmpi-4.1.7/bin/mpic++} +setenv MPIF77 {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openmpi-4.1.7/bin/mpif77} +setenv MPIF90 {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openmpi-4.1.7/bin/mpif90} +setenv MPIFC {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openmpi-4.1.7/bin/mpifort} +setenv OPENMPI_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openmpi-4.1.7} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/openmpi/5.0.5 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/openmpi/5.0.5 new file mode 100644 index 00000000..99c56290 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/openmpi/5.0.5 @@ -0,0 +1,83 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:51.211430 +## +## openmpi@5.0.5%gcc@13.2.0+atomics+cuda~debug~gpfs~internal-hwloc~internal-libevent~internal-pmix~java~lustre~memchecker~openshmem~romio+rsh~static~two_level_namespace+vt+wrapper-rpath build_system=autotools cuda_arch=75,86 fabrics=ucx romio-filesystem=nfs,quobytefs schedulers=slurm arch=linux-ubuntu22.04-zen3/zsquaxn +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {An open source Message Passing Interface implementation.} + +proc ModulesHelp { } { + puts stderr {Name : openmpi} + puts stderr {Version: 5.0.5} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {An open source Message Passing Interface implementation. The Open MPI} + puts stderr {Project is an open source Message Passing Interface implementation that} + puts stderr {is developed and maintained by a consortium of academic, research, and} + puts stderr {industry partners. Open MPI is therefore able to combine the expertise,} + puts stderr {technologies, and resources from all across the High Performance} + puts stderr {Computing community in order to build the best MPI library available.} + puts stderr {Open MPI offers advantages for system and software vendors, application} + puts stderr {developers and computer science researchers.} +} + +conflict openmpi + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openmpi-5.0.5/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openmpi-5.0.5/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openmpi-5.0.5/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openmpi-5.0.5/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openmpi-5.0.5/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openmpi-5.0.5/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openmpi-5.0.5/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openmpi-5.0.5/.} +setenv MPICC {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openmpi-5.0.5/bin/mpicc} +setenv MPICXX {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openmpi-5.0.5/bin/mpic++} +setenv MPIF77 {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openmpi-5.0.5/bin/mpif77} +setenv MPIF90 {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openmpi-5.0.5/bin/mpif90} +setenv MPIFC {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openmpi-5.0.5/bin/mpifort} +setenv OPENMPI_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openmpi-5.0.5} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/openssl/1.0.2u b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/openssl/1.0.2u new file mode 100644 index 00000000..900ac10e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/openssl/1.0.2u @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:51.281976 +## +## openssl@1.0.2u%gcc@13.2.0~docs+shared build_system=generic certs=mozilla arch=linux-ubuntu22.04-zen3/vrfskch +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {OpenSSL is an open source project that provides a robust, commercial-grade, and full-featured toolkit for the Transport Layer Security (TLS) and Secure Sockets Layer (SSL) protocols. It is also a general-purpose cryptography library.} + +proc ModulesHelp { } { + puts stderr {Name : openssl} + puts stderr {Version: 1.0.2u} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {OpenSSL is an open source project that provides a robust, commercial-} + puts stderr {grade, and full-featured toolkit for the Transport Layer Security (TLS)} + puts stderr {and Secure Sockets Layer (SSL) protocols. It is also a general-purpose} + puts stderr {cryptography library.} +} + +conflict openssl + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-1.0.2u/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-1.0.2u/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-1.0.2u/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-1.0.2u/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-1.0.2u/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-1.0.2u/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-1.0.2u/.} +setenv OPENSSL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-1.0.2u} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/openssl/1.1.1w b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/openssl/1.1.1w new file mode 100644 index 00000000..c4ed7811 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/openssl/1.1.1w @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:51.325313 +## +## openssl@1.1.1w%gcc@13.2.0~docs+shared build_system=generic certs=mozilla arch=linux-ubuntu22.04-zen3/4xwbzia +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {OpenSSL is an open source project that provides a robust, commercial-grade, and full-featured toolkit for the Transport Layer Security (TLS) and Secure Sockets Layer (SSL) protocols. It is also a general-purpose cryptography library.} + +proc ModulesHelp { } { + puts stderr {Name : openssl} + puts stderr {Version: 1.1.1w} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {OpenSSL is an open source project that provides a robust, commercial-} + puts stderr {grade, and full-featured toolkit for the Transport Layer Security (TLS)} + puts stderr {and Secure Sockets Layer (SSL) protocols. It is also a general-purpose} + puts stderr {cryptography library.} +} + +conflict openssl + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-1.1.1w/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-1.1.1w/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-1.1.1w/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-1.1.1w/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-1.1.1w/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-1.1.1w/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-1.1.1w/.} +setenv OPENSSL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-1.1.1w} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/openssl/3.0.15 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/openssl/3.0.15 new file mode 100644 index 00000000..c708dc0b --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/openssl/3.0.15 @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:51.381756 +## +## openssl@3.0.15%gcc@13.2.0~docs+shared build_system=generic certs=mozilla arch=linux-ubuntu22.04-zen3/vcsnt3b +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {OpenSSL is an open source project that provides a robust, commercial-grade, and full-featured toolkit for the Transport Layer Security (TLS) and Secure Sockets Layer (SSL) protocols. It is also a general-purpose cryptography library.} + +proc ModulesHelp { } { + puts stderr {Name : openssl} + puts stderr {Version: 3.0.15} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {OpenSSL is an open source project that provides a robust, commercial-} + puts stderr {grade, and full-featured toolkit for the Transport Layer Security (TLS)} + puts stderr {and Secure Sockets Layer (SSL) protocols. It is also a general-purpose} + puts stderr {cryptography library.} +} + +conflict openssl + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-3.0.15/lib64} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-3.0.15/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-3.0.15/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-3.0.15/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-3.0.15/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-3.0.15/lib64/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-3.0.15/.} +setenv OPENSSL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-3.0.15} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/openssl/3.1.7 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/openssl/3.1.7 new file mode 100644 index 00000000..3ff2ee2e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/openssl/3.1.7 @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:51.438880 +## +## openssl@3.1.7%gcc@13.2.0~docs+shared build_system=generic certs=mozilla arch=linux-ubuntu22.04-zen3/jr7mltd +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {OpenSSL is an open source project that provides a robust, commercial-grade, and full-featured toolkit for the Transport Layer Security (TLS) and Secure Sockets Layer (SSL) protocols. It is also a general-purpose cryptography library.} + +proc ModulesHelp { } { + puts stderr {Name : openssl} + puts stderr {Version: 3.1.7} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {OpenSSL is an open source project that provides a robust, commercial-} + puts stderr {grade, and full-featured toolkit for the Transport Layer Security (TLS)} + puts stderr {and Secure Sockets Layer (SSL) protocols. It is also a general-purpose} + puts stderr {cryptography library.} +} + +conflict openssl + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-3.1.7/lib64} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-3.1.7/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-3.1.7/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-3.1.7/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-3.1.7/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-3.1.7/lib64/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-3.1.7/.} +setenv OPENSSL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-3.1.7} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/openssl/3.2.3 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/openssl/3.2.3 new file mode 100644 index 00000000..b286227a --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/openssl/3.2.3 @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:51.482788 +## +## openssl@3.2.3%gcc@13.2.0~docs+shared build_system=generic certs=mozilla arch=linux-ubuntu22.04-zen3/eb6ey2i +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {OpenSSL is an open source project that provides a robust, commercial-grade, and full-featured toolkit for the Transport Layer Security (TLS) and Secure Sockets Layer (SSL) protocols. It is also a general-purpose cryptography library.} + +proc ModulesHelp { } { + puts stderr {Name : openssl} + puts stderr {Version: 3.2.3} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {OpenSSL is an open source project that provides a robust, commercial-} + puts stderr {grade, and full-featured toolkit for the Transport Layer Security (TLS)} + puts stderr {and Secure Sockets Layer (SSL) protocols. It is also a general-purpose} + puts stderr {cryptography library.} +} + +conflict openssl + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-3.2.3/lib64} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-3.2.3/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-3.2.3/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-3.2.3/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-3.2.3/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-3.2.3/lib64/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-3.2.3/.} +setenv OPENSSL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-3.2.3} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/openssl/3.4.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/openssl/3.4.0 new file mode 100644 index 00000000..ed6db2e1 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/openssl/3.4.0 @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:51.526651 +## +## openssl@3.4.0%gcc@13.2.0~docs+shared build_system=generic certs=mozilla arch=linux-ubuntu22.04-zen3/tcdehn7 +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {OpenSSL is an open source project that provides a robust, commercial-grade, and full-featured toolkit for the Transport Layer Security (TLS) and Secure Sockets Layer (SSL) protocols. It is also a general-purpose cryptography library.} + +proc ModulesHelp { } { + puts stderr {Name : openssl} + puts stderr {Version: 3.4.0} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {OpenSSL is an open source project that provides a robust, commercial-} + puts stderr {grade, and full-featured toolkit for the Transport Layer Security (TLS)} + puts stderr {and Secure Sockets Layer (SSL) protocols. It is also a general-purpose} + puts stderr {cryptography library.} +} + +conflict openssl + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-3.4.0/lib64} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-3.4.0/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-3.4.0/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-3.4.0/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-3.4.0/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-3.4.0/lib64/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-3.4.0/.} +setenv OPENSSL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-3.4.0} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/pcre2/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/pcre2/.modulerc new file mode 100644 index 00000000..12931485 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/pcre2/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded pcre2/10.44-hxj4sv3 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/pcre2/10.44-hxj4sv3 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/pcre2/10.44-hxj4sv3 new file mode 100644 index 00000000..33ed4108 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/pcre2/10.44-hxj4sv3 @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:52.480865 +## +## pcre2@10.44%gcc@13.2.0~jit+multibyte build_system=autotools arch=linux-ubuntu22.04-zen3/hxj4sv3 +## + + +module-whatis {The PCRE2 package contains Perl Compatible Regular Expression libraries. These are useful for implementing regular expression pattern matching using the same syntax and semantics as Perl 5.} + +proc ModulesHelp { } { + puts stderr {Name : pcre2} + puts stderr {Version: 10.44} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {The PCRE2 package contains Perl Compatible Regular Expression libraries.} + puts stderr {These are useful for implementing regular expression pattern matching} + puts stderr {using the same syntax and semantics as Perl 5.} +} + +conflict pcre2 + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/pcre2-10.44-hxj4sv3mlhotukkkiddw5i3dlyoqtmzo/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/pcre2-10.44-hxj4sv3mlhotukkkiddw5i3dlyoqtmzo/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/pcre2-10.44-hxj4sv3mlhotukkkiddw5i3dlyoqtmzo/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/pcre2-10.44-hxj4sv3mlhotukkkiddw5i3dlyoqtmzo/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/pcre2-10.44-hxj4sv3mlhotukkkiddw5i3dlyoqtmzo/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/pcre2-10.44-hxj4sv3mlhotukkkiddw5i3dlyoqtmzo/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/pcre2-10.44-hxj4sv3mlhotukkkiddw5i3dlyoqtmzo/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/pcre2-10.44-hxj4sv3mlhotukkkiddw5i3dlyoqtmzo/.} +setenv PCRE2_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/pcre2-10.44-hxj4sv3mlhotukkkiddw5i3dlyoqtmzo} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/perl/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/perl/.modulerc new file mode 100644 index 00000000..e0abae4f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/perl/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded perl/5.40.0-bctvhob diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/perl/5.40.0-bctvhob b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/perl/5.40.0-bctvhob new file mode 100644 index 00000000..e877d3e4 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/perl/5.40.0-bctvhob @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:52.534773 +## +## perl@5.40.0%gcc@13.2.0+cpanm+opcode+open+shared+threads build_system=generic arch=linux-ubuntu22.04-zen3/bctvhob +## +## Configure options: -des -Dprefix=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/perl-5.40.0-bctvhobpvgf3m7awgy6kslhulj4y4hot -Dlocincpth=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/gdbm-1.23-dpa6hz2x2kqyiu7as4rsly7qo3cejwwz/include -Dloclibpth=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/gdbm-1.23-dpa6hz2x2kqyiu7as4rsly7qo3cejwwz/lib -Accflags=-DAPPLLIB_EXP=\"/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/perl-5.40.0-bctvhobpvgf3m7awgy6kslhulj4y4hot/lib/perl5\" -Duseshrplib -Dusethreads +## + + +module-whatis {Perl 5 is a highly capable, feature-rich programming language with over 27 years of development.} + +proc ModulesHelp { } { + puts stderr {Name : perl} + puts stderr {Version: 5.40.0} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {Perl 5 is a highly capable, feature-rich programming language with over} + puts stderr {27 years of development.} +} + +conflict perl + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/perl-5.40.0-bctvhobpvgf3m7awgy6kslhulj4y4hot/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/perl-5.40.0-bctvhobpvgf3m7awgy6kslhulj4y4hot/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/perl-5.40.0-bctvhobpvgf3m7awgy6kslhulj4y4hot/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/perl-5.40.0-bctvhobpvgf3m7awgy6kslhulj4y4hot/.} +setenv PERL_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/perl-5.40.0-bctvhobpvgf3m7awgy6kslhulj4y4hot} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/pigz/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/pigz/.modulerc new file mode 100644 index 00000000..d31801dc --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/pigz/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded pigz/2.8-cszr3hg diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/pigz/2.8-cszr3hg b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/pigz/2.8-cszr3hg new file mode 100644 index 00000000..f4b4a0c8 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/pigz/2.8-cszr3hg @@ -0,0 +1,65 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.542868 +## +## pigz@2.8%gcc@13.2.0 build_system=makefile arch=linux-ubuntu22.04-zen3/cszr3hg +## + + +module-whatis {A parallel implementation of gzip for modern multi-processor, multi-core machines.} + +proc ModulesHelp { } { + puts stderr {Name : pigz} + puts stderr {Version: 2.8} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {A parallel implementation of gzip for modern multi-processor, multi-core} + puts stderr {machines.} +} + +conflict pigz + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/pigz-2.8-cszr3hg27dwcdceym2xvvffb7sqzznxa/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/pigz-2.8-cszr3hg27dwcdceym2xvvffb7sqzznxa/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/pigz-2.8-cszr3hg27dwcdceym2xvvffb7sqzznxa/.} +setenv PIGZ_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/pigz-2.8-cszr3hg27dwcdceym2xvvffb7sqzznxa} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/pkgconf/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/pkgconf/.modulerc new file mode 100644 index 00000000..0c690c60 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/pkgconf/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded pkgconf/2.2.0-xe2c2ii diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/pkgconf/2.2.0-xe2c2ii b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/pkgconf/2.2.0-xe2c2ii new file mode 100644 index 00000000..0e6fb631 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/pkgconf/2.2.0-xe2c2ii @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.625414 +## +## pkgconf@2.2.0%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-zen3/xe2c2ii +## + + +module-whatis {pkgconf is a program which helps to configure compiler and linker flags for development frameworks. It is similar to pkg-config from freedesktop.org, providing additional functionality while also maintaining compatibility.} + +proc ModulesHelp { } { + puts stderr {Name : pkgconf} + puts stderr {Version: 2.2.0} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {pkgconf is a program which helps to configure compiler and linker flags} + puts stderr {for development frameworks. It is similar to pkg-config from} + puts stderr {freedesktop.org, providing additional functionality while also} + puts stderr {maintaining compatibility.} +} + +conflict pkgconf + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/pkgconf-2.2.0-xe2c2iij537hrxjs6vi5z2n35vsw3op2/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/pkgconf-2.2.0-xe2c2iij537hrxjs6vi5z2n35vsw3op2/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/pkgconf-2.2.0-xe2c2iij537hrxjs6vi5z2n35vsw3op2/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/pkgconf-2.2.0-xe2c2iij537hrxjs6vi5z2n35vsw3op2/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/pkgconf-2.2.0-xe2c2iij537hrxjs6vi5z2n35vsw3op2/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/pkgconf-2.2.0-xe2c2iij537hrxjs6vi5z2n35vsw3op2/share/man} +prepend-path ACLOCAL_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/pkgconf-2.2.0-xe2c2iij537hrxjs6vi5z2n35vsw3op2/share/aclocal} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/pkgconf-2.2.0-xe2c2iij537hrxjs6vi5z2n35vsw3op2/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/pkgconf-2.2.0-xe2c2iij537hrxjs6vi5z2n35vsw3op2/.} +setenv PKGCONF_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/pkgconf-2.2.0-xe2c2iij537hrxjs6vi5z2n35vsw3op2} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/plumed/2.8.2 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/plumed/2.8.2 new file mode 100644 index 00000000..f234ff7c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/plumed/2.8.2 @@ -0,0 +1,76 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.747697 +## +## plumed@2.8.2%gcc@13.2.0+gsl~mpi+shared arrayfire=none build_system=autotools optional_modules=all arch=linux-ubuntu22.04-zen3/7htyjkp +## +## Configure options: --disable-ld-r LDFLAGS=-L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/gsl-2.8-sxn4g2vygpeeqp6ahytdidouwyj3d2hu/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/openblas-0.3.28-vyye2ah4qz45anbafrilwg4q44gpgu4q/lib -lgsl -lopenblas --enable-shared=yes --enable-gsl=yes --enable-af_cpu=no --enable-af_cuda=no --enable-af_ocl=no --enable-modules=all +## + + +module-whatis {PLUMED is an open source library for free energy calculations in molecular systems which works together with some of the most popular molecular dynamics engines.} + +proc ModulesHelp { } { + puts stderr {Name : plumed} + puts stderr {Version: 2.8.2} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {PLUMED is an open source library for free energy calculations in} + puts stderr {molecular systems which works together with some of the most popular} + puts stderr {molecular dynamics engines. Free energy calculations can be performed as} + puts stderr {a function of many order parameters with a particular focus on} + puts stderr {biological problems, using state of the art methods such as} + puts stderr {metadynamics, umbrella sampling and Jarzynski-equation based steered MD.} + puts stderr {The software, written in C++, can be easily interfaced with both fortran} + puts stderr {and C/C++ codes.} +} + +conflict plumed + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/plumed-2.8.2/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/plumed-2.8.2/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/plumed-2.8.2/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/plumed-2.8.2/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/plumed-2.8.2/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/plumed-2.8.2/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/plumed-2.8.2/.} +setenv PLUMED_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/plumed-2.8.2-7htyjkpqojfvbqfhfdq2lctt7t4uwldz} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/pmix/4.2.9 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/pmix/4.2.9 new file mode 100644 index 00000000..8b8c2c60 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/pmix/4.2.9 @@ -0,0 +1,87 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.818591 +## +## pmix@4.2.9%gcc@13.2.0~munge~python~restful build_system=autotools arch=linux-ubuntu22.04-zen3/mzacwv7 +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {The Process Management Interface (PMI) has been used for quite some time as a means of exchanging wireup information needed for interprocess communication. However, meeting the significant orchestration challenges presented by exascale systems requires that the process-to-system interface evolve to permit a tighter integration between the different components of the parallel application and existing and future SMS solutions.} + +proc ModulesHelp { } { + puts stderr {Name : pmix} + puts stderr {Version: 4.2.9} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {The Process Management Interface (PMI) has been used for quite some time} + puts stderr {as a means of exchanging wireup information needed for interprocess} + puts stderr {communication. However, meeting the significant orchestration challenges} + puts stderr {presented by exascale systems requires that the process-to-system} + puts stderr {interface evolve to permit a tighter integration between the different} + puts stderr {components of the parallel application and existing and future SMS} + puts stderr {solutions. PMI Exascale (PMIx) addresses these needs by providing an} + puts stderr {extended version of the PMI definitions specifically designed to support} + puts stderr {exascale and beyond environments by: (a) adding flexibility to the} + puts stderr {functionality expressed in the existing APIs, (b) augmenting the} + puts stderr {interfaces with new APIs that provide extended capabilities, (c) forging} + puts stderr {a collaboration between subsystem providers including resource manager,} + puts stderr {fabric, file system, and programming library developers, (d)} + puts stderr {establishing a standards-like body for maintaining the definitions, and} + puts stderr {(e) providing a reference implementation of the PMIx standard that} + puts stderr {demonstrates the desired level of scalability while maintaining strict} + puts stderr {separation between it and the standard itself.} +} + +conflict pmix + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/pmix-4.2.9/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/pmix-4.2.9/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/pmix-4.2.9/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/pmix-4.2.9/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/pmix-4.2.9/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/pmix-4.2.9/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/pmix-4.2.9/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/pmix-4.2.9/.} +setenv PMIX_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/pmix-4.2.9} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/pmix/5.0.3 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/pmix/5.0.3 new file mode 100644 index 00000000..d827b050 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/pmix/5.0.3 @@ -0,0 +1,87 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:48:54.875190 +## +## pmix@5.0.3%gcc@13.2.0~munge~python~restful build_system=autotools arch=linux-ubuntu22.04-zen3/fbcdgpn +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {The Process Management Interface (PMI) has been used for quite some time as a means of exchanging wireup information needed for interprocess communication. However, meeting the significant orchestration challenges presented by exascale systems requires that the process-to-system interface evolve to permit a tighter integration between the different components of the parallel application and existing and future SMS solutions.} + +proc ModulesHelp { } { + puts stderr {Name : pmix} + puts stderr {Version: 5.0.3} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {The Process Management Interface (PMI) has been used for quite some time} + puts stderr {as a means of exchanging wireup information needed for interprocess} + puts stderr {communication. However, meeting the significant orchestration challenges} + puts stderr {presented by exascale systems requires that the process-to-system} + puts stderr {interface evolve to permit a tighter integration between the different} + puts stderr {components of the parallel application and existing and future SMS} + puts stderr {solutions. PMI Exascale (PMIx) addresses these needs by providing an} + puts stderr {extended version of the PMI definitions specifically designed to support} + puts stderr {exascale and beyond environments by: (a) adding flexibility to the} + puts stderr {functionality expressed in the existing APIs, (b) augmenting the} + puts stderr {interfaces with new APIs that provide extended capabilities, (c) forging} + puts stderr {a collaboration between subsystem providers including resource manager,} + puts stderr {fabric, file system, and programming library developers, (d)} + puts stderr {establishing a standards-like body for maintaining the definitions, and} + puts stderr {(e) providing a reference implementation of the PMIx standard that} + puts stderr {demonstrates the desired level of scalability while maintaining strict} + puts stderr {separation between it and the standard itself.} +} + +conflict pmix + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/pmix-5.0.3/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/pmix-5.0.3/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/pmix-5.0.3/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/pmix-5.0.3/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/pmix-5.0.3/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/pmix-5.0.3/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/pmix-5.0.3/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/pmix-5.0.3/.} +setenv PMIX_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/pmix-5.0.3} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/py-numpy/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/py-numpy/.modulerc new file mode 100644 index 00000000..4c44beee --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/py-numpy/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded py-numpy/2.1.2-jkfklhx diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/py-numpy/2.1.2-jkfklhx b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/py-numpy/2.1.2-jkfklhx new file mode 100644 index 00000000..36ac7ec4 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/py-numpy/2.1.2-jkfklhx @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:34.333614 +## +## py-numpy@2.1.2%gcc@13.2.0 build_system=python_pip patches=873745d arch=linux-ubuntu22.04-zen3/jkfklhx +## + + +module-whatis {Fundamental package for array computing in Python.} + +proc ModulesHelp { } { + puts stderr {Name : py-numpy} + puts stderr {Version: 2.1.2} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {Fundamental package for array computing in Python.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9-vsxht6m + module load python-venv/1.0-6be6x2t +} else { + depends-on python/3.11.9-vsxht6m + depends-on python-venv/1.0-6be6x2t +} +conflict py-numpy + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/py-numpy-2.1.2-jkfklhxyxtguhpkr4ok6cwpeqlqisnii/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/py-numpy-2.1.2-jkfklhxyxtguhpkr4ok6cwpeqlqisnii/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/py-numpy-2.1.2-jkfklhxyxtguhpkr4ok6cwpeqlqisnii/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/py-numpy-2.1.2-jkfklhxyxtguhpkr4ok6cwpeqlqisnii/lib/python3.11/site-packages} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/py-numpy-2.1.2-jkfklhxyxtguhpkr4ok6cwpeqlqisnii/bin} +setenv PY_NUMPY_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/py-numpy-2.1.2-jkfklhxyxtguhpkr4ok6cwpeqlqisnii} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/python-venv/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/python-venv/.modulerc new file mode 100644 index 00000000..b2775b32 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/python-venv/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded python-venv/1.0-6be6x2t diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/python-venv/1.0-6be6x2t b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/python-venv/1.0-6be6x2t new file mode 100644 index 00000000..5eef25a4 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/python-venv/1.0-6be6x2t @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:56.254980 +## +## python-venv@1.0%gcc@13.2.0 build_system=generic arch=linux-ubuntu22.04-zen3/6be6x2t +## + + +module-whatis {A Spack managed Python virtual environment} + +proc ModulesHelp { } { + puts stderr {Name : python-venv} + puts stderr {Version: 1.0} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {A Spack managed Python virtual environment} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load python/3.11.9-vsxht6m +} else { + depends-on python/3.11.9-vsxht6m +} +conflict python-venv + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/python-venv-1.0-6be6x2tgavriuhsqde5xyqfpqnw63vul/lib64} +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/python-venv-1.0-6be6x2tgavriuhsqde5xyqfpqnw63vul/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/python-venv-1.0-6be6x2tgavriuhsqde5xyqfpqnw63vul/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/python-venv-1.0-6be6x2tgavriuhsqde5xyqfpqnw63vul/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/python-venv-1.0-6be6x2tgavriuhsqde5xyqfpqnw63vul/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/python-venv-1.0-6be6x2tgavriuhsqde5xyqfpqnw63vul/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/python-venv-1.0-6be6x2tgavriuhsqde5xyqfpqnw63vul/.} +prepend-path PYTHONPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/python-venv-1.0-6be6x2tgavriuhsqde5xyqfpqnw63vul/lib/python3.11/site-packages} +setenv PYTHON_VENV_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/python-venv-1.0-6be6x2tgavriuhsqde5xyqfpqnw63vul} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/python/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/python/.modulerc new file mode 100644 index 00000000..635a1280 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/python/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded python/3.11.9-vsxht6m diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/python/3.11.9-vsxht6m b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/python/3.11.9-vsxht6m new file mode 100644 index 00000000..87f94124 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/python/3.11.9-vsxht6m @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:56.099255 +## +## python@3.11.9%gcc@13.2.0+bz2+crypt+ctypes+dbm~debug+libxml2+lzma~nis~optimizations+pic+pyexpat+pythoncmd+readline+shared+sqlite3+ssl~tkinter+uuid+zlib build_system=generic patches=13fa8bf,b0615b2,ebdca64,f2fd060 arch=linux-ubuntu22.04-zen3/vsxht6m +## +## Configure options: CPPFLAGS=-I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/bzip2-1.0.8-wz4eegz6ceqpftqmadi7inc5zosgctzt/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/expat-2.6.4-xfou2yvufdkg3phfifxc5s5d6lafc3pk/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-x86_64_v3/gcc-13.2.0/gcc-runtime-13.2.0-y4ja4trdxkpuyidxmq3vwsmylih2czjs/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/gdbm-1.23-dpa6hz2x2kqyiu7as4rsly7qo3cejwwz/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/gettext-0.22.5-v4szz4ygfb3p5jkjflgjndkgoswzkmrt/include -I/usr/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libffi-3.4.6-i3o5gewxauoumplqmbw7uukm7jp2nbxk/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libxcrypt-4.4.35-wctjlpi7jfd7es6zuvi7z3ymktiwzrqq/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/ncurses-6.5-j3qv5kkifxgwhngmeenblsyaaxjjzbug/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-3.4.0/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/readline-8.2-bowprxz4bqhjxye2pqy3zp4jnqsnrpne/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/sqlite-3.46.0-zyb755rznsdxmi6lcli4jror4cnmngpv/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/util-linux-uuid-2.40.2-ecrfyzic2fwjavq27h4bpzec7z2qetxb/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/xz-5.4.6-a24paznjicffunpkddbatriorqbvkmr7/include -I/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/zlib-ng-2.2.1-nq2fn2zk7neqnk5x5huakun5ooot4p2v/include LDFLAGS=-L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/bzip2-1.0.8-wz4eegz6ceqpftqmadi7inc5zosgctzt/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/expat-2.6.4-xfou2yvufdkg3phfifxc5s5d6lafc3pk/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/gdbm-1.23-dpa6hz2x2kqyiu7as4rsly7qo3cejwwz/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/gettext-0.22.5-v4szz4ygfb3p5jkjflgjndkgoswzkmrt/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libffi-3.4.6-i3o5gewxauoumplqmbw7uukm7jp2nbxk/lib64 -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libxcrypt-4.4.35-wctjlpi7jfd7es6zuvi7z3ymktiwzrqq/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/ncurses-6.5-j3qv5kkifxgwhngmeenblsyaaxjjzbug/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-3.4.0/lib64 -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/readline-8.2-bowprxz4bqhjxye2pqy3zp4jnqsnrpne/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/sqlite-3.46.0-zyb755rznsdxmi6lcli4jror4cnmngpv/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/util-linux-uuid-2.40.2-ecrfyzic2fwjavq27h4bpzec7z2qetxb/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/xz-5.4.6-a24paznjicffunpkddbatriorqbvkmr7/lib -L/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/zlib-ng-2.2.1-nq2fn2zk7neqnk5x5huakun5ooot4p2v/lib --without-pydebug --enable-shared --without-ensurepip --with-openssl=/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/openssl-3.4.0 --with-dbmliborder=gdbm --with-system-expat --with-system-ffi --enable-loadable-sqlite-extensions CFLAGS=-fPIC +## + + +module-whatis {The Python programming language.} + +proc ModulesHelp { } { + puts stderr {Name : python} + puts stderr {Version: 3.11.9} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {The Python programming language.} +} + +conflict python + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/python-3.11.9-vsxht6m7dqhbqjq2lsau3e2nyo3jrly3/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/python-3.11.9-vsxht6m7dqhbqjq2lsau3e2nyo3jrly3/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/python-3.11.9-vsxht6m7dqhbqjq2lsau3e2nyo3jrly3/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/python-3.11.9-vsxht6m7dqhbqjq2lsau3e2nyo3jrly3/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/python-3.11.9-vsxht6m7dqhbqjq2lsau3e2nyo3jrly3/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/python-3.11.9-vsxht6m7dqhbqjq2lsau3e2nyo3jrly3/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/python-3.11.9-vsxht6m7dqhbqjq2lsau3e2nyo3jrly3/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/python-3.11.9-vsxht6m7dqhbqjq2lsau3e2nyo3jrly3/.} +setenv PYTHON_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/python-3.11.9-vsxht6m7dqhbqjq2lsau3e2nyo3jrly3} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/readline/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/readline/.modulerc new file mode 100644 index 00000000..36ccfefb --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/readline/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded readline/8.2-bowprxz diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/readline/8.2-bowprxz b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/readline/8.2-bowprxz new file mode 100644 index 00000000..3133b2d9 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/readline/8.2-bowprxz @@ -0,0 +1,74 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:56.645386 +## +## readline@8.2%gcc@13.2.0 build_system=autotools patches=bbf97f1 arch=linux-ubuntu22.04-zen3/bowprxz +## + + +module-whatis {The GNU Readline library provides a set of functions for use by applications that allow users to edit command lines as they are typed in. Both Emacs and vi editing modes are available. The Readline library includes additional functions to maintain a list of previously-entered command lines, to recall and perhaps reedit those lines, and perform csh-like history expansion on previous commands.} + +proc ModulesHelp { } { + puts stderr {Name : readline} + puts stderr {Version: 8.2} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {The GNU Readline library provides a set of functions for use by} + puts stderr {applications that allow users to edit command lines as they are typed} + puts stderr {in. Both Emacs and vi editing modes are available. The Readline library} + puts stderr {includes additional functions to maintain a list of previously-entered} + puts stderr {command lines, to recall and perhaps reedit those lines, and perform} + puts stderr {csh-like history expansion on previous commands.} +} + +conflict readline + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/readline-8.2-bowprxz4bqhjxye2pqy3zp4jnqsnrpne/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/readline-8.2-bowprxz4bqhjxye2pqy3zp4jnqsnrpne/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/readline-8.2-bowprxz4bqhjxye2pqy3zp4jnqsnrpne/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/readline-8.2-bowprxz4bqhjxye2pqy3zp4jnqsnrpne/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/readline-8.2-bowprxz4bqhjxye2pqy3zp4jnqsnrpne/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/readline-8.2-bowprxz4bqhjxye2pqy3zp4jnqsnrpne/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/readline-8.2-bowprxz4bqhjxye2pqy3zp4jnqsnrpne/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/readline-8.2-bowprxz4bqhjxye2pqy3zp4jnqsnrpne/.} +setenv READLINE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/readline-8.2-bowprxz4bqhjxye2pqy3zp4jnqsnrpne} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/rpcsvc-proto/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/rpcsvc-proto/.modulerc new file mode 100644 index 00000000..165b4ff6 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/rpcsvc-proto/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded rpcsvc-proto/1.4.4-kucncb5 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/rpcsvc-proto/1.4.4-kucncb5 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/rpcsvc-proto/1.4.4-kucncb5 new file mode 100644 index 00000000..c4a1a78d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/rpcsvc-proto/1.4.4-kucncb5 @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:58.271780 +## +## rpcsvc-proto@1.4.4%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-zen3/kucncb5 +## +## Configure options: LIBS=-lintl +## + + +module-whatis {rpcsvc protocol definitions from glibc.} + +proc ModulesHelp { } { + puts stderr {Name : rpcsvc-proto} + puts stderr {Version: 1.4.4} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {rpcsvc protocol definitions from glibc.} +} + +conflict rpcsvc-proto + +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/rpcsvc-proto-1.4.4-kucncb56ggnuzo7ixbvqfr43jewphhis/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/rpcsvc-proto-1.4.4-kucncb56ggnuzo7ixbvqfr43jewphhis/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/rpcsvc-proto-1.4.4-kucncb56ggnuzo7ixbvqfr43jewphhis/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/rpcsvc-proto-1.4.4-kucncb56ggnuzo7ixbvqfr43jewphhis/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/rpcsvc-proto-1.4.4-kucncb56ggnuzo7ixbvqfr43jewphhis/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/rpcsvc-proto-1.4.4-kucncb56ggnuzo7ixbvqfr43jewphhis/.} +setenv RPCSVC_PROTO_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/rpcsvc-proto-1.4.4-kucncb56ggnuzo7ixbvqfr43jewphhis} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/snappy/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/snappy/.modulerc new file mode 100644 index 00000000..a0d52315 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/snappy/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded snappy/1.2.1-q5tnewg diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/snappy/1.2.1-q5tnewg b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/snappy/1.2.1-q5tnewg new file mode 100644 index 00000000..6aead0e3 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/snappy/1.2.1-q5tnewg @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:59.025116 +## +## snappy@1.2.1%gcc@13.2.0~ipo+pic+shared build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-zen3/q5tnewg +## +## Configure options: -DCMAKE_INSTALL_LIBDIR:STRING=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/snappy-1.2.1-q5tnewghy4fsanf4qhpqy2daedckx5tq/lib -DBUILD_SHARED_LIBS:BOOL=ON -DSNAPPY_BUILD_TESTS:BOOL=OFF -DSNAPPY_BUILD_BENCHMARKS:STRING=OFF +## + + +module-whatis {A fast compressor/decompressor: https://code.google.com/p/snappy} + +proc ModulesHelp { } { + puts stderr {Name : snappy} + puts stderr {Version: 1.2.1} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {A fast compressor/decompressor: https://code.google.com/p/snappy} +} + +conflict snappy + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/snappy-1.2.1-q5tnewghy4fsanf4qhpqy2daedckx5tq/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/snappy-1.2.1-q5tnewghy4fsanf4qhpqy2daedckx5tq/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/snappy-1.2.1-q5tnewghy4fsanf4qhpqy2daedckx5tq/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/snappy-1.2.1-q5tnewghy4fsanf4qhpqy2daedckx5tq/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/snappy-1.2.1-q5tnewghy4fsanf4qhpqy2daedckx5tq/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/snappy-1.2.1-q5tnewghy4fsanf4qhpqy2daedckx5tq/.} +setenv SNAPPY_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/snappy-1.2.1-q5tnewghy4fsanf4qhpqy2daedckx5tq} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/spglib/2.0.2 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/spglib/2.0.2 new file mode 100644 index 00000000..c6a67718 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/spglib/2.0.2 @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:59.146339 +## +## spglib@2.0.2%gcc@13.2.0+fortran~ipo+openmp build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-zen3/maek2zy +## +## Configure options: -DUSE_OMP:BOOL=ON -DWITH_Fortran:BOOL=ON +## + + +module-whatis {C library for finding and handling crystal symmetries.} + +proc ModulesHelp { } { + puts stderr {Name : spglib} + puts stderr {Version: 2.0.2} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {C library for finding and handling crystal symmetries.} +} + +conflict spglib + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/spglib-2.0.2/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/spglib-2.0.2/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/spglib-2.0.2/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/spglib-2.0.2/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/spglib-2.0.2/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/spglib-2.0.2/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/spglib-2.0.2/.} +setenv SPGLIB_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/spglib-2.0.2-maek2zy7j55j5otbbyzfpfr5yt5hkmvk} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/sqlite/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/sqlite/.modulerc new file mode 100644 index 00000000..0036d51f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/sqlite/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded sqlite/3.46.0-zyb755r diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/sqlite/3.46.0-zyb755r b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/sqlite/3.46.0-zyb755r new file mode 100644 index 00000000..f036bbb3 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/sqlite/3.46.0-zyb755r @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:59.211131 +## +## sqlite@3.46.0%gcc@13.2.0+column_metadata+dynamic_extensions+fts~functions+rtree build_system=autotools arch=linux-ubuntu22.04-zen3/zyb755r +## + + +module-whatis {SQLite is a C-language library that implements a small, fast, self-contained, high-reliability, full-featured, SQL database engine. } + +proc ModulesHelp { } { + puts stderr {Name : sqlite} + puts stderr {Version: 3.46.0} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {SQLite is a C-language library that implements a small, fast, self-} + puts stderr {contained, high-reliability, full-featured, SQL database engine.} +} + +conflict sqlite + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/sqlite-3.46.0-zyb755rznsdxmi6lcli4jror4cnmngpv/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/sqlite-3.46.0-zyb755rznsdxmi6lcli4jror4cnmngpv/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/sqlite-3.46.0-zyb755rznsdxmi6lcli4jror4cnmngpv/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/sqlite-3.46.0-zyb755rznsdxmi6lcli4jror4cnmngpv/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/sqlite-3.46.0-zyb755rznsdxmi6lcli4jror4cnmngpv/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/sqlite-3.46.0-zyb755rznsdxmi6lcli4jror4cnmngpv/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/sqlite-3.46.0-zyb755rznsdxmi6lcli4jror4cnmngpv/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/sqlite-3.46.0-zyb755rznsdxmi6lcli4jror4cnmngpv/.} +setenv SQLITE_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/sqlite-3.46.0-zyb755rznsdxmi6lcli4jror4cnmngpv} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/swig/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/swig/.modulerc new file mode 100644 index 00000000..b78e02a2 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/swig/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded swig/4.1.1-qbj5shh diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/swig/4.1.1-qbj5shh b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/swig/4.1.1-qbj5shh new file mode 100644 index 00000000..b2cbcfcb --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/swig/4.1.1-qbj5shh @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:59.375885 +## +## swig@4.1.1%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-zen3/qbj5shh +## + + +module-whatis {SWIG is an interface compiler that connects programs written in C and C++ with scripting languages such as Perl, Python, Ruby, and Tcl. It works by taking the declarations found in C/C++ header files and using them to generate the wrapper code that scripting languages need to access the underlying C/C++ code. In addition, SWIG provides a variety of customization features that let you tailor the wrapping process to suit your application.} + +proc ModulesHelp { } { + puts stderr {Name : swig} + puts stderr {Version: 4.1.1} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {SWIG is an interface compiler that connects programs written in C and} + puts stderr {C++ with scripting languages such as Perl, Python, Ruby, and Tcl. It} + puts stderr {works by taking the declarations found in C/C++ header files and using} + puts stderr {them to generate the wrapper code that scripting languages need to} + puts stderr {access the underlying C/C++ code. In addition, SWIG provides a variety} + puts stderr {of customization features that let you tailor the wrapping process to} + puts stderr {suit your application.} +} + +conflict swig + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/swig-4.1.1-qbj5shhlk7k2i3hmly2dsrnv6a3iqd7p/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/swig-4.1.1-qbj5shhlk7k2i3hmly2dsrnv6a3iqd7p/.} +setenv SWIG_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/swig-4.1.1-qbj5shhlk7k2i3hmly2dsrnv6a3iqd7p} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/tar/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/tar/.modulerc new file mode 100644 index 00000000..42084c8d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/tar/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded tar/1.34-5wzmjjt diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/tar/1.34-5wzmjjt b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/tar/1.34-5wzmjjt new file mode 100644 index 00000000..3484b947 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/tar/1.34-5wzmjjt @@ -0,0 +1,78 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:59.493775 +## +## tar@1.34%gcc@13.2.0 build_system=autotools zip=pigz arch=linux-ubuntu22.04-zen3/5wzmjjt +## +## Configure options: --with-xz=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/xz-5.4.6-a24paznjicffunpkddbatriorqbvkmr7/bin/xz --with-lzma=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/xz-5.4.6-a24paznjicffunpkddbatriorqbvkmr7/bin/lzma --with-bzip2=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/bzip2-1.0.8-wz4eegz6ceqpftqmadi7inc5zosgctzt/bin/bzip2 --with-libiconv-prefix=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/libiconv-1.17-wgio5ewy4elzhzv3pnxy7gzyoowgxmp6 --with-zstd=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/zstd-1.5.6-vrlio3vbrejrxkn6beizdks2i66qczq5/bin/zstd --with-gzip=/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/pigz-2.8-cszr3hg27dwcdceym2xvvffb7sqzznxa/bin/pigz +## + + +module-whatis {GNU Tar provides the ability to create tar archives, as well as various other kinds of manipulation.} + +proc ModulesHelp { } { + puts stderr {Name : tar} + puts stderr {Version: 1.34} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {GNU Tar provides the ability to create tar archives, as well as various} + puts stderr {other kinds of manipulation.} +} + +if {![info exists ::env(LMOD_VERSION_MAJOR)]} { + module load bzip2/1.0.8 + module load pigz/2.8-cszr3hg + module load xz/5.4.6-a24pazn + module load zstd/1.5.6-vrlio3v +} else { + depends-on bzip2/1.0.8 + depends-on pigz/2.8-cszr3hg + depends-on xz/5.4.6-a24pazn + depends-on zstd/1.5.6-vrlio3v +} +conflict tar + +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/tar-1.34-5wzmjjttmzrypknc2m3tewb7d24kbc3o/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/tar-1.34-5wzmjjttmzrypknc2m3tewb7d24kbc3o/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/tar-1.34-5wzmjjttmzrypknc2m3tewb7d24kbc3o/.} +setenv TAR_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/tar-1.34-5wzmjjttmzrypknc2m3tewb7d24kbc3o} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/texinfo/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/texinfo/.modulerc new file mode 100644 index 00000000..80da8245 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/texinfo/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded texinfo/7.1-5coto7g diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/texinfo/7.1-5coto7g b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/texinfo/7.1-5coto7g new file mode 100644 index 00000000..8d928c9c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/texinfo/7.1-5coto7g @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:49:59.594526 +## +## texinfo@7.1%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-zen3/5coto7g +## + + +module-whatis {Texinfo is the official documentation format of the GNU project.} + +proc ModulesHelp { } { + puts stderr {Name : texinfo} + puts stderr {Version: 7.1} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {Texinfo is the official documentation format of the GNU project. It was} + puts stderr {invented by Richard Stallman and Bob Chassell many years ago, loosely} + puts stderr {based on Brian Reid's Scribe and other formatting languages of the time.} + puts stderr {It is used by many non-GNU projects as well.} +} + +conflict texinfo + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/texinfo-7.1-5coto7gkwhkhdqiajxjocy4kwmons6nh/lib} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/texinfo-7.1-5coto7gkwhkhdqiajxjocy4kwmons6nh/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/texinfo-7.1-5coto7gkwhkhdqiajxjocy4kwmons6nh/share/man} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/texinfo-7.1-5coto7gkwhkhdqiajxjocy4kwmons6nh/.} +setenv TEXINFO_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/texinfo-7.1-5coto7gkwhkhdqiajxjocy4kwmons6nh} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/ucx/1.17.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/ucx/1.17.0 new file mode 100644 index 00000000..4d924419 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/ucx/1.17.0 @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:00.084797 +## +## ucx@1.17.0%gcc@13.2.0~assertions~backtrace_detail~cma~cuda~dc~debug~dm+examples~gdrcopy~gtest~ib_hw_tm~java~knem~logging~mlx5_dv+openmp+optimizations~parameter_checking+pic~rc~rdmacm~rocm+thread_multiple~ucg~ud~verbs~vfs~xpmem build_system=autotools libs=shared,static opt=3 simd=auto arch=linux-ubuntu22.04-zen3/dvleulj +## +## Configure options: unknown, software installed outside of Spack +## + + +module-whatis {a communication library implementing high-performance messaging for MPI/PGAS frameworks} + +proc ModulesHelp { } { + puts stderr {Name : ucx} + puts stderr {Version: 1.17.0} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {a communication library implementing high-performance messaging for} + puts stderr {MPI/PGAS frameworks} +} + +conflict ucx + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/ucx-1.17.0/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/ucx-1.17.0/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/ucx-1.17.0/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/ucx-1.17.0/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/ucx-1.17.0/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/ucx-1.17.0/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/ucx-1.17.0/.} +setenv UCX_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/core/view/zen3/ucx-1.17.0} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/userspace-rcu/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/userspace-rcu/.modulerc new file mode 100644 index 00000000..b97743d8 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/userspace-rcu/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded userspace-rcu/0.13.1-wa5zo5k diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/userspace-rcu/0.13.1-wa5zo5k b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/userspace-rcu/0.13.1-wa5zo5k new file mode 100644 index 00000000..b88e36c8 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/userspace-rcu/0.13.1-wa5zo5k @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:00.127797 +## +## userspace-rcu@0.13.1%gcc@13.2.0 build_system=autotools patches=49aa8fa arch=linux-ubuntu22.04-zen3/wa5zo5k +## + + +module-whatis {liburcu is a LGPLv2.1 userspace RCU (read-copy-update) library. This data synchronization library provides read-side access which scales linearly with the number of cores.} + +proc ModulesHelp { } { + puts stderr {Name : userspace-rcu} + puts stderr {Version: 0.13.1} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {liburcu is a LGPLv2.1 userspace RCU (read-copy-update) library. This} + puts stderr {data synchronization library provides read-side access which scales} + puts stderr {linearly with the number of cores.} +} + +conflict userspace-rcu + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/userspace-rcu-0.13.1-wa5zo5kogf2buccyt5nvay5ytlpk5rq2/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/userspace-rcu-0.13.1-wa5zo5kogf2buccyt5nvay5ytlpk5rq2/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/userspace-rcu-0.13.1-wa5zo5kogf2buccyt5nvay5ytlpk5rq2/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/userspace-rcu-0.13.1-wa5zo5kogf2buccyt5nvay5ytlpk5rq2/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/userspace-rcu-0.13.1-wa5zo5kogf2buccyt5nvay5ytlpk5rq2/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/userspace-rcu-0.13.1-wa5zo5kogf2buccyt5nvay5ytlpk5rq2/.} +setenv USERSPACE_RCU_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/userspace-rcu-0.13.1-wa5zo5kogf2buccyt5nvay5ytlpk5rq2} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/util-linux-uuid/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/util-linux-uuid/.modulerc new file mode 100644 index 00000000..f5b915ec --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/util-linux-uuid/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded util-linux-uuid/2.40.2-ecrfyzi diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/util-linux-uuid/2.40.2-ecrfyzi b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/util-linux-uuid/2.40.2-ecrfyzi new file mode 100644 index 00000000..30345427 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/util-linux-uuid/2.40.2-ecrfyzi @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:00.165206 +## +## util-linux-uuid@2.40.2%gcc@13.2.0 build_system=autotools arch=linux-ubuntu22.04-zen3/ecrfyzi +## +## Configure options: --disable-use-tty-group --disable-makeinstall-chown --without-systemd --disable-all-programs --without-python --enable-libuuid --disable-bash-completion +## + + +module-whatis {Util-linux is a suite of essential utilities for any Linux system.} + +proc ModulesHelp { } { + puts stderr {Name : util-linux-uuid} + puts stderr {Version: 2.40.2} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {Util-linux is a suite of essential utilities for any Linux system.} +} + +conflict util-linux-uuid + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/util-linux-uuid-2.40.2-ecrfyzic2fwjavq27h4bpzec7z2qetxb/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/util-linux-uuid-2.40.2-ecrfyzic2fwjavq27h4bpzec7z2qetxb/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/util-linux-uuid-2.40.2-ecrfyzic2fwjavq27h4bpzec7z2qetxb/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/util-linux-uuid-2.40.2-ecrfyzic2fwjavq27h4bpzec7z2qetxb/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/util-linux-uuid-2.40.2-ecrfyzic2fwjavq27h4bpzec7z2qetxb/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/util-linux-uuid-2.40.2-ecrfyzic2fwjavq27h4bpzec7z2qetxb/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/util-linux-uuid-2.40.2-ecrfyzic2fwjavq27h4bpzec7z2qetxb/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/util-linux-uuid-2.40.2-ecrfyzic2fwjavq27h4bpzec7z2qetxb/.} +setenv UTIL_LINUX_UUID_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/util-linux-uuid-2.40.2-ecrfyzic2fwjavq27h4bpzec7z2qetxb} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/voropp/0.4.6 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/voropp/0.4.6 new file mode 100644 index 00000000..0336cb0d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/voropp/0.4.6 @@ -0,0 +1,70 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:00.595774 +## +## voropp@0.4.6%gcc@13.2.0~ipo+shared build_system=cmake build_type=Release generator=make patches=b12e401 arch=linux-ubuntu22.04-zen3/t5xh6od +## +## Configure options: -DBUILD_SHARED_LIBS:BOOL=ON +## + + +module-whatis {Voro++ is a open source software library for the computation of the Voronoi diagram, a widely-used tessellation that has applications in many scientific fields.} + +proc ModulesHelp { } { + puts stderr {Name : voropp} + puts stderr {Version: 0.4.6} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {Voro++ is a open source software library for the computation of the} + puts stderr {Voronoi diagram, a widely-used tessellation that has applications in} + puts stderr {many scientific fields.} +} + +conflict voropp + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/voropp-0.4.6/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/voropp-0.4.6/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/voropp-0.4.6/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/voropp-0.4.6/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/voropp-0.4.6/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/voropp-0.4.6/.} +setenv VOROPP_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/voropp-0.4.6-t5xh6odywldqbwnmoi3qiod3cdgpnfc7} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/xerces-c/3.2.4 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/xerces-c/3.2.4 new file mode 100644 index 00000000..82f1837d --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/xerces-c/3.2.4 @@ -0,0 +1,73 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:01.411201 +## +## xerces-c@3.2.4%gcc@13.2.0 build_system=autotools cxxstd=default netaccessor=curl transcoder=gnuiconv arch=linux-ubuntu22.04-zen3/msf3pmn +## +## Configure options: --enable-netaccessor-curl --enable-transcoder-gnuiconv +## + + +module-whatis {Xerces-C++ is a validating XML parser written in a portable subset of C++. Xerces-C++ makes it easy to give your application the ability to read and write XML data. A shared library is provided for parsing, generating, manipulating, and validating XML documents using the DOM, SAX, and SAX2 APIs.} + +proc ModulesHelp { } { + puts stderr {Name : xerces-c} + puts stderr {Version: 3.2.4} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {Xerces-C++ is a validating XML parser written in a portable subset of} + puts stderr {C++. Xerces-C++ makes it easy to give your application the ability to} + puts stderr {read and write XML data. A shared library is provided for parsing,} + puts stderr {generating, manipulating, and validating XML documents using the DOM,} + puts stderr {SAX, and SAX2 APIs.} +} + +conflict xerces-c + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/xerces-c-3.2.4/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/xerces-c-3.2.4/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/xerces-c-3.2.4/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/xerces-c-3.2.4/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/xerces-c-3.2.4/bin} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/xerces-c-3.2.4/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/xerces-c-3.2.4/.} +setenv XERCES_C_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/xerces-c-3.2.4-msf3pmnzzwki3f2hehve3r62jbpd44ae} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/xz/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/xz/.modulerc new file mode 100644 index 00000000..5097a0fd --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/xz/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded xz/5.4.6-a24pazn diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/xz/5.4.6-a24pazn b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/xz/5.4.6-a24pazn new file mode 100644 index 00000000..7cf60098 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/xz/5.4.6-a24pazn @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:01.571450 +## +## xz@5.4.6%gcc@13.2.0~pic build_system=autotools libs=shared,static arch=linux-ubuntu22.04-zen3/a24pazn +## + + +module-whatis {XZ Utils is free general-purpose data compression software with high compression ratio. XZ Utils were written for POSIX-like systems, but also work on some not-so-POSIX systems. XZ Utils are the successor to LZMA Utils.} + +proc ModulesHelp { } { + puts stderr {Name : xz} + puts stderr {Version: 5.4.6} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {XZ Utils is free general-purpose data compression software with high} + puts stderr {compression ratio. XZ Utils were written for POSIX-like systems, but} + puts stderr {also work on some not-so-POSIX systems. XZ Utils are the successor to} + puts stderr {LZMA Utils.} +} + +conflict xz + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/xz-5.4.6-a24paznjicffunpkddbatriorqbvkmr7/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/xz-5.4.6-a24paznjicffunpkddbatriorqbvkmr7/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/xz-5.4.6-a24paznjicffunpkddbatriorqbvkmr7/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/xz-5.4.6-a24paznjicffunpkddbatriorqbvkmr7/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/xz-5.4.6-a24paznjicffunpkddbatriorqbvkmr7/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/xz-5.4.6-a24paznjicffunpkddbatriorqbvkmr7/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/xz-5.4.6-a24paznjicffunpkddbatriorqbvkmr7/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/xz-5.4.6-a24paznjicffunpkddbatriorqbvkmr7/.} +setenv XZ_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/xz-5.4.6-a24paznjicffunpkddbatriorqbvkmr7} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/yaml-cpp/0.8.0 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/yaml-cpp/0.8.0 new file mode 100644 index 00000000..8bebfdc2 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/yaml-cpp/0.8.0 @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:01.631534 +## +## yaml-cpp@0.8.0%gcc@13.2.0~ipo+pic+shared~tests build_system=cmake build_type=Release generator=make arch=linux-ubuntu22.04-zen3/vycecpj +## +## Configure options: -DBUILD_SHARED_LIBS:BOOL=ON -DYAML_BUILD_SHARED_LIBS:BOOL=ON -DCMAKE_POSITION_INDEPENDENT_CODE:BOOL=ON -DYAML_CPP_BUILD_TESTS:BOOL=OFF +## + + +module-whatis {A YAML parser and emitter in C++} + +proc ModulesHelp { } { + puts stderr {Name : yaml-cpp} + puts stderr {Version: 0.8.0} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {A YAML parser and emitter in C++} +} + +conflict yaml-cpp + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/yaml-cpp-0.8.0/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/yaml-cpp-0.8.0/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/yaml-cpp-0.8.0/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/yaml-cpp-0.8.0/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/yaml-cpp-0.8.0/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/yaml-cpp-0.8.0/.} +setenv YAML_CPP_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/yaml-cpp-0.8.0-vycecpjedead6e6n2pno2xcxhzjyyp5a} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/zfp/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/zfp/.modulerc new file mode 100644 index 00000000..b6d20733 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/zfp/.modulerc @@ -0,0 +1,2 @@ +#%Module4.7 +module-hide --soft --hidden-loaded zfp/1.0.0-cv7x2i4 diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/zfp/1.0.0-cv7x2i4 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/zfp/1.0.0-cv7x2i4 new file mode 100644 index 00000000..519063ed --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/zfp/1.0.0-cv7x2i4 @@ -0,0 +1,72 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:01.726138 +## +## zfp@1.0.0%gcc@13.2.0~aligned~c~cuda~daz~fasthash~fortran~ipo~openmp~profile~python+shared~strided~tight-error~twoway+utilities bsws=8 build_system=cmake build_type=Release generator=make round=never arch=linux-ubuntu22.04-zen3/cv7x2i4 +## +## Configure options: -DBUILD_TESTING:BOOL=OFF -DBUILD_SHARED_LIBS:BOOL=ON -DBUILD_UTILITIES:BOOL=ON -DBUILD_CFP:BOOL=OFF -DBUILD_ZFPY:BOOL=OFF -DBUILD_ZFORP:BOOL=OFF -DZFP_WITH_OPENMP:BOOL=OFF -DZFP_WITH_CUDA:BOOL=OFF -DZFP_WITH_ALIGNED_ALLOC:BOOL=OFF -DZFP_BIT_STREAM_WORD_SIZE:STRING=8 -DZFP_WITH_DAZ:BOOL=OFF -DZFP_WITH_CACHE_FAST_HASH:BOOL=OFF -DZFP_WITH_CACHE_PROFILE:BOOL=OFF -DZFP_WITH_BIT_STREAM_STRIDED:BOOL=OFF -DZFP_WITH_TIGHT_ERROR:BOOL=OFF -DZFP_WITH_CACHE_TWOWAY:BOOL=OFF ZFP_ROUNDING_MODE=ZFP_ROUND_NEVER +## + + +module-whatis {zfp is a compressed number format for multidimensional floating-point and integer arrays.} + +proc ModulesHelp { } { + puts stderr {Name : zfp} + puts stderr {Version: 1.0.0} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {zfp is a compressed number format for multidimensional floating-point} + puts stderr {and integer arrays. zfp provides compressed-array classes that support} + puts stderr {high throughput read and write random access to individual array} + puts stderr {elements. zfp also supports serial and parallel (OpenMP and CUDA)} + puts stderr {compression of whole arrays.} +} + +conflict zfp + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/zfp-1.0.0-cv7x2i4zly3ynq6mcicorggpe7swx2au/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/zfp-1.0.0-cv7x2i4zly3ynq6mcicorggpe7swx2au/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/zfp-1.0.0-cv7x2i4zly3ynq6mcicorggpe7swx2au/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/zfp-1.0.0-cv7x2i4zly3ynq6mcicorggpe7swx2au/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/zfp-1.0.0-cv7x2i4zly3ynq6mcicorggpe7swx2au/bin} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/zfp-1.0.0-cv7x2i4zly3ynq6mcicorggpe7swx2au/.} +setenv ZFP_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/zfp-1.0.0-cv7x2i4zly3ynq6mcicorggpe7swx2au} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/zlib-ng/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/zlib-ng/.modulerc new file mode 100644 index 00000000..e42a480c --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/zlib-ng/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded zlib-ng/2.2.1-z2tw5zv +module-hide --soft --hidden-loaded zlib-ng/2.2.1-nq2fn2z diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/zlib-ng/2.2.1-nq2fn2z b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/zlib-ng/2.2.1-nq2fn2z new file mode 100644 index 00000000..4c961739 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/zlib-ng/2.2.1-nq2fn2z @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:01.874668 +## +## zlib-ng@2.2.1%gcc@13.2.0+compat+new_strategies+opt+pic+shared build_system=autotools arch=linux-ubuntu22.04-zen3/nq2fn2z +## + + +module-whatis {zlib replacement with optimizations for next generation systems.} + +proc ModulesHelp { } { + puts stderr {Name : zlib-ng} + puts stderr {Version: 2.2.1} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {zlib replacement with optimizations for next generation systems.} +} + +conflict zlib-ng + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/zlib-ng-2.2.1-nq2fn2zk7neqnk5x5huakun5ooot4p2v/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/zlib-ng-2.2.1-nq2fn2zk7neqnk5x5huakun5ooot4p2v/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/zlib-ng-2.2.1-nq2fn2zk7neqnk5x5huakun5ooot4p2v/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/zlib-ng-2.2.1-nq2fn2zk7neqnk5x5huakun5ooot4p2v/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/zlib-ng-2.2.1-nq2fn2zk7neqnk5x5huakun5ooot4p2v/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/zlib-ng-2.2.1-nq2fn2zk7neqnk5x5huakun5ooot4p2v/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/zlib-ng-2.2.1-nq2fn2zk7neqnk5x5huakun5ooot4p2v/.} +setenv ZLIB_NG_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/zlib-ng-2.2.1-nq2fn2zk7neqnk5x5huakun5ooot4p2v} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/zlib-ng/2.2.1-z2tw5zv b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/zlib-ng/2.2.1-z2tw5zv new file mode 100644 index 00000000..3892f443 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/zlib-ng/2.2.1-z2tw5zv @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:01.836940 +## +## zlib-ng@2.2.1%gcc@13.2.0+compat~new_strategies+opt+pic+shared build_system=autotools arch=linux-ubuntu22.04-zen3/z2tw5zv +## + + +module-whatis {zlib replacement with optimizations for next generation systems.} + +proc ModulesHelp { } { + puts stderr {Name : zlib-ng} + puts stderr {Version: 2.2.1} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {zlib replacement with optimizations for next generation systems.} +} + +conflict zlib-ng + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/zlib-ng-2.2.1-z2tw5zv32b4oxdiw7v2wg6dlolzcxzvf/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/zlib-ng-2.2.1-z2tw5zv32b4oxdiw7v2wg6dlolzcxzvf/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/zlib-ng-2.2.1-z2tw5zv32b4oxdiw7v2wg6dlolzcxzvf/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/zlib-ng-2.2.1-z2tw5zv32b4oxdiw7v2wg6dlolzcxzvf/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/zlib-ng-2.2.1-z2tw5zv32b4oxdiw7v2wg6dlolzcxzvf/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/zlib-ng-2.2.1-z2tw5zv32b4oxdiw7v2wg6dlolzcxzvf/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/zlib-ng-2.2.1-z2tw5zv32b4oxdiw7v2wg6dlolzcxzvf/.} +setenv ZLIB_NG_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/zlib-ng-2.2.1-z2tw5zv32b4oxdiw7v2wg6dlolzcxzvf} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/zlib/1.2.13 b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/zlib/1.2.13 new file mode 100644 index 00000000..4e2a8dd3 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/zlib/1.2.13 @@ -0,0 +1,69 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:01.777177 +## +## zlib@1.2.13%gcc@13.2.0+optimize+pic+shared build_system=makefile arch=linux-ubuntu22.04-zen3/3pttush +## + + +module-whatis {A free, general-purpose, legally unencumbered lossless data-compression library. } + +proc ModulesHelp { } { + puts stderr {Name : zlib} + puts stderr {Version: 1.2.13} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {A free, general-purpose, legally unencumbered lossless data-compression} + puts stderr {library.} +} + +conflict zlib + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/zlib-1.2.13/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/zlib-1.2.13/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/zlib-1.2.13/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/zlib-1.2.13/include} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/zlib-1.2.13/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/zlib-1.2.13/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/environments/main/view/zen3/zlib-1.2.13/.} +setenv ZLIB_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/zlib-1.2.13-3pttushmauxyc6rdhycplsrilkpo7tum} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/zstd/.modulerc b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/zstd/.modulerc new file mode 100644 index 00000000..3ecf4b47 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/zstd/.modulerc @@ -0,0 +1,3 @@ +#%Module4.7 +module-hide --soft --hidden-loaded zstd/1.5.6-vrlio3v +module-hide --soft --hidden-loaded zstd/1.5.6-zbgcczh diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/zstd/1.5.6-vrlio3v b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/zstd/1.5.6-vrlio3v new file mode 100644 index 00000000..134dce79 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/zstd/1.5.6-vrlio3v @@ -0,0 +1,71 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:01.912877 +## +## zstd@1.5.6%gcc@13.2.0+programs build_system=makefile compression=none libs=shared,static arch=linux-ubuntu22.04-zen3/vrlio3v +## + + +module-whatis {Zstandard, or zstd as short version, is a fast lossless compression algorithm, targeting real-time compression scenarios at zlib-level and better compression ratios.} + +proc ModulesHelp { } { + puts stderr {Name : zstd} + puts stderr {Version: 1.5.6} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {Zstandard, or zstd as short version, is a fast lossless compression} + puts stderr {algorithm, targeting real-time compression scenarios at zlib-level and} + puts stderr {better compression ratios.} +} + +conflict zstd + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/zstd-1.5.6-vrlio3vbrejrxkn6beizdks2i66qczq5/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/zstd-1.5.6-vrlio3vbrejrxkn6beizdks2i66qczq5/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/zstd-1.5.6-vrlio3vbrejrxkn6beizdks2i66qczq5/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/zstd-1.5.6-vrlio3vbrejrxkn6beizdks2i66qczq5/include} +prepend-path PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/zstd-1.5.6-vrlio3vbrejrxkn6beizdks2i66qczq5/bin} +prepend-path MANPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/zstd-1.5.6-vrlio3vbrejrxkn6beizdks2i66qczq5/share/man} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/zstd-1.5.6-vrlio3vbrejrxkn6beizdks2i66qczq5/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/zstd-1.5.6-vrlio3vbrejrxkn6beizdks2i66qczq5/.} +setenv ZSTD_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/zstd-1.5.6-vrlio3vbrejrxkn6beizdks2i66qczq5} +append-path MANPATH {} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/zstd/1.5.6-zbgcczh b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/zstd/1.5.6-zbgcczh new file mode 100644 index 00000000..8c07b064 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/linux-ubuntu22.04-zen3/zstd/1.5.6-zbgcczh @@ -0,0 +1,68 @@ +#%Module1.0 +## Module file created by spack (https://github.com/spack/spack) on 2025-01-08 15:50:01.936922 +## +## zstd@1.5.6%gcc@13.2.0~programs build_system=makefile libs=shared,static arch=linux-ubuntu22.04-zen3/zbgcczh +## + + +module-whatis {Zstandard, or zstd as short version, is a fast lossless compression algorithm, targeting real-time compression scenarios at zlib-level and better compression ratios.} + +proc ModulesHelp { } { + puts stderr {Name : zstd} + puts stderr {Version: 1.5.6} + puts stderr {Target : zen3} + puts stderr {} + puts stderr {Zstandard, or zstd as short version, is a fast lossless compression} + puts stderr {algorithm, targeting real-time compression scenarios at zlib-level and} + puts stderr {better compression ratios.} +} + +conflict zstd + +prepend-path LD_LIBRARY_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/zstd-1.5.6-zbgcczhpwqzl6pyexwwmemytit75tqfb/lib} +prepend-path CPATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/zstd-1.5.6-zbgcczhpwqzl6pyexwwmemytit75tqfb/include} +prepend-path C_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/zstd-1.5.6-zbgcczhpwqzl6pyexwwmemytit75tqfb/include} +prepend-path CPLUS_INCLUDE_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/zstd-1.5.6-zbgcczhpwqzl6pyexwwmemytit75tqfb/include} +prepend-path PKG_CONFIG_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/zstd-1.5.6-zbgcczhpwqzl6pyexwwmemytit75tqfb/lib/pkgconfig} +prepend-path CMAKE_PREFIX_PATH {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/zstd-1.5.6-zbgcczhpwqzl6pyexwwmemytit75tqfb/.} +setenv ZSTD_ROOT {/cvmfs/hpc.ucdavis.edu/sw/spack/main/linux-ubuntu22.04-zen3/gcc-13.2.0/zstd-1.5.6-zbgcczhpwqzl6pyexwwmemytit75tqfb} + +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} + + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + +if [module-info mode load] { +} + +if [module-info mode unload] { +} + diff --git a/modulefiles/hpccf/software.hpc/main/main b/modulefiles/hpccf/software.hpc/main/main new file mode 120000 index 00000000..f918f297 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/main @@ -0,0 +1 @@ +/cvmfs/hpc.ucdavis.edu/sw/spack/spack-ucdavis/modulefiles/hpccf/software.hpc/main \ No newline at end of file diff --git a/modulefiles/hpccf/software.hpc/main/module-index.yaml b/modulefiles/hpccf/software.hpc/main/module-index.yaml new file mode 100644 index 00000000..d5e1f62f --- /dev/null +++ b/modulefiles/hpccf/software.hpc/main/module-index.yaml @@ -0,0 +1,3721 @@ +module_index: + eeway2vu3u3rhemvu5cny3ijjfyvdis5: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/abseil-cpp/20240722.0-eeway2v + use_name: abseil-cpp/20240722.0-eeway2v + elea3m7oq77xqccs5mi77yej4q3u5ht2: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/amdfftw/4.2 + use_name: amdfftw/4.2 + 3ns7chythcqsriro7uxdlashdfrmxbu3: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-zen2/amdfftw/4.2 + use_name: amdfftw/4.2 + sanans3uu2llconi5fgh5ltp4kao274c: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-zen3/amdfftw/4.2 + use_name: amdfftw/4.2 + 3ekarcnk5adcqj4bmyur2kz5cedcpod6: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/angsd/0.935 + use_name: angsd/0.935 + ci2zx5zh2wd6vdwadsjdxtc6menjbora: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/antlr/2.7.7-ci2zx5z + use_name: antlr/2.7.7-ci2zx5z + 7ld2kifikafwkt35d5fleov4siv6kufl: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/aocc/3.2.0 + use_name: aocc/3.2.0 + gir5tc4wsd53gpfyy73x7wezoyyjqr2w: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/aocc/4.2.0 + use_name: aocc/4.2.0 + mg3hhgzws4qpjfogc6uw63e6pwafgvgm: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/apptainer/1.3.4 + use_name: apptainer/1.3.4 + 532apetgokrpqcklxcsilbhuvy6ntile: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/aragorn/1.2.41 + use_name: aragorn/1.2.41 + jftfhtemkcmlrpj35wjl4gobnw5lbame: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/argtable/2-13-jftfhte + use_name: argtable/2-13-jftfhte + 5d65ry3ox3cblbazqnxxztl7ef6o4yfx: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/aria2/1.37.0 + use_name: aria2/1.37.0 + perm6dof7wznzlcjourne3zqdckurmci: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/aspera-cli/3.7.7 + use_name: aspera-cli/3.7.7 + tno7jb5zn4gfwxpuwbhaixfoun5ifbks: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/awscli/1.29.41 + use_name: awscli/1.29.41 + h4k3acddabslvpfprn5xj6gadxhsr3gw: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/awscli-v2/2.15.53 + use_name: awscli-v2/2.15.53 + 4gc66hmcp6n4egqrln54qsszjztufkja: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/bamtools/2.5.2 + use_name: bamtools/2.5.2 + afdzpy52ra7thh7yz6uddvpn5neokq4l: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/bayenv2/2.0 + use_name: bayenv2/2.0 + oaz45j7wootzexrkrmalzjvtsd5q4rbk: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/bbmap/39.01 + use_name: bbmap/39.01 + gwis5626uxxfo5ge7wvxga2btcodciff: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/bc/1.07.1-gwis562 + use_name: bc/1.07.1-gwis562 + muqs2pa3j5meb2e4f4cwik7la7ftw4ez: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/bcftools/1.19 + use_name: bcftools/1.19 + yg3rbs3myqol3jci2ngkdixgkqhc6ne6: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/beagle/5.4 + use_name: beagle/5.4 + re3qa73rwvdqvhd7igveiau5mdf6ckot: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/bedops/2.4.41 + use_name: bedops/2.4.41 + 2jx7bkaxqxbw6pxwzramt4jmnovncqcw: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/bedtools2/2.31.1 + use_name: bedtools2/2.31.1 + br27jq6mkoumsbtdldgzcm3lw5zqjvel: + path: 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libffi/3.4.6-uwa3bci + uphkcmdh2mh4yupwkokh4jo6fddq3etc: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/libmd/1.0.4-uphkcmd + use_name: libmd/1.0.4-uphkcmd + s66z5277b4brd7gfnobqfc7xdcinjghg: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/libxml2/2.13.4-s66z527 + use_name: libxml2/2.13.4-s66z527 + zqpnt6ymyl2osc526z2xzczamker6mal: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/megahit/1.2.9 + use_name: megahit/1.2.9 + khahbv4vwhtfrgl6cg2zodxgg6eggrbv: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/ncurses/6.5-khahbv4 + use_name: ncurses/6.5-khahbv4 + 5kttvjhjsok7g46yjhywjpcl52tffbes: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/nghttp2/1.63.0-5kttvjh + use_name: nghttp2/1.63.0-5kttvjh + zqqiejwsx4adltt4zbzzxko4pai5sdnx: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/openjdk/11.0.23_9-zqqiejw + use_name: openjdk/11.0.23_9-zqqiejw + tgwni2lizm23ocjogxefpqtarrnniddf: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/openssl/3.4.0-tgwni2l + use_name: openssl/3.4.0-tgwni2l + mzekv6fx52jwnegjqqfkrnx2vjm3jqef: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/pigz/2.8-mzekv6f + use_name: pigz/2.8-mzekv6f + gs2jwamyfns3njuzizkrsuuefrvckfok: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/pkgconf/2.2.0-gs2jwam + use_name: pkgconf/2.2.0-gs2jwam + ikcn73op4b4yxpcz2d62oonkppg5cxab: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/py-beniget/0.4.1-ikcn73o + use_name: py-beniget/0.4.1-ikcn73o + bcbmjdfivs3iyq4vmwclf3oeca4tt65p: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/py-cython/0.29.36-bcbmjdf + use_name: py-cython/0.29.36-bcbmjdf + fpxtbw3tixp4mc4n2ttkihu6w3kxnswf: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/py-flit-core/3.9.0-fpxtbw3 + use_name: py-flit-core/3.9.0-fpxtbw3 + myvhqk6fiswqul6yrbcv4f7u532wyodi: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/py-gast/0.5.4-myvhqk6 + use_name: py-gast/0.5.4-myvhqk6 + s572o7bw7cgqq7qei7bsfcjsktfhcigb: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/py-joblib/1.2.0-s572o7b + use_name: py-joblib/1.2.0-s572o7b + acpdpwpi23motyaxmzukgcy5rereib2s: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/py-logbook/1.7.0.post0-acpdpwp + use_name: py-logbook/1.7.0.post0-acpdpwp + bazqgqdanj6fajkbfpevn3v65qg3ytj5: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/py-numpy/1.24.4-bazqgqd + use_name: py-numpy/1.24.4-bazqgqd + wqlsuzxw5rdqs6553so2ac5mg25dx7z6: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/py-packaging/24.1-wqlsuzx + use_name: py-packaging/24.1-wqlsuzx + j5o3zaekmeg6m3itma3qzo6w7saaz5ip: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/py-pip/23.1.2-j5o3zae + use_name: py-pip/23.1.2-j5o3zae + 2uehqja7cievhko5k2u2tk6asbs2anrl: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/py-ply/3.11-2uehqja + use_name: py-ply/3.11-2uehqja + 6qrft4z5qwuclo22o7a6r5gajzohoid4: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/py-pyproject-metadata/0.7.1-6qrft4z + use_name: py-pyproject-metadata/0.7.1-6qrft4z + wkrz2b5gxxahllaiorl7aeh4qkhijfr5: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/py-pythran/0.16.1-wkrz2b5 + use_name: py-pythran/0.16.1-wkrz2b5 + 63ta5cixzxfd5e475n3yriw3phhkdbay: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/py-setuptools/63.4.3-63ta5ci + use_name: py-setuptools/63.4.3-63ta5ci + vgbbsyqbzgjcoc4c4nketn4dae4vdt3y: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/py-threadpoolctl/3.1.0-vgbbsyq + use_name: py-threadpoolctl/3.1.0-vgbbsyq + efkxhmuv34xd5w6qytybqassfyqfgrjb: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/py-tomli/2.0.1-efkxhmu + use_name: py-tomli/2.0.1-efkxhmu + zcrjvktdgm25ntx73rjggf7gmztyykvk: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/py-wheel/0.41.2-zcrjvkt + use_name: py-wheel/0.41.2-zcrjvkt + dxx3zxuu7rurgfw6awjdlkov6t7qjzgc: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/python/3.8.19-dxx3zxu + use_name: python/3.8.19-dxx3zxu + cdvxgi4v4zolfe5ybwqnuoz45h6klghh: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/python/3.13.0-cdvxgi4 + use_name: python/3.13.0-cdvxgi4 + l4mqvrbmjbzffvcagcnyfvlukcvwkoz6: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/python-venv/1.0-l4mqvrb + use_name: python-venv/1.0-l4mqvrb + cxqp25dird4wfwna54kpzpzvqpchikfn: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/r/4.4.1-cxqp25d + use_name: r/4.4.1-cxqp25d + 3pxlh6m6meroydistmy7eygka25g5hk2: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/readline/8.2-3pxlh6m + use_name: readline/8.2-3pxlh6m + emyx64nejf7refjx2canustwusu3nqku: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/rstudio/2024.09.0-375 + use_name: rstudio/2024.09.0-375 + 6waswml6yqlghm4itzbsqon63x2cycvp: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/sqlite/3.46.0-6waswml + use_name: sqlite/3.46.0-6waswml + bmauxujxvvux7wx4fsn2c5iyg5tzgtt5: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/tar/1.34-bmauxuj + use_name: tar/1.34-bmauxuj + otzhfpvbzlokpfvcbkgejxhn2x5dszp2: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/util-linux-uuid/2.40.2-otzhfpv + use_name: util-linux-uuid/2.40.2-otzhfpv + 2h4py3l5ynpwunvim6rsujz6rftq3zqx: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/xz/5.4.6-2h4py3l + use_name: xz/5.4.6-2h4py3l + 2pajx4yog26ubtrtnci3wsomwgjxzamm: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/zstd/1.5.6-2pajx4y + use_name: zstd/1.5.6-2pajx4y + eolumh7kalyueoik6coe43wbe2w3gjmg: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/multiqc/1.23 + use_name: multiqc/1.23 + osnujngo2lcybibmsabrs7nscf3xfwwc: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/py-annotated-types/0.7.0-osnujng + use_name: py-annotated-types/0.7.0-osnujng + sgpq36szd4ofu6qieb53qrdsb3aexfrb: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/py-hatch-fancy-pypi-readme/23.1.0-sgpq36s + use_name: py-hatch-fancy-pypi-readme/23.1.0-sgpq36s + g2pyjgni23q4c4lczjyuogngngguddab: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/py-maturin/1.6.0-g2pyjgn + use_name: py-maturin/1.6.0-g2pyjgn + vxirqjzfpfwajjn5rsaqcgqlhx3sntty: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/py-pip/23.1.2-vxirqjz + use_name: py-pip/23.1.2-vxirqjz + srj25r3wmcmldtgm5ghtob3b72tstnab: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/py-pydantic/2.7.4-srj25r3 + use_name: py-pydantic/2.7.4-srj25r3 + agbj7kgfpjy5sv2rdcvsdktcgozssyx6: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/py-pydantic-core/2.18.4-agbj7kg + use_name: py-pydantic-core/2.18.4-agbj7kg + jpdknyoacszb3rzo2zhlsokbrwvjeyap: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/py-semantic-version/2.10.0-jpdknyo + use_name: py-semantic-version/2.10.0-jpdknyo + 27ktaro2nzcfz5enhytssfxqyssciit5: + path: /cvmfs/hpc.ucdavis.edu/sw/spack/modulefiles/main/linux-ubuntu22.04-x86_64_v3/py-setuptools-rust/1.9.0-27ktaro + use_name: py-setuptools-rust/1.9.0-27ktaro diff --git a/modulefiles/hpccf/software.hpc/system/spack/.modulerc b/modulefiles/hpccf/software.hpc/system/spack/.modulerc new file mode 100644 index 00000000..46044576 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/system/spack/.modulerc @@ -0,0 +1,2 @@ +#%Module +module-version "./main" default diff --git a/modulefiles/hpccf/software.hpc/system/spack/common b/modulefiles/hpccf/software.hpc/system/spack/common new file mode 100644 index 00000000..ec00952e --- /dev/null +++ b/modulefiles/hpccf/software.hpc/system/spack/common @@ -0,0 +1,24 @@ +# vim: syntax=tcl +# +# Common spack activation code. +# Expects the variable `root` to be set. +# + +module-whatis "Spack is a package management tool designed to support multiple versions and configurations of software on a wide variety of platforms and environments. It was designed for large supercomputing centers, where many users and application teams share common installations of software on clusters with exotic architectures, using libraries that do not have a standard ABI. Spack is non-destructive: installing a new version does not break existing installations, so many configurations can coexist on the same system." + +set name "spack" +set url "https://spack.readthedocs.io/en/latest/index.html" + +set shellfamily [module-info shelltype] +set shellprog [module-info shell] +set modmode [module-info mode] + +if { [module-info mode unload] } { + puts prestdout "spack env deactivate; " +} + +source-sh bash $root/share/spack/setup-env.sh + +if { [module-info usergroups "software-user" ] } { + chdir $root/../../ +} diff --git a/modulefiles/hpccf/software.hpc/system/spack/common.old b/modulefiles/hpccf/software.hpc/system/spack/common.old new file mode 100644 index 00000000..94ec35ec --- /dev/null +++ b/modulefiles/hpccf/software.hpc/system/spack/common.old @@ -0,0 +1,123 @@ +# vim: syntax=tcl +# +# Common spack activation code. +# Expects the variable `root` to be set. +# + +module-whatis "Spack is a package management tool designed to support multiple versions and configurations of software on a wide variety of platforms and environments. It was designed for large supercomputing centers, where many users and application teams share common installations of software on clusters with exotic architectures, using libraries that do not have a standard ABI. Spack is non-destructive: installing a new version does not break existing installations, so many configurations can coexist on the same system." + +set name "spack" +set url "https://spack.readthedocs.io/en/latest/index.html" + +set shellfamily [module-info shelltype] +set shellprog [module-info shell] +set modmode [module-info mode] + +set spack_aliases { "spacktivate" "despacktivate" } + +set spack_funcs { "_bash_completion_spack" "_spack" "_spack_add" + "_spack_arch" "_spack_audit" "_spack_audit_configs" + "_spack_audit_externals" "_spack_audit_list" "_spack_audit_packages" + "_spack_audit_packages_https" "_spack_blame" "_spack_bootstrap" + "_spack_bootstrap_add" "_spack_bootstrap_disable" "_spack_bootstrap_enable" + "_spack_bootstrap_list" "_spack_bootstrap_mirror" "_spack_bootstrap_now" + "_spack_bootstrap_remove" "_spack_bootstrap_reset" "_spack_bootstrap_root" + "_spack_bootstrap_status" "_spack_build_env" "_spack_buildcache" + "_spack_buildcache_check" "_spack_buildcache_create" "_spack_buildcache_download" + "_spack_buildcache_get_buildcache_name" "_spack_buildcache_install" "_spack_buildcache_keys" + "_spack_buildcache_list" "_spack_buildcache_preview" "_spack_buildcache_push" + "_spack_buildcache_rebuild_index" "_spack_buildcache_save_specfile" "_spack_buildcache_sync" + "_spack_buildcache_update_index" "_spack_cd" "_spack_change" + "_spack_checksum" "_spack_ci" "_spack_ci_generate" + "_spack_ci_rebuild" "_spack_ci_rebuild_index" "_spack_ci_reproduce_build" + "_spack_clean" "_spack_clone" "_spack_commands" + "_spack_compiler" "_spack_compiler_add" "_spack_compiler_find" + "_spack_compiler_info" "_spack_compiler_list" "_spack_compiler_remove" + "_spack_compiler_rm" "_spack_compilers" "_spack_completions" + "_spack_compress_aliases" "_spack_concretise" "_spack_concretize" + "_spack_config" "_spack_config_add" "_spack_config_blame" + "_spack_config_change" "_spack_config_edit" "_spack_config_get" + "_spack_config_list" "_spack_config_prefer_upstream" "_spack_config_remove" + "_spack_config_revert" "_spack_config_rm" "_spack_config_update" + "_spack_containerise" "_spack_containerize" "_spack_create" + "_spack_debug" "_spack_debug_create_db_tarball" "_spack_debug_report" + "_spack_deconcretize" "_spack_dependencies" "_spack_dependents" + "_spack_deprecate" "_spack_determine_shell" "_spack_dev_build" + "_spack_develop" "_spack_diff" "_spack_docs" + "_spack_edit" "_spack_env" "_spack_env_activate" + "_spack_env_create" "_spack_env_deactivate" "_spack_env_depfile" + "_spack_env_list" "_spack_env_loads" "_spack_env_ls" + "_spack_env_remove" "_spack_env_revert" "_spack_env_rm" + "_spack_env_st" "_spack_env_status" "_spack_env_update" + "_spack_env_view" "_spack_extensions" "_spack_external" + "_spack_external_find" "_spack_external_list" "_spack_external_read_cray_manifest" + "_spack_fetch" "_spack_find" "_spack_fn_exists" + "_spack_gc" "_spack_get_alias" "_spack_gpg" + "_spack_gpg_create" "_spack_gpg_export" "_spack_gpg_init" + "_spack_gpg_list" "_spack_gpg_publish" "_spack_gpg_sign" + "_spack_gpg_trust" "_spack_gpg_untrust" "_spack_gpg_verify" + "_spack_graph" "_spack_help" "_spack_info" + "_spack_install" "_spack_license" "_spack_license_list_files" + "_spack_license_update_copyright_year" "_spack_license_verify" "_spack_list" + "_spack_load" "_spack_location" "_spack_log_parse" + "_spack_logs" "_spack_maintainers" "_spack_make_installer" + "_spack_mark" "_spack_mirror" "_spack_mirror_add" + "_spack_mirror_create" "_spack_mirror_destroy" "_spack_mirror_list" + "_spack_mirror_remove" "_spack_mirror_rm" "_spack_mirror_set" + "_spack_mirror_set_url" "_spack_module" "_spack_module_lmod" + "_spack_module_lmod_find" "_spack_module_lmod_loads" "_spack_module_lmod_refresh" + "_spack_module_lmod_rm" "_spack_module_lmod_setdefault" "_spack_module_tcl" + "_spack_module_tcl_find" "_spack_module_tcl_loads" "_spack_module_tcl_refresh" + "_spack_module_tcl_rm" "_spack_module_tcl_setdefault" "_spack_patch" + "_spack_pathadd" "_spack_pkg" "_spack_pkg_add" + "_spack_pkg_added" "_spack_pkg_changed" "_spack_pkg_diff" + "_spack_pkg_grep" "_spack_pkg_hash" "_spack_pkg_list" + "_spack_pkg_removed" "_spack_pkg_source" "_spack_providers" + "_spack_pydoc" "_spack_python" "_spack_reindex" + "_spack_remove" "_spack_repo" "_spack_repo_add" + "_spack_repo_create" "_spack_repo_list" "_spack_repo_remove" + "_spack_repo_rm" "_spack_resource" "_spack_resource_list" + "_spack_resource_show" "_spack_restage" "_spack_rm" + "_spack_shell_wrapper" "_spack_solve" "_spack_spec" + "_spack_stage" "_spack_style" "_spack_tags" + "_spack_test" "_spack_test_env" "_spack_test_find" + "_spack_test_list" "_spack_test_remove" "_spack_test_results" + "_spack_test_run" "_spack_test_status" "_spack_tutorial" + "_spack_undevelop" "_spack_uninstall" "_spack_unit_test" + "_spack_unload" "_spack_url" "_spack_url_list" + "_spack_url_parse" "_spack_url_stats" "_spack_url_summary" + "_spack_verify" "_spack_versions" "_spack_view" + "_spack_view_add" "_spack_view_check" "_spack_view_copy" + "_spack_view_hard" "_spack_view_hardlink" "_spack_view_relocate" + "_spack_view_remove" "_spack_view_rm" "_spack_view_soft" + "_spack_view_statlink" "_spack_view_status" "_spack_view_symlink" + "_spacktivate" "spack" } + +set spack_vars { "SPACK_ROOT" "SPACK_PYTHON" } + +setenv SPACK_ROOT $root +prepend-path PATH $root/bin + +if { [module-info mode load] } { + set spack_src_script $root/share/spack/setup-env.sh + puts stdout "eval \"\$(grep -v '_spack_pathadd PATH' $spack_src_script)\"; " +} + +if { [module-info mode unload] } { + + foreach spack_func $spack_funcs { + if { $shellprog == "zsh" } { + puts stdout "if typeset -f $spack_func > /dev/null; then unfunction $spack_func; fi; " + } else { + puts stdout "if typeset -f $spack_func > /dev/null; then unset -f $spack_func; fi; " + } + } + + foreach spack_var $spack_vars { + puts stdout "unset $spack_var; " + } + + foreach spack_alias $spack_aliases { + puts stdout "if type -w $spack_alias > /dev/null; then unalias $spack_alias; fi; " + } +} diff --git a/modulefiles/hpccf/software.hpc/system/spack/core b/modulefiles/hpccf/software.hpc/system/spack/core new file mode 100644 index 00000000..0d435273 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/system/spack/core @@ -0,0 +1,11 @@ +#%Module + +set root "/cvmfs/hpc.ucdavis.edu/sw/spack/src/core" + +set moduledir [file dirname $ModulesCurrentModulefile] +source $moduledir/common + +if { [module-info mode load] } { + puts stdout "spack env activate --without-view $root/../../environments/core; " +} + diff --git a/modulefiles/hpccf/software.hpc/system/spack/main b/modulefiles/hpccf/software.hpc/system/spack/main new file mode 100644 index 00000000..4decc7e7 --- /dev/null +++ b/modulefiles/hpccf/software.hpc/system/spack/main @@ -0,0 +1,10 @@ +#%Module + +set root "/cvmfs/hpc.ucdavis.edu/sw/spack/src/main" + +set moduledir [file dirname $ModulesCurrentModulefile] +source $moduledir/common + +if { [module-info mode load] } { + puts stdout "spack env activate --without-view $root/../../environments/main; " +} diff --git a/repos/backports/packages/curl/easy-lock-sched-header.patch b/repos/backports/packages/curl/easy-lock-sched-header.patch deleted file mode 100644 index 33f08fa4..00000000 --- a/repos/backports/packages/curl/easy-lock-sched-header.patch +++ /dev/null @@ -1,26 +0,0 @@ -From e2e7f54b7bea521fa8373095d0f43261a720cda0 Mon Sep 17 00:00:00 2001 -From: Daniel Stenberg -Date: Mon, 27 Jun 2022 08:46:21 +0200 -Subject: [PATCH] easy_lock.h: include sched.h if available to fix build - -Patched-by: Harry Sintonen - -Closes #9054 ---- - lib/easy_lock.h | 3 +++ - 1 file changed, 3 insertions(+) - -diff --git a/lib/easy_lock.h b/lib/easy_lock.h -index 819f50ce815b8..1f54289ceb2d3 100644 ---- a/lib/easy_lock.h -+++ b/lib/easy_lock.h -@@ -36,6 +36,9 @@ - - #elif defined (HAVE_ATOMIC) - #include -+#if defined(HAVE_SCHED_YIELD) -+#include -+#endif - - #define curl_simple_lock atomic_bool - #define CURL_SIMPLE_LOCK_INIT false diff --git a/repos/backports/packages/curl/package.py b/repos/backports/packages/curl/package.py deleted file mode 100644 index 8220c347..00000000 --- a/repos/backports/packages/curl/package.py +++ /dev/null @@ -1,464 +0,0 @@ -# Copyright 2013-2023 Lawrence Livermore National Security, LLC and other -# Spack Project Developers. See the top-level COPYRIGHT file for details. -# -# SPDX-License-Identifier: (Apache-2.0 OR MIT) - -import glob -import os -import re -import sys - -from spack.build_systems.autotools import AutotoolsBuilder -from spack.build_systems.nmake import NMakeBuilder -from spack.package import * - - -class Curl(NMakePackage, AutotoolsPackage): - """cURL is an open source command line tool and library for - transferring data with URL syntax""" - - homepage = "https://curl.se/" - # URL must remain http:// so Spack can bootstrap curl - url = "http://curl.haxx.se/download/curl-7.78.0.tar.bz2" - - executables = ["^curl$"] - tags = ["build-tools", "windows"] - - maintainers = ["alecbcs"] - - version("8.0.1", sha256="9b6b1e96b748d04b968786b6bdf407aa5c75ab53a3d37c1c8c81cdb736555ccf") - version("7.88.1", sha256="8224b45cce12abde039c12dc0711b7ea85b104b9ad534d6e4c5b4e188a61c907") - - # Deprecated versions due to CVEs - # https://nvd.nist.gov/vuln/detail/CVE-2022-43551 - version( - "7.87.0", - sha256="5d6e128761b7110946d1276aff6f0f266f2b726f5e619f7e0a057a474155f307", - deprecated=True, - ) - # https://nvd.nist.gov/vuln/detail/CVE-2022-32221 - version( - "7.86.0", - sha256="f5ca69db03eea17fa8705bdfb1a9f58d76a46c9010518109bb38f313137e0a28", - deprecated=True, - ) - version( - "7.85.0", - sha256="21a7e83628ee96164ac2b36ff6bf99d467c7b0b621c1f7e317d8f0d96011539c", - deprecated=True, - ) - version( - "7.84.0", - sha256="702fb26e73190a3bd77071aa146f507b9817cc4dfce218d2ab87f00cd3bc059d", - deprecated=True, - ) - # https://nvd.nist.gov/vuln/detail/CVE-2022-32206 - version( - "7.83.0", - sha256="247c7ec7521c4258e65634e529270d214fe32969971cccb72845e7aa46831f96", - deprecated=True, - ) - version( - "7.82.0", - sha256="46d9a0400a33408fd992770b04a44a7434b3036f2e8089ac28b57573d59d371f", - deprecated=True, - ) - version( - "7.81.0", - sha256="1e7a38d7018ec060f1f16df839854f0889e94e122c4cfa5d3a37c2dc56f1e258", - deprecated=True, - ) - version( - "7.80.0", - sha256="dd0d150e49cd950aff35e16b628edf04927f0289df42883750cf952bb858189c", - deprecated=True, - ) - version( - "7.79.1", - sha256="de62c4ab9a9316393962e8b94777a570bb9f71feb580fb4475e412f2f9387851", - deprecated=True, - ) - version( - "7.79.0", - sha256="d607a677f473f79f96c964100327125a6204a39d835dc00dab7fc0129b959f42", - deprecated=True, - ) - version( - "7.78.0", - sha256="98530b317dc95ccb324bbe4f834f07bb642fbc393b794ddf3434f246a71ea44a", - deprecated=True, - ) - version( - "7.77.0", - sha256="6c0c28868cb82593859fc43b9c8fdb769314c855c05cf1b56b023acf855df8ea", - deprecated=True, - ) - version( - "7.76.1", - sha256="7a8e184d7d31312c4ebf6a8cb59cd757e61b2b2833a9ed4f9bf708066e7695e9", - deprecated=True, - ) - version( - "7.76.0", - sha256="e29bfe3633701590d75b0071bbb649ee5ca4ca73f00649268bd389639531c49a", - deprecated=True, - ) - version( - "7.75.0", - sha256="50552d4501c178e4cc68baaecc487f466a3d6d19bbf4e50a01869effb316d026", - deprecated=True, - ) - version( - "7.74.0", - sha256="0f4d63e6681636539dc88fa8e929f934cd3a840c46e0bf28c73be11e521b77a5", - deprecated=True, - ) - version( - "7.73.0", - sha256="cf34fe0b07b800f1c01a499a6e8b2af548f6d0e044dca4a29d88a4bee146d131", - deprecated=True, - ) - version( - "7.72.0", - sha256="ad91970864102a59765e20ce16216efc9d6ad381471f7accceceab7d905703ef", - deprecated=True, - ) - version( - "7.71.0", - sha256="600f00ac2481a89548a4141ddf983fd9386165e1960bac91d0a1c81dca5dd341", - deprecated=True, - ) - version( - "7.68.0", - sha256="207f54917dd6a2dc733065ccf18d61bb5bebeaceb5df49cd9445483e8623eeb9", - deprecated=True, - ) - version( - "7.64.0", - sha256="d573ba1c2d1cf9d8533fadcce480d778417964e8d04ccddcc76e591d544cf2eb", - deprecated=True, - ) - version( - "7.63.0", - sha256="9bab7ed4ecff77020a312d84cc5fb7eb02d58419d218f267477a724a17fd8dd8", - deprecated=True, - ) - version( - "7.60.0", - sha256="897dfb2204bd99be328279f88f55b7c61592216b0542fcbe995c60aa92871e9b", - deprecated=True, - ) - version( - "7.59.0", - sha256="b5920ffd6a8c95585fb95070e0ced38322790cb335c39d0dab852d12e157b5a0", - deprecated=True, - ) - version( - "7.56.0", - sha256="de60a4725a3d461c70aa571d7d69c788f1816d9d1a8a2ef05f864ce8f01279df", - deprecated=True, - ) - version( - "7.54.0", - sha256="f50ebaf43c507fa7cc32be4b8108fa8bbd0f5022e90794388f3c7694a302ff06", - deprecated=True, - ) - version( - "7.53.1", - sha256="1c7207c06d75e9136a944a2e0528337ce76f15b9ec9ae4bb30d703b59bf530e8", - deprecated=True, - ) - version( - "7.52.1", - sha256="d16185a767cb2c1ba3d5b9096ec54e5ec198b213f45864a38b3bda4bbf87389b", - deprecated=True, - ) - version( - "7.50.3", - sha256="7b7347d976661d02c84a1f4d6daf40dee377efdc45b9e2c77dedb8acf140d8ec", - deprecated=True, - ) - version( - "7.50.2", - sha256="0c72105df4e9575d68bcf43aea1751056c1d29b1040df6194a49c5ac08f8e233", - deprecated=True, - ) - version( - "7.50.1", - sha256="3c12c5f54ccaa1d40abc65d672107dcc75d3e1fcb38c267484334280096e5156", - deprecated=True, - ) - version( - "7.49.1", - sha256="eb63cec4bef692eab9db459033f409533e6d10e20942f4b060b32819e81885f1", - deprecated=True, - ) - version( - "7.47.1", - sha256="ddc643ab9382e24bbe4747d43df189a0a6ce38fcb33df041b9cb0b3cd47ae98f", - deprecated=True, - ) - version( - "7.46.0", - sha256="b7d726cdd8ed4b6db0fa1b474a3c59ebbbe4dcd4c61ac5e7ade0e0270d3195ad", - deprecated=True, - ) - version( - "7.45.0", - sha256="65154e66b9f8a442b57c436904639507b4ac37ec13d6f8a48248f1b4012b98ea", - deprecated=True, - ) - version( - "7.44.0", - sha256="1e2541bae6582bb697c0fbae49e1d3e6fad5d05d5aa80dbd6f072e0a44341814", - deprecated=True, - ) - version( - "7.43.0", - sha256="baa654a1122530483ccc1c58cc112fec3724a82c11c6a389f1e6a37dc8858df9", - deprecated=True, - ) - version( - "7.42.1", - sha256="e2905973391ec2dfd7743a8034ad10eeb58dab8b3a297e7892a41a7999cac887", - deprecated=True, - ) - - default_tls = "openssl" - if sys.platform == "darwin": - default_tls = "secure_transport" - elif sys.platform == "win32": - default_tls = "sspi" - - # TODO: add dependencies for other possible TLS backends - variant( - "tls", - default=default_tls, - description="TLS backend", - values=( - # 'amissl', - # 'bearssl', - "gnutls", - conditional("mbedtls", when="@7.46:"), - # 'mesalink', - conditional("nss", when="@:7.81"), - "openssl", - # 'rustls', - # 'schannel', - "secure_transport", - # 'wolfssl', - conditional("sspi", when="platform=windows"), - ), - multi=True, - ) - variant("nghttp2", default=False, description="build nghttp2 library (requires C++11)") - variant("libssh2", default=False, description="enable libssh2 support") - variant("libssh", default=False, description="enable libssh support", when="@7.58:") - variant("gssapi", default=False, description="enable Kerberos support") - variant("librtmp", default=False, description="enable Rtmp support") - variant("ldap", default=False, description="enable ldap support") - variant("libidn2", default=False, description="enable libidn2 support") - for plat in ["darwin", "cray", "linux"]: - with when("platform=%s" % plat): - variant( - "libs", - default="shared,static", - values=("shared", "static"), - multi=True, - description="Build shared libs, static libs or both", - ) - # curl queries pkgconfig for openssl compilation flags - depends_on("pkgconfig", type="build") - - conflicts("platform=cray", when="tls=secure_transport", msg="Only supported on macOS") - conflicts("platform=linux", when="tls=secure_transport", msg="Only supported on macOS") - - depends_on("gnutls", when="tls=gnutls") - depends_on("mbedtls@2: +pic", when="@7.79: tls=mbedtls") - depends_on("mbedtls@:2 +pic", when="@:7.78 tls=mbedtls") - depends_on("nss", when="tls=nss") - depends_on("openssl", when="tls=openssl") - depends_on("libidn2", when="+libidn2") - depends_on("zlib") - depends_on("nghttp2", when="+nghttp2") - depends_on("libssh2", when="+libssh2") - depends_on("libssh", when="+libssh") - depends_on("krb5", when="+gssapi") - - # curl queries pkgconfig for openssl compilation flags - depends_on("pkgconfig", type="build") - - # https://github.com/curl/curl/pull/9054 - patch("easy-lock-sched-header.patch", when="@7.84.0") - - build_system("autotools", conditional("nmake", when="platform=windows"), default="autotools") - - @classmethod - def determine_version(cls, exe): - curl = Executable(exe) - output = curl("--version", output=str, error=str) - match = re.match(r"curl ([\d.]+)", output) - return match.group(1) if match else None - - @classmethod - def determine_variants(cls, exes, version): - for exe in exes: - variants = "" - curl = Executable(exe) - output = curl("--version", output=str, error=str) - if "nghttp2" in output: - variants += "+nghttp2" - protocols_match = re.search(r"Protocols: (.*)\n", output) - if protocols_match: - protocols = protocols_match.group(1).strip().split(" ") - if "ldap" in protocols: - variants += "+ldap" - features_match = re.search(r"Features: (.*)\n", output) - if features_match: - features = features_match.group(1).strip().split(" ") - if "GSS-API" in features: - variants += "+gssapi" - # TODO: Determine TLS backend if needed. - # TODO: Determine more variants. - return variants - - @property - def command(self): - return Executable(self.prefix.bin.join("curl-config")) - - -class AutotoolsBuilder(AutotoolsBuilder): - def configure_args(self): - spec = self.spec - - args = [ - "--with-zlib=" + spec["zlib"].prefix, - # Prevent unintentional linking against system libraries: we could - # add variants for these in the future - "--without-brotli", - "--without-libgsasl", - "--without-libpsl", - "--without-zstd", - ] - - args += self.enable_or_disable("libs") - - # Make gnutls / openssl decide what certs are trusted. - # TODO: certs for other tls options. - if spec.satisfies("tls=gnutls") or spec.satisfies("tls=openssl"): - args.extend(["--without-ca-bundle", "--without-ca-path", "--with-ca-fallback"]) - - # https://daniel.haxx.se/blog/2021/06/07/bye-bye-metalink-in-curl/ - # We always disable it explicitly, but the flag is gone in newer - # versions. - if spec.satisfies("@:7.77"): - args.append("--without-libmetalink") - - if spec.satisfies("+gssapi"): - args.append("--with-gssapi=" + spec["krb5"].prefix) - else: - args.append("--without-gssapi") - - args += self.with_or_without("tls") - args += self.with_or_without("libidn2", activation_value="prefix") - args += self.with_or_without("librtmp") - args += self.with_or_without("nghttp2", activation_value="prefix") - args += self.with_or_without("libssh2", activation_value="prefix") - args += self.with_or_without("libssh", activation_value="prefix") - args += self.enable_or_disable("ldap") - - return args - - def with_or_without_gnutls(self, activated): - if activated: - return "--with-gnutls=" + self.spec["gnutls"].prefix - else: - return "--without-gnutls" - - def with_or_without_mbedtls(self, activated): - if self.spec.satisfies("@7.46:"): - if activated: - return "--with-mbedtls=" + self.spec["mbedtls"].prefix - else: - return "--without-mbedtls" - - def with_or_without_nss(self, activated): - if activated: - return "--with-nss=" + self.spec["nss"].prefix - else: - return "--without-nss" - - def with_or_without_openssl(self, activated): - if self.spec.satisfies("@7.77:"): - if activated: - return "--with-openssl=" + self.spec["openssl"].prefix - else: - return "--without-openssl" - else: - if activated: - return "--with-ssl=" + self.spec["openssl"].prefix - else: - return "--without-ssl" - - def with_or_without_secure_transport(self, activated): - if self.spec.satisfies("@7.65:"): - if activated: - return "--with-secure-transport" - else: - return "--without-secure-transport" - else: - if activated: - return "--with-darwinssl" - else: - return "--without-darwinssl" - - -class NMakeBuilder(NMakeBuilder): - phases = ["install"] - - def nmake_args(self): - args = [] - mode = "dll" if "libs=dll" in self.spec else "static" - args.append("mode=%s" % mode) - args.append("WITH_ZLIB=%s" % mode) - args.append("ZLIB_PATH=%s" % self.spec["zlib"].prefix) - if "+libssh" in self.spec: - args.append("WITH_SSH=%s" % mode) - if "+libssh2" in self.spec: - args.append("WITH_SSH2=%s" % mode) - args.append("SSH2_PATH=%s" % self.spec["libssh2"].prefix) - if "+nghttp2" in self.spec: - args.append("WITH_NGHTTP2=%s" % mode) - args.append("NGHTTP2=%s" % self.spec["nghttp2"].prefix) - if "tls=openssl" in self.spec: - args.append("WITH_SSL=%s" % mode) - args.append("SSL_PATH=%s" % self.spec["openssl"].prefix) - elif "tls=mbedtls" in self.spec: - args.append("WITH_MBEDTLS=%s" % mode) - args.append("MBEDTLS_PATH=%s" % self.spec["mbedtls"].prefix) - elif "tls=sspi" in self.spec: - args.append("ENABLE_SSPI=%s" % mode) - - # The trailing path seperator is REQUIRED for cURL to install - # otherwise cURLs build system will interpret the path as a file - # and the install will fail with ambiguous errors - args.append("WITH_PREFIX=%s" % self.prefix + "\\") - return args - - def install(self, spec, prefix): - # Spack's env CC and CXX values will cause an error - # if there is a path in the space, and escaping with - # double quotes raises a syntax issues, instead - # cURLs nmake will automatically invoke proper cl.exe if - # no env value for CC, CXX is specified - # Unset the value to allow for cURLs heuristics (derive via VCVARS) - # to derive the proper compiler - env = os.environ - env["CC"] = "" - env["CXX"] = "" - winbuild_dir = os.path.join(self.stage.source_path, "winbuild") - with working_dir(winbuild_dir): - nmake("/f", "Makefile.vc", *self.nmake_args(), ignore_quotes=True) - with working_dir(os.path.join(self.stage.source_path, "builds")): - install_dir = glob.glob("libcurl-**")[0] - install_tree(install_dir, self.prefix) diff --git a/repos/backports/packages/gdal/package.py b/repos/backports/packages/gdal/package.py deleted file mode 100644 index 7238815e..00000000 --- a/repos/backports/packages/gdal/package.py +++ /dev/null @@ -1,749 +0,0 @@ -# Copyright 2013-2023 Lawrence Livermore National Security, LLC and other -# Spack Project Developers. See the top-level COPYRIGHT file for details. -# -# SPDX-License-Identifier: (Apache-2.0 OR MIT) - -import os -import sys - -from spack.build_systems.autotools import AutotoolsBuilder -from spack.build_systems.cmake import CMakeBuilder -from spack.package import * -from spack.util.environment import filter_system_paths - - -class Gdal(CMakePackage, AutotoolsPackage, PythonExtension): - """GDAL: Geospatial Data Abstraction Library. - - GDAL is a translator library for raster and vector geospatial data formats that - is released under an MIT style Open Source License by the Open Source Geospatial - Foundation. As a library, it presents a single raster abstract data model and - single vector abstract data model to the calling application for all supported - formats. It also comes with a variety of useful command line utilities for data - translation and processing. - """ - - homepage = "https://www.gdal.org/" - url = "https://download.osgeo.org/gdal/3.2.0/gdal-3.2.0.tar.xz" - list_url = "https://download.osgeo.org/gdal/" - list_depth = 1 - - #maintainers("adamjstewart") - - version("3.6.2", sha256="35f40d2e08061b342513cdcddc2b997b3814ef8254514f0ef1e8bc7aa56cf681") - version("3.6.1", sha256="68f1c03547ff7152289789db7f67ee634167c9b7bfec4872b88406b236f9c230") - version("3.6.0", sha256="f7afa4aa8d32d0799e011a9f573c6a67e9471f78e70d3d0d0b45b45c8c0c1a94") - version("3.5.3", sha256="d32223ddf145aafbbaec5ccfa5dbc164147fb3348a3413057f9b1600bb5b3890") - version("3.5.2", sha256="0874dfdeb9ac42e53c37be4184b19350be76f0530e1f4fa8004361635b9030c2") - version("3.5.1", sha256="d12c30a9eacdeaab493c0d1c9f88eb337c9cbb5bb40744c751bdd5a5af166ab6") - version("3.5.0", sha256="d49121e5348a51659807be4fb866aa840f8dbec4d1acba6d17fdefa72125bfc9") - version("3.4.3", sha256="02a27b35899e1c4c3bcb6007da900128ddd7e8ab7cd6ccfecf338a301eadad5a") - version("3.4.2", sha256="16baf03dfccf9e3f72bb2e15cd2d5b3f4be0437cdff8a785bceab0c7be557335") - version("3.4.1", sha256="332f053516ca45101ef0f7fa96309b64242688a8024780a5d93be0230e42173d") - version("3.4.0", sha256="ac7bd2bb9436f3fc38bc7309704672980f82d64b4d57627d27849259b8f71d5c") - version("3.3.3", sha256="1e8fc8b19c77238c7f4c27857d04857b65d8b7e8050d3aac256d70fa48a21e76") - version("3.3.2", sha256="630e34141cf398c3078d7d8f08bb44e804c65bbf09807b3610dcbfbc37115cc3") - version("3.3.1", sha256="48ab00b77d49f08cf66c60ccce55abb6455c3079f545e60c90ee7ce857bccb70") - version("3.3.0", sha256="190c8f4b56afc767f43836b2a5cd53cc52ee7fdc25eb78c6079c5a244e28efa7") - version("3.2.3", sha256="d9ec8458fe97fd02bf36379e7f63eaafce1005eeb60e329ed25bb2d2a17a796f") - version("3.2.2", sha256="a7e1e414e5c405af48982bf4724a3da64a05770254f2ce8affb5f58a7604ca57") - version("3.2.1", sha256="6c588b58fcb63ff3f288eb9f02d76791c0955ba9210d98c3abd879c770ae28ea") - version("3.2.0", sha256="b051f852600ffdf07e337a7f15673da23f9201a9dbb482bd513756a3e5a196a6") - version("3.1.4", sha256="7b82486f71c71cec61f9b237116212ce18ef6b90f068cbbf9f7de4fc50b576a8") - version("3.1.3", sha256="161cf55371a143826f1d76ce566db1f0a666496eeb4371aed78b1642f219d51d") - version("3.1.2", sha256="767c8d0dfa20ba3283de05d23a1d1c03a7e805d0ce2936beaff0bb7d11450641") - version("3.1.1", sha256="97154a606339a6c1d87c80fb354d7456fe49828b2ef9a3bc9ed91771a03d2a04") - version("3.1.0", sha256="e754a22242ccbec731aacdb2333b567d4c95b9b02d3ba1ea12f70508d244fcda") - version("3.0.4", sha256="5569a4daa1abcbba47a9d535172fc335194d9214fdb96cd0f139bb57329ae277") - version("3.0.3", sha256="e20add5802265159366f197a8bb354899e1693eab8dbba2208de14a457566109") - version("3.0.2", sha256="c3765371ce391715c8f28bd6defbc70b57aa43341f6e94605f04fe3c92468983") - version("3.0.1", sha256="45b4ae25dbd87282d589eca76481c426f72132d7a599556470d5c38263b09266") - version("3.0.0", sha256="ad316fa052d94d9606e90b20a514b92b2dd64e3142dfdbd8f10981a5fcd5c43e") - version("2.4.4", sha256="a383bd3cf555d6e1169666b01b5b3025b2722ed39e834f1b65090f604405dcd8") - version("2.4.3", sha256="d52dc3e0cff3af3e898d887c4151442989f416e839948e73f0994f0224bbff60") - version("2.4.2", sha256="dcc132e469c5eb76fa4aaff238d32e45a5d947dc5b6c801a123b70045b618e0c") - version("2.4.1", sha256="fd51b4900b2fc49b98d8714f55fc8a78ebfd07218357f93fb796791115a5a1ad") - version("2.4.0", sha256="c3791dcc6d37e59f6efa86e2df2a55a4485237b0a48e330ae08949f0cdf00f27") - version("2.3.3", sha256="c3635e41766a648f945d235b922e3c5306e26a2ee5bbd730d2181e242f5f46fe") - version("2.3.2", sha256="3f6d78fe8807d1d6afb7bed27394f19467840a82bc36d65e66316fa0aa9d32a4") - version("2.3.1", sha256="9c4625c45a3ee7e49a604ef221778983dd9fd8104922a87f20b99d9bedb7725a") - version("2.3.0", sha256="6f75e49aa30de140525ccb58688667efe3a2d770576feb7fbc91023b7f552aa2") - version("2.2.4", sha256="441eb1d1acb35238ca43a1a0a649493fc91fdcbab231d0747e9d462eea192278") - version("2.2.3", sha256="a328d63d476b3653f5a25b5f7971e87a15cdf8860ab0729d4b1157ba988b8d0b") - version("2.2.2", sha256="eb25d6ee85f4f5ac1d5581958f8c6eed9b1d50746f82866fe92e507541def35b") - version("2.2.1", sha256="927098d54083ac919a497f787b835b099e9a194f2e5444dbff901f7426b86066") - version("2.2.0", sha256="0d4c326862e0f118e17418c042c2bcd037b25abd3fb198e1fc5d40b11a9fc8ea") - version("2.1.4", sha256="e06a7ae4c4ed2fd678cd045ff50a10ff5002f3b81cdfcd8ab03c39ce962d9b63") - version("2.1.3", sha256="b489793627e6cb8d2ff8d7737b61daf58382fe189fae4c581ddfd48c04b49005") - version("2.1.2", sha256="b597f36bd29a2b4368998ddd32b28c8cdf3c8192237a81b99af83cc17d7fa374") - version("2.1.1", sha256="87ce516ce757ad1edf1e21f007fbe232ed2e932af422e9893f40199711c41f92") - version("2.1.0", sha256="568b43441955b306364fcf97fb47d4c1512ac6f2f5f76b2ec39a890d2418ee03") - version("2.0.3", sha256="3c6c5ade299c7a52fc9c5d2111110c97032e1f0c2593ce6091c364b1a43b442a") - version("2.0.2", sha256="90f838853cc1c07e55893483faa7e923e4b4b1659c6bc9df3538366030a7e622") - version("2.0.1", sha256="2564c91ed8ed36274ee31002a25798f5babc4221e879cb5013867733d80f9920") - version("2.0.0", sha256="91704fafeea2349c5e268dc1e2d03921b3aae64b05ee01d59fdfc1a6b0ffc061") - - # Optional dependencies - variant( - "armadillo", - default=False, - description="Speed up computations related to the Thin Plate Spline transformer", - ) - variant( - "arrow", default=False, when="build_system=cmake", description="Required for Arrow driver" - ) - variant( - "basisu", default=False, when="@3.6:", description="Required for BASISU and KTX2 drivers" - ) - variant("blosc", default=False, when="@3.4:", description="Required for Zarr driver") - variant("brunsli", default=False, when="@3.4:", description="Required for MRF driver") - variant("bsb", default=False, when="@:2", description="Required for BSB driver") - variant("cfitsio", default=False, description="Required for FITS driver") - variant("crnlib", default=False, description="Required for DDS driver") - variant("curl", default=True, description="Required for network access") - variant("cryptopp", default=False, when="@2.1:", description="Required for EEDAI driver") - variant("deflate", default=False, when="@3.2:", description="Required for Deflate compression") - variant("dods", default=False, when="@:3.4", description="Required for DODS driver") - variant("ecw", default=False, description="Required for ECW driver") - variant("epsilon", default=False, when="@:3.2", description="Required for EPSILON driver") - variant("expat", default=True, description="Required for XML parsing in many OGR drivers") - variant("filegdb", default=False, description="Required for FileGDB driver") - variant("fme", default=False, when="@:3.4", description="Required for FME driver") - variant("freexl", default=False, description="Required for XLS driver") - variant("fyba", default=False, description="Required for SOSI driver") - variant("geos", default=True, description="Required for geometry processing operations in OGR") - variant("gif", default=False, description="Required for GIF driver") - variant("grass", default=False, when="@:3.4", description="Required for GRASS driver") - variant("grib", default=False, when="@:2", description="Required for GRIB driver") - variant("gta", default=False, description="Required for GTA driver") - variant("heif", default=False, when="@3.2:", description="Required for HEIF driver") - variant("hdf4", default=False, description="Required for HDF4 driver") - variant("hdf5", default=False, description="Required for HDF5, BAG, and KEA drivers") - variant( - "hdfs", default=False, when="@2.4:", description="Required for Hadoop filesystem support" - ) - variant("iconv", default=False, description="Required for text encoding conversion") - variant("idb", default=False, description="Required for IDB driver") - variant("ingres", default=False, when="@:3.4", description="Required for Ingres driver") - variant("jasper", default=False, when="@:3.4", description="Optional JPEG-2000 library") - variant("jpeg", default=True, description="Required for JPEG driver") - variant("jxl", default=False, when="@3.4:", description="Required for JPEGXL driver") - variant("kdu", default=False, description="Required for JP2KAK and JPIPKAK drivers") - variant("kea", default=False, description="Required for KEA driver") - variant("lerc", default=False, when="@2.4:", description="Required for LERC compression") - variant("libcsf", default=False, description="Required for PCRaster driver") - variant("libkml", default=False, description="Required for LIBKML driver") - variant("liblzma", default=False, description="Required for Zarr driver") - variant( - "libxml2", default=False, description="Required for XML validation in many OGR drivers" - ) - variant("luratech", default=False, when="@2.2:", description="Required for JP2Lura driver") - variant("lz4", default=False, when="@3.4:", description="Required for Zarr driver") - variant("mdb", default=False, when="@:3.4", description="Required for MDB driver") - variant("mongocxx", default=False, when="@2.1:", description="Required for MongoDBv3 driver") - variant("mrf", default=False, when="@2.1:2", description="Required for MRF driver") - variant("mrsid", default=False, description="Required for MrSID driver") - variant( - "mrsid_lidar", default=False, when="@:3.4", description="Required for MrSID/MG4 driver" - ) - variant( - "mssql_ncli", - default=False, - when="build_system=cmake", - description="Required for MSSQLSpatial driver", - ) - variant( - "mssql_odbc", - default=False, - when="build_system=cmake", - description="Required for MSSQLSpatial driver", - ) - variant("mysql", default=False, description="Required for MySQL driver") - variant("netcdf", default=False, description="Required for NetCDF driver") - variant("odbc", default=False, description="Required for many OGR drivers") - variant( - "odbccpp", - default=False, - when="build_system=cmake", - description="Required for SAP HANA driver", - ) - variant("ogdi", default=False, description="Required for OGDI driver") - variant( - "opencad", default=False, when="build_system=cmake", description="Required for CAD driver" - ) - variant("opencl", default=False, description="Required to accelerate warping computations") - variant("openexr", default=False, when="@3.1:", description="Required for EXR driver") - variant("openjpeg", default=False, description="Required for JP2OpenJPEG driver") - variant("openssl", default=False, when="@2.3:", description="Required for EEDAI driver") - variant("oracle", default=False, description="Required for OCI and GeoRaster drivers") - variant( - "parquet", - default=False, - when="build_system=cmake", - description="Required for Parquet driver", - ) - variant("pcidsk", default=False, description="Required for PCIDSK driver") - variant( - "pcre", default=False, description="Required for REGEXP operator in drivers using SQLite3" - ) - variant("pdfium", default=False, when="@2.1:", description="Possible backend for PDF driver") - variant("png", default=True, description="Required for PNG driver") - variant("podofo", default=False, description="Possible backend for PDF driver") - variant("poppler", default=False, description="Possible backend for PDF driver") - variant( - "postgresql", - default=False, - description="Required for PostgreSQL and PostGISRaster drivers", - ) - variant("qb3", default=False, when="@3.6:", description="Required for MRF driver") - variant( - "qhull", - default=False, - when="@2.1:", - description="Used for linear interpolation of gdal_grid", - ) - variant("rasdaman", default=False, description="Required for Rasdaman driver") - variant( - "rasterlite2", default=False, when="@2.2:", description="Required for RasterLite2 driver" - ) - variant("rdb", default=False, when="@3.1:", description="Required for RDB driver") - variant("sde", default=False, when="@:3.1", description="Required for SDE driver") - variant("sfcgal", default=False, when="@2.2:", description="Provides 3D geometry operations") - variant("spatialite", default=False, description="Required for SQLite and GPKG drivers") - variant("sqlite3", default=True, description="Required for SQLite and GPKG drivers") - variant("teigha", default=False, description="Required for DWG and DGNv8 drivers") - variant("tiledb", default=False, when="@3:", description="Required for TileDB driver") - variant("webp", default=False, description="Required for WEBP driver") - variant( - "xercesc", - default=False, - description="Required for XML parsing capabilities in many OGR drivers", - ) - variant("zstd", default=False, when="@2.3:", description="Required for Zarr driver") - - # Language bindings - variant("python", default=False, description="Build Python bindings") - variant("java", default=False, description="Build Java bindings") - variant("csharp", default=False, when="build_system=cmake", description="Build C# bindings") - variant("perl", default=False, when="@:3.4", description="Build Perl bindings") - variant("php", default=False, when="@:2.3", description="Build PHP bindings") - - # Build system - build_system( - conditional("cmake", when="@3.5:"), - conditional("autotools", when="@:3.5"), - default="cmake", - ) - - with when("build_system=cmake"): - depends_on("cmake@3.9:", type="build") - depends_on("ninja", type="build") - - with when("build_system=autotools"): - depends_on("gmake", type="build") - - # Required dependencies - depends_on("pkgconfig@0.25:", type="build") - depends_on("proj@6:", when="@3:") - depends_on("proj@:6", when="@2.5:2") - depends_on("proj@:5", when="@2.4") - depends_on("proj@:4", when="@:2.3") - depends_on("zlib") - depends_on("libtiff@4:", when="@3:") - depends_on("libtiff@3.6.0:") # 3.9.0+ needed to pass testsuite - depends_on("libgeotiff@1.5:", when="@3:") - depends_on("libgeotiff@1.2.1:1.5", when="@2.4.1:2") - depends_on("libgeotiff@1.2.1:1.4", when="@:2.4.0") - depends_on("json-c") - depends_on("json-c@0.12.1", when="@:2.2") - - # Optional dependencies - depends_on("armadillo", when="+armadillo") - depends_on("blas", when="+armadillo") - depends_on("lapack", when="+armadillo") - depends_on("arrow", when="+arrow") - # depends_on("basis-universal", when="+basisu") - depends_on("c-blosc", when="+blosc") - depends_on("brunsli", when="+brunsli") - # depends_on('bsb', when='+bsb') - depends_on("cfitsio", when="+cfitsio") - depends_on("crunch", when="+crnlib") - depends_on("curl", when="+curl") - depends_on("cryptopp", when="+cryptopp") - depends_on("libdeflate", when="+deflate") - # depends_on('dods', when='+dods') - # depends_on('ecw', when='+ecw') - # depends_on('libepsilon', when='+epsilon') - depends_on("expat@1.95:", when="+expat") - # depends_on('filegdb', when='+filegdb') - # depends_on('fme', when='+fme') - depends_on("freexl", when="+freexl") - depends_on("fyba", when="+fyba") - depends_on("geos@3.1:", when="+geos") - depends_on("giflib", when="+gif") - depends_on("grass@5.7:", when="+grass") - depends_on("grib-api", when="+grib") - depends_on("libgta", when="+gta") - depends_on("libheif@1.1:", when="+heif") - depends_on("hdf", when="+hdf4") - depends_on("hdf5+cxx", when="+hdf5") - depends_on("hdf5@:1.12", when="@:3.4.1 +hdf5") - depends_on("hadoop", when="+hdfs") - depends_on("iconv", when="+iconv") - # depends_on('idb', when='+idb') - # depends_on('ingres', when='+ingres') - depends_on("jasper@1.900.1", patches=[patch("uuid.patch")], when="+jasper") - depends_on("jpeg", when="+jpeg") - depends_on("libjxl", when="+jxl") - # depends_on('kakadu', when='+kdu') - depends_on("kealib", when="+kea") - depends_on("lerc", when="+lerc") - # depends_on('libcsf', when='+libcsf') - depends_on("libkml@1.3:", when="+libkml") - depends_on("xz", when="+liblzma") - depends_on("libxml2", when="+libxml2") - # depends_on('luratech', when='+luratech') - depends_on("lz4", when="+lz4") - depends_on("jackcess@1.2", type="run", when="+mdb") - depends_on("mongo-cxx-driver", when="+mongocxx") - # depends_on('bsoncxx', when='+mongocxx') - # depends_on('mrf', when='+mrf') - # depends_on('mrsid', when='+mrsid') - # depends_on('lizardtech-lidar', when='+mrsid_lidar') - # depends_on('mssql_ncli', when='+mssql_ncli') - # depends_on('mssql_odbc', when='+mssql_odbc') - depends_on("mysql", when="+mysql") - depends_on("netcdf-c", when="+netcdf") - depends_on("unixodbc", when="+odbc") - # depends_on('odbc-cpp-wrapper', when='+odbccpp') - # depends_on('ogdi', when='+ogdi') - # depends_on('lib-opencad', when='+opencad') - depends_on("opencl", when="+opencl") - depends_on("openexr@2.2:", when="+openexr") - depends_on("openjpeg", when="+openjpeg") - depends_on("openssl", when="+openssl") - depends_on("oracle-instant-client", when="+oracle") - depends_on("parquet-cpp", when="+parquet") - # depends_on('pcidsk', when='+pcidsk') - depends_on("pcre2", when="@3.5:+pcre") - depends_on("pcre", when="@:3.4+pcre") - # depends_on('pdfium', when='+pdfium') - depends_on("libpng", when="+png") - # depends_on('podofo', when='+podofo') - depends_on("poppler", when="+poppler") - depends_on("poppler@0.24:", when="@3: +poppler") - depends_on("poppler@:0.63", when="@:2.3 +poppler") - depends_on("poppler@:0.71", when="@:2.4 +poppler") - depends_on("poppler@:21", when="@:3.4.1 +poppler") - depends_on("postgresql", when="+postgresql") - depends_on("qb3", when="+qb3") - depends_on("qhull", when="+qhull") - depends_on("qhull@2015:", when="@3.5:+qhull") - depends_on("qhull@:2020.1", when="@:3.3+qhull") - # depends_on('rasdaman', when='+rasdaman') - # depends_on('rasterlite2@1.1:', when='+rasterlite2') - # depends_on('rdblib', when='+rdb') - # depends_on('sde', when='+sde') - depends_on("sfcgal", when="+sfcgal") - depends_on("libspatialite", when="+spatialite") - depends_on("sqlite@3:", when="+sqlite3") - # depends_on('teigha', when='+teigha') - # depends_on('tiledb', when='+tiledb') - depends_on("libwebp", when="+webp") - depends_on("xerces-c@3.1:", when="+xercesc") - depends_on("zstd", when="+zstd") - - # Language bindings - # FIXME: Allow packages to extend multiple packages - # See https://github.com/spack/spack/issues/987 - extends("python", when="+python") - # extends('openjdk', when='+java') - # extends('perl', when='+perl') - - # see gdal_version_and_min_supported_python_version - # in swig/python/osgeo/__init__.py - depends_on("python@3.6:", type=("build", "link", "run"), when="@3.3:+python") - depends_on("python@2.0:", type=("build", "link", "run"), when="@3.2:+python") - depends_on("python", type=("build", "link", "run"), when="+python") - # swig/python/setup.py - depends_on("py-setuptools@:57", type="build", when="@:3.2+python") # needs 2to3 - depends_on("py-setuptools", type="build", when="+python") - depends_on("py-numpy@1.0.0:", type=("build", "run"), when="+python") - depends_on("swig", type="build", when="+python") - depends_on("java@7:", type=("build", "link", "run"), when="@3.2:+java") - depends_on("java@6:", type=("build", "link", "run"), when="@2.4:+java") - depends_on("java@5:", type=("build", "link", "run"), when="@2.1:+java") - depends_on("java@4:", type=("build", "link", "run"), when="@:2.0+java") - depends_on("ant", type="build", when="+java") - depends_on("swig", type="build", when="+java") - depends_on("perl", type=("build", "run"), when="+perl") - depends_on("swig", type="build", when="+perl") - depends_on("php", type=("build", "link", "run"), when="+php") - depends_on("swig", type="build", when="+php") - - # https://trac.osgeo.org/gdal/wiki/SupportedCompilers - msg = "GDAL requires C++11 support" - conflicts("%gcc@:4.8.0", msg=msg) - conflicts("%clang@:3.2", msg=msg) - conflicts("%intel@:12", msg=msg) - conflicts("%xl@:13.0", msg=msg) - conflicts("%xl_r@:13.0", msg=msg) - - # https://github.com/OSGeo/gdal/issues/5994 - conflicts("~png", when="@3:3.5.0") - conflicts("~jpeg", when="@3:3.5.0") - # TODO: investigate build issues - conflicts("+brunsli", when="@3.4") - conflicts("+qhull", when="@2.1") - conflicts("+mdb", when="~java", msg="MDB driver requires Java") - - # TODO: add packages for the following dependencies - conflicts("+bsb") - conflicts("+dods") - conflicts("+ecw") - conflicts("+epsilon") - conflicts("+filegdb") - conflicts("+fme") - conflicts("+idb") - conflicts("+ingres") - conflicts("+kdu") - conflicts("+libcsf") - conflicts("+luratech") - conflicts("+mrf") - conflicts("+mrsid") - conflicts("+mrsid_lidar") - conflicts("+mssql_ncli") - conflicts("+mssql_odbc") - conflicts("+odbccpp") - conflicts("+ogdi") - conflicts("+opencad") - conflicts("+pcidsk") - conflicts("+pdfium") - conflicts("+podofo") - conflicts("+rasdaman") - conflicts("+rasterlite2") - conflicts("+rdb") - conflicts("+sde") - conflicts("+teigha") - conflicts("+tiledb") - - # https://github.com/OSGeo/gdal/issues/3782 - patch( - "https://github.com/OSGeo/gdal/pull/3786.patch?full_index=1", - when="@3.3.0", - level=2, - sha256="9f9824296e75b34b3e78284ec772a5ac8f8ba92c17253ea9ca242caf766767ce", - ) - - executables = ["^gdal-config$"] - - @classmethod - def determine_version(cls, exe): - return Executable(exe)("--version", output=str, error=str).rstrip() - - def setup_run_environment(self, env): - if "+java" in self.spec: - class_paths = find(self.prefix, "*.jar") - classpath = os.pathsep.join(class_paths) - env.prepend_path("CLASSPATH", classpath) - - # `spack test run gdal+python` requires these for the Python bindings - # to find the correct libraries - libs = [] - for dep in self.spec.dependencies(deptype="link"): - query = self.spec[dep.name] - libs.extend(filter_system_paths(query.libs.directories)) - if sys.platform == "darwin": - env.prepend_path("DYLD_FALLBACK_LIBRARY_PATH", ":".join(libs)) - else: - env.prepend_path("LD_LIBRARY_PATH", ":".join(libs)) - - def patch(self): - if "+java platform=darwin" in self.spec: - filter_file("linux", "darwin", "swig/java/java.opt", string=True) - - -class CMakeBuilder(CMakeBuilder): - generator = "Ninja" - - def cmake_args(self): - # https://gdal.org/build_hints.html - args = [ - # Only use Spack-installed dependencies - self.define("GDAL_USE_EXTERNAL_LIBS", False), - self.define("GDAL_USE_INTERNAL_LIBS", False), - # Required dependencies - self.define("GDAL_USE_GEOTIFF", True), - self.define("GDAL_USE_JSONC", True), - self.define("GDAL_USE_TIFF", True), - self.define("GDAL_USE_ZLIB", True), - # Optional dependencies - self.define_from_variant("GDAL_USE_ARMADILLO", "armadillo"), - self.define_from_variant("GDAL_USE_ARROW", "arrow"), - self.define_from_variant("GDAL_USE_BASISU", "basisu"), - self.define_from_variant("GDAL_USE_BLOSC", "blosc"), - self.define_from_variant("GDAL_USE_BRUNSLI", "brunsli"), - self.define_from_variant("GDAL_USE_CFITSIO", "cfitsio"), - self.define_from_variant("GDAL_USE_CRNLIB", "crnlib"), - self.define_from_variant("GDAL_USE_CRYPTOPP", "cryptopp"), - self.define_from_variant("GDAL_USE_CURL", "curl"), - self.define_from_variant("GDAL_USE_DEFLATE", "deflate"), - self.define_from_variant("GDAL_USE_ECW", "ecw"), - self.define_from_variant("GDAL_USE_EXPAT", "expat"), - self.define_from_variant("GDAL_USE_FILEGDB", "filegdb"), - self.define_from_variant("GDAL_USE_FREEXL", "freexl"), - self.define_from_variant("GDAL_USE_FYBA", "fyba"), - self.define_from_variant("GDAL_USE_GEOS", "geos"), - self.define_from_variant("GDAL_USE_GIF", "gif"), - self.define_from_variant("GDAL_USE_GTA", "gta"), - self.define_from_variant("GDAL_USE_HEIF", "heif"), - self.define_from_variant("GDAL_USE_HDF4", "hdf4"), - self.define_from_variant("GDAL_USE_HDF5", "hdf5"), - self.define_from_variant("GDAL_USE_HDFS", "hdfs"), - self.define_from_variant("GDAL_USE_ICONV", "iconv"), - self.define_from_variant("GDAL_USE_IDB", "idb"), - self.define_from_variant("GDAL_USE_JPEG", "jpeg"), - self.define_from_variant("GDAL_USE_JXL", "jxl"), - self.define_from_variant("GDAL_USE_KDU", "kdu"), - self.define_from_variant("GDAL_USE_KEA", "kea"), - self.define_from_variant("GDAL_USE_LERC", "lerc"), - self.define_from_variant("GDAL_USE_LIBCSF", "libcsf"), - self.define_from_variant("GDAL_USE_LIBKML", "libkml"), - self.define_from_variant("GDAL_USE_LIBLZMA", "liblzma"), - self.define_from_variant("GDAL_USE_LIBXML2", "libxml2"), - self.define_from_variant("GDAL_USE_LURATECH", "luratech"), - self.define_from_variant("GDAL_USE_LZ4", "lz4"), - self.define_from_variant("GDAL_USE_MONGOCXX", "mongocxx"), - self.define_from_variant("GDAL_USE_MRSID", "mrsid"), - self.define_from_variant("GDAL_USE_MSSQL_NCLI", "mssql_ncli"), - self.define_from_variant("GDAL_USE_MSSQL_ODBC", "mssql_odbc"), - self.define_from_variant("GDAL_USE_MYSQL", "mysql"), - self.define_from_variant("GDAL_USE_NETCDF", "netcdf"), - self.define_from_variant("GDAL_USE_ODBC", "odbc"), - self.define_from_variant("GDAL_USE_ODBCCPP", "odbccpp"), - self.define_from_variant("GDAL_USE_OGDI", "ogdi"), - self.define_from_variant("GDAL_USE_OPENCAD", "opencad"), - self.define_from_variant("GDAL_USE_OPENCL", "opencl"), - self.define_from_variant("GDAL_USE_OPENEXR", "openexr"), - self.define_from_variant("GDAL_USE_OPENJPEG", "openjpeg"), - self.define_from_variant("GDAL_USE_OPENSSL", "openssl"), - self.define_from_variant("GDAL_USE_ORACLE", "oracle"), - self.define_from_variant("GDAL_USE_PARQUET", "parquet"), - self.define_from_variant("GDAL_USE_PCRE2", "pcre"), - self.define_from_variant("GDAL_USE_PDFIUM", "pdfium"), - self.define_from_variant("GDAL_USE_PNG", "png"), - self.define_from_variant("GDAL_USE_PODOFO", "podofo"), - self.define_from_variant("GDAL_USE_POPPLER", "poppler"), - self.define_from_variant("GDAL_USE_POSTGRESQL", "postgresql"), - self.define_from_variant("GDAL_USE_LIBQB3", "qb3"), - self.define_from_variant("GDAL_USE_QHULL", "qhull"), - self.define_from_variant("GDAL_USE_RASDAMAN", "rasdaman"), - self.define_from_variant("GDAL_USE_RASTERLITE2", "rasterlite2"), - self.define_from_variant("GDAL_USE_RDB", "rdb"), - self.define_from_variant("GDAL_USE_SFCGAL", "sfcgal"), - self.define_from_variant("GDAL_USE_SPATIALITE", "spatialite"), - self.define_from_variant("GDAL_USE_SQLITE3", "sqlite3"), - self.define_from_variant("GDAL_USE_TEIGHA", "teigha"), - self.define_from_variant("GDAL_USE_TILEDB", "tiledb"), - self.define_from_variant("GDAL_USE_WEBP", "webp"), - self.define_from_variant("GDAL_USE_XERCESC", "xercesc"), - self.define_from_variant("GDAL_USE_ZSTD", "zstd"), - # Language bindings - self.define_from_variant("BUILD_PYTHON_BINDINGS", "python"), - self.define_from_variant("BUILD_JAVA_BINDINGS", "java"), - self.define_from_variant("BUILD_CSHARP_BINDINGS", "csharp"), - ] - - # Remove empty strings - args = [arg for arg in args if arg] - - return args - - -class AutotoolsBuilder(AutotoolsBuilder): - def setup_build_environment(self, env): - # Needed to install Python bindings to GDAL installation - # prefix instead of Python installation prefix. - # See swig/python/GNUmakefile for more details. - env.set("PREFIX", self.prefix) - env.set("DESTDIR", "/") - - def with_or_without(self, name, variant=None, package=None, attribute=None): - if not variant: - variant = name - - if variant not in self.pkg.variants: - msg = '"{}" is not a variant of "{}"' - raise KeyError(msg.format(variant, self.name)) - - if variant not in self.spec.variants: - return "" - - if self.spec.variants[variant].value: - if package: - value = self.spec[package].prefix - if attribute == "command": - value = self.spec[package].command.path - elif attribute == "libs": - value = self.spec[package].libs.directories[0] - return "--with-{}={}".format(name, value) - else: - return "--with-{}".format(name) - else: - return "--without-{}".format(name) - - def configure_args(self): - # https://trac.osgeo.org/gdal/wiki/BuildHints - args = [ - "--prefix={}".format(self.prefix), - # Required dependencies - "--with-geotiff={}".format(self.spec["libgeotiff"].prefix), - "--with-libjson-c={}".format(self.spec["json-c"].prefix), - "--with-libtiff={}".format(self.spec["libtiff"].prefix), - "--with-libz={}".format(self.spec["zlib"].prefix), - # Optional dependencies - self.with_or_without("armadillo", package="armadillo"), - self.with_or_without("blosc", package="c-blosc"), - self.with_or_without("brunsli"), - self.with_or_without("bsb"), - self.with_or_without("cfitsio", package="cfitsio"), - self.with_or_without("dds", variant="crnlib", package="crunch"), - self.with_or_without("curl", package="curl", attribute="command"), - self.with_or_without("cryptopp", package="cryptopp"), - self.with_or_without("libdeflate", variant="deflate", package="libdeflate"), - self.with_or_without("dods-root", variant="dods", package="dods"), - self.with_or_without("ecw", package="ecw"), - self.with_or_without("epsilon", package="libepsilon"), - self.with_or_without("expat", package="expat"), - self.with_or_without("fgdb", variant="filegdb", package="filegdb"), - self.with_or_without("fme", package="fme"), - self.with_or_without("freexl", package="freexl"), - self.with_or_without("sosi", variant="fyba", package="fyba"), - self.with_or_without("geos", package="geos", attribute="command"), - self.with_or_without("gif", package="giflib"), - self.with_or_without("grass", package="grass"), - self.with_or_without("grib"), - self.with_or_without("libgrass", variant="grass"), - self.with_or_without("gta", package="gta"), - self.with_or_without("heif"), - self.with_or_without("hdf4", package="hdf"), - self.with_or_without("hdf5", package="hdf5"), - self.with_or_without("hdfs", package="hadoop"), - self.with_or_without("libiconv-prefix", variant="iconv", package="iconv"), - self.with_or_without("idb", package="idb"), - self.with_or_without("ingres", package="ingres"), - self.with_or_without("jasper", package="jasper"), - self.with_or_without("jpeg", package="jpeg"), - self.with_or_without("jxl"), - self.with_or_without("kakadu", variant="kdu"), - self.with_or_without("kea", package="kealib", attribute="command"), - self.with_or_without("lerc", package="lerc"), - self.with_or_without("pcraster", variant="libcsf", package="libcsf"), - self.with_or_without("libkml", package="libkml"), - self.with_or_without("liblzma"), - self.with_or_without("jp2lura", variant="luratech", package="luratech"), - self.with_or_without("lz4", package="lz4"), - self.with_or_without("mdb"), - self.with_or_without("mrf"), - self.with_or_without("mrsid", package="mrsid"), - self.with_or_without("mrsid_lidar", package="lizardtech-lidar"), - self.with_or_without("mysql", package="mysql", attribute="command"), - self.with_or_without("netcdf", package="netcdf-c"), - self.with_or_without("odbc", package="unixodbc"), - self.with_or_without("hana", variant="odbccpp", package="odbc-cpp-wrapper"), - self.with_or_without("ogdi", package="ogdi"), - self.with_or_without("opencl"), - self.with_or_without("exr", variant="openexr"), - self.with_or_without("openjpeg"), - self.with_or_without("crypto", variant="openssl", package="openssl"), - self.with_or_without("oci", variant="oracle", package="oracle-instant-client"), - self.with_or_without("pcidsk", package="pcidsk"), - self.with_or_without("pcre"), - self.with_or_without("pdfium", package="pdfium"), - self.with_or_without("png", package="libpng"), - self.with_or_without("podofo", package="podofo"), - self.with_or_without("poppler", package="poppler"), - self.with_or_without("qhull"), - self.with_or_without("rasdaman", package="rasdaman"), - self.with_or_without("rasterlite2", package="rasterlite2"), - self.with_or_without("rdb", package="rdb"), - self.with_or_without("sde", package="sde"), - self.with_or_without("spatialite", package="libspatialite"), - self.with_or_without("sqlite3", package="sqlite"), - self.with_or_without("sfcgal", package="sfcgal", attribute="command"), - self.with_or_without("tiledb", package="tiledb"), - self.with_or_without("webp", package="libwebp"), - self.with_or_without("xerces", variant="xercesc", package="xerces-c"), - self.with_or_without("zstd", package="zstd"), - # Language bindings - self.with_or_without("python", package="python", attribute="command"), - self.with_or_without("java", package="java"), - self.with_or_without("jvm-lib", variant="mdb", package="java", attribute="libs"), - self.with_or_without("jvm-lib-add-rpath", variant="mdb"), - self.with_or_without("perl"), - self.with_or_without("php"), - ] - - # Renamed or modified flags - if self.spec.satisfies("@3:"): - args.extend( - [ - self.with_or_without("xml2", variant="libxml2"), - self.with_or_without("mongocxxv3", variant="mongocxx"), - self.with_or_without("pg", variant="postgresql"), - ] - ) - else: - args.extend( - [ - self.with_or_without( - "xml2", variant="libxml2", package="libxml2", attribute="command" - ), - self.with_or_without("mongocxx", variant="mongocxx"), - self.with_or_without( - "pg", variant="postgresql", package="postgresql", attribute="command" - ), - ] - ) - - if self.spec.satisfies("@2.3:"): - args.append("--with-proj={}".format(self.spec["proj"].prefix)) - - if self.spec.satisfies("@2.2:"): - args.append(self.with_or_without("teigha", package="teigha")) - else: - args.append(self.with_or_without("dwgdirect", variant="teigha", package="teigha")) - - if "+hdf4" in self.spec: - hdf4 = self.spec["hdf"] - if "+external-xdr" in hdf4 and hdf4["rpc"].name != "libc": - args.append("LIBS=" + hdf4["rpc"].libs.link_flags) - - # Remove empty strings - args = [arg for arg in args if arg] - - return args - - def build(self, pkg, spec, prefix): - # https://trac.osgeo.org/gdal/wiki/GdalOgrInJavaBuildInstructionsUnix - make() - if "+java" in spec: - with working_dir("swig/java"): - make() - - def check(self): - # no top-level test target - if "+java" in self.spec: - with working_dir("swig/java"): - make("test") - - def install(self, pkg, spec, prefix): - make("install") - if "+java" in spec: - with working_dir("swig/java"): - make("install") - install("*.jar", prefix) - - # The shared library is not installed correctly on Darwin; fix this - if self.spec.satisfies("platform=darwin"): - fix_darwin_install_name(self.prefix.lib) diff --git a/repos/backports/packages/gdal/uuid.patch b/repos/backports/packages/gdal/uuid.patch deleted file mode 100644 index 3990dad0..00000000 --- a/repos/backports/packages/gdal/uuid.patch +++ /dev/null @@ -1,234 +0,0 @@ -diff -Naur jasper-1.900.1/src/libjasper/jp2/jp2_cod.c jasper-1.900.1.uuid/src/libjasper/jp2/jp2_cod.c ---- jasper-1.900.1/src/libjasper/jp2/jp2_cod.c 2007-01-19 15:43:05.000000000 -0600 -+++ jasper-1.900.1.uuid/src/libjasper/jp2/jp2_cod.c 2007-03-06 07:49:58.000000000 -0600 -@@ -5,6 +5,11 @@ - * All rights reserved. - */ - -+/* -+ * Modified by Andrey Kiselev to properly handle UUID -+ * box. -+ */ -+ - /* __START_OF_JASPER_LICENSE__ - * - * JasPer License Version 2.0 -@@ -127,6 +132,9 @@ - static int jp2_pclr_getdata(jp2_box_t *box, jas_stream_t *in); - static int jp2_pclr_putdata(jp2_box_t *box, jas_stream_t *out); - static void jp2_pclr_dumpdata(jp2_box_t *box, FILE *out); -+static void jp2_uuid_destroy(jp2_box_t *box); -+static int jp2_uuid_getdata(jp2_box_t *box, jas_stream_t *in); -+static int jp2_uuid_putdata(jp2_box_t *box, jas_stream_t *out); - - /******************************************************************************\ - * Local data. -@@ -164,7 +172,7 @@ - {JP2_BOX_XML, "XML", 0, - {0, 0, 0, 0, 0}}, - {JP2_BOX_UUID, "UUID", 0, -- {0, 0, 0, 0, 0}}, -+ {0, jp2_uuid_destroy, jp2_uuid_getdata, jp2_uuid_putdata, 0}}, - {JP2_BOX_UINF, "UINF", JP2_BOX_SUPER, - {0, 0, 0, 0, 0}}, - {JP2_BOX_ULST, "ULST", 0, -@@ -271,7 +279,7 @@ - } else { - box->datalen = box->len - JP2_BOX_HDRLEN(false); - } -- if (box->len != 0 && box->len < 8) { -+ if (box->len != 0 && box->len < JP2_BOX_HDRLEN(false)) { - goto error; - } - -@@ -876,6 +884,56 @@ - } - } - -+static void jp2_uuid_destroy(jp2_box_t *box) -+{ -+ jp2_uuid_t *uuid = &box->data.uuid; -+ if (uuid->data) -+ { -+ jas_free(uuid->data); -+ uuid->data = NULL; -+ } -+} -+ -+static int jp2_uuid_getdata(jp2_box_t *box, jas_stream_t *in) -+{ -+ jp2_uuid_t *uuid = &box->data.uuid; -+ int i; -+ -+ for (i = 0; i < 16; i++) -+ { -+ if (jp2_getuint8(in, &uuid->uuid[i])) -+ return -1; -+ } -+ -+ uuid->datalen = box->datalen - 16; -+ uuid->data = jas_malloc(uuid->datalen * sizeof(uint_fast8_t)); -+ for (i = 0; i < uuid->datalen; i++) -+ { -+ if (jp2_getuint8(in, &uuid->data[i])) -+ return -1; -+ } -+ return 0; -+} -+ -+static int jp2_uuid_putdata(jp2_box_t *box, jas_stream_t *out) -+{ -+ jp2_uuid_t *uuid = &box->data.uuid; -+ int i; -+ -+ for (i = 0; i < 16; i++) -+ { -+ if (jp2_putuint8(out, uuid->uuid[i])) -+ return -1; -+ } -+ -+ for (i = 0; i < uuid->datalen; i++) -+ { -+ if (jp2_putuint8(out, uuid->data[i])) -+ return -1; -+ } -+ return 0; -+} -+ - static int jp2_getint(jas_stream_t *in, int s, int n, int_fast32_t *val) - { - int c; -diff -Naur jasper-1.900.1/src/libjasper/jp2/jp2_cod.h jasper-1.900.1.uuid/src/libjasper/jp2/jp2_cod.h ---- jasper-1.900.1/src/libjasper/jp2/jp2_cod.h 2007-01-19 15:43:05.000000000 -0600 -+++ jasper-1.900.1.uuid/src/libjasper/jp2/jp2_cod.h 2007-03-06 07:49:58.000000000 -0600 -@@ -5,6 +5,11 @@ - * All rights reserved. - */ - -+/* -+ * Modified by Andrey Kiselev to properly handle UUID -+ * box. -+ */ -+ - /* __START_OF_JASPER_LICENSE__ - * - * JasPer License Version 2.0 -@@ -229,6 +234,12 @@ - jp2_cmapent_t *ents; - } jp2_cmap_t; - -+typedef struct { -+ uint_fast32_t datalen; -+ uint_fast8_t uuid[16]; -+ uint_fast8_t *data; -+} jp2_uuid_t; -+ - #define JP2_CMAP_DIRECT 0 - #define JP2_CMAP_PALETTE 1 - -@@ -257,6 +268,7 @@ - jp2_pclr_t pclr; - jp2_cdef_t cdef; - jp2_cmap_t cmap; -+ jp2_uuid_t uuid; - } data; - - } jp2_box_t; -diff -Naur jasper-1.900.1/src/libjasper/jp2/jp2_enc.c jasper-1.900.1.uuid/src/libjasper/jp2/jp2_enc.c ---- jasper-1.900.1/src/libjasper/jp2/jp2_enc.c 2007-01-19 15:43:05.000000000 -0600 -+++ jasper-1.900.1.uuid/src/libjasper/jp2/jp2_enc.c 2007-03-06 07:49:58.000000000 -0600 -@@ -5,6 +5,11 @@ - * All rights reserved. - */ - -+/* -+ * Modified by Andrey Kiselev to properly handle UUID -+ * box. -+ */ -+ - /* __START_OF_JASPER_LICENSE__ - * - * JasPer License Version 2.0 -@@ -86,7 +91,7 @@ - * Functions. - \******************************************************************************/ - --int jp2_encode(jas_image_t *image, jas_stream_t *out, char *optstr) -+int jp2_write_header(jas_image_t *image, jas_stream_t *out) - { - jp2_box_t *box; - jp2_ftyp_t *ftyp; -@@ -97,8 +102,6 @@ - long len; - uint_fast16_t cmptno; - jp2_colr_t *colr; -- char buf[4096]; -- uint_fast32_t overhead; - jp2_cdefchan_t *cdefchanent; - jp2_cdef_t *cdef; - int i; -@@ -326,6 +329,26 @@ - jas_stream_close(tmpstream); - tmpstream = 0; - -+ return 0; -+ abort(); -+ -+error: -+ -+ if (box) { -+ jp2_box_destroy(box); -+ } -+ if (tmpstream) { -+ jas_stream_close(tmpstream); -+ } -+ return -1; -+} -+ -+int jp2_write_codestream(jas_image_t *image, jas_stream_t *out, char *optstr) -+{ -+ jp2_box_t *box; -+ char buf[4096]; -+ uint_fast32_t overhead; -+ - /* - * Output the contiguous code stream box. - */ -@@ -358,12 +381,34 @@ - if (box) { - jp2_box_destroy(box); - } -- if (tmpstream) { -- jas_stream_close(tmpstream); -- } - return -1; - } - -+int jp2_encode(jas_image_t *image, jas_stream_t *out, char *optstr) -+{ -+ if (jp2_write_header(image, out) < 0) -+ return -1; -+ if (jp2_write_codestream(image, out, optstr) < 0) -+ return -1; -+ -+ return 0; -+} -+ -+int jp2_encode_uuid(jas_image_t *image, jas_stream_t *out, -+ char *optstr, jp2_box_t *uuid) -+{ -+ if (jp2_write_header(image, out) < 0) -+ return -1; -+ if (uuid) { -+ if (jp2_box_put(uuid, out)) -+ return -1; -+ } -+ if (jp2_write_codestream(image, out, optstr) < 0) -+ return -1; -+ -+ return 0; -+} -+ - static uint_fast32_t jp2_gettypeasoc(int colorspace, int ctype) - { - int type; diff --git a/repos/backports/packages/graphicsmagick/package.py b/repos/backports/packages/graphicsmagick/package.py deleted file mode 100644 index 7d2c96f3..00000000 --- a/repos/backports/packages/graphicsmagick/package.py +++ /dev/null @@ -1,46 +0,0 @@ -# Copyright 2013-2023 Lawrence Livermore National Security, LLC and other -# Spack Project Developers. See the top-level COPYRIGHT file for details. -# -# SPDX-License-Identifier: (Apache-2.0 OR MIT) - -from spack.package import * - - -class Graphicsmagick(AutotoolsPackage): - """GraphicsMagick is the swiss army knife of image processing. - - Provides a robust and efficient collection of tools and libraries which - support reading, writing, and manipulating an image in over 88 major - formats including important formats like DPX, GIF, JPEG, JPEG-2000, PNG, - PDF, PNM, and TIFF. - """ - - homepage = "http://www.graphicsmagick.org/" - url = "https://sourceforge.net/projects/graphicsmagick/files/graphicsmagick/1.3.29/GraphicsMagick-1.3.29.tar.xz/download" - - version("1.3.34", sha256="df009d5173ed0d6a0c6457234256c5a8aeaace782afa1cbab015d5a12bd4f7a4") - version("1.3.33", sha256="130cb330a633580b5124eba5c125bbcbc484298423a97b9bed37ccd50d6dc778") - version("1.3.32", sha256="b842a5a0d6c84fd6c5f161b5cd8e02bbd210b0c0b6728dd762b7c53062ba94e1") - version("1.3.31", sha256="096bbb59d6f3abd32b562fc3b34ea90d88741dc5dd888731d61d17e100394278") - version("1.3.30", sha256="d965e5c6559f55eec76c20231c095d4ae682ea0cbdd8453249ae8771405659f1") - version("1.3.29", sha256="e18df46a6934c8c12bfe274d09f28b822f291877f9c81bd9a506f879a7610cd4") - - depends_on("bzip2") - depends_on("ghostscript") - depends_on("ghostscript-fonts") - depends_on("graphviz") - depends_on("jasper") - depends_on("jpeg") - depends_on("lcms") - depends_on("libice") - depends_on("libpng") - depends_on("libsm") - depends_on("libtiff") - depends_on("libtool") - depends_on("libxml2") - depends_on("xz") - depends_on("zlib-api") - - def configure_args(self): - args = ["--enable-shared"] - return args diff --git a/repos/backports/packages/hisat2/package.py b/repos/backports/packages/hisat2/package.py deleted file mode 100644 index 53e7deb9..00000000 --- a/repos/backports/packages/hisat2/package.py +++ /dev/null @@ -1,105 +0,0 @@ -# Copyright 2013-2023 Lawrence Livermore National Security, LLC and other -# Spack Project Developers. See the top-level COPYRIGHT file for details. -# -# SPDX-License-Identifier: (Apache-2.0 OR MIT) - -import glob - -from spack.package import * - - -class Hisat2(MakefilePackage): - """HISAT2 is a fast and sensitive alignment program for mapping - next-generation sequencing reads (whole-genome, transcriptome, and - exome sequencing data) against the general human population (as well as - against a single reference genome).""" - - homepage = "https://daehwankimlab.github.io/hisat2/" - url = "ftp://ftp.ccb.jhu.edu/pub/infphilo/hisat2/downloads/hisat2-2.1.0-source.zip" - - version( - "2.2.1", - sha256="48e933330d4d8470d2b3dfe7ec3918f2e98a75f7381891e23b7df1fb4f135eb1", - url="https://cloud.biohpc.swmed.edu/index.php/s/fE9QCsX3NH4QwBi/download", - extension="zip", - ) - version( - "2.2.0", - sha256="0dd55168853b82c1b085f79ed793dd029db163773f52272d7eb51b3b5e4a4cdd", - url="https://cloud.biohpc.swmed.edu/index.php/s/hisat2-220-source/download", - extension="zip", - ) - version("2.1.0", sha256="89a276eed1fc07414b1601947bc9466bdeb50e8f148ad42074186fe39a1ee781") - - variant("sra", default=False, description="Add SRA (Sequence Read Archive) support") - - depends_on("perl", type="run") - depends_on("python", type="run") - - depends_on("sra-tools", when="+sra") - depends_on("ncbi-vdb", when="+sra") - - # patch to get SRA working - patch("sra.patch", when="+sra") - - @when("+sra") - def build(self, spec, prefix): - make( - "USE_SRA=1", - "NCBI_NGS_DIR={0}".format(spec["sra-tools"].prefix), - "NCBI_VDB_DIR={0}".format(spec["ncbi-vdb"].prefix), - ) - - def install(self, spec, prefix): - if spec.satisfies("@:2.1.0"): - install_tree("doc", prefix.doc) - - install_tree("example", prefix.example) - install_tree("scripts", prefix.scripts) - - if "@:2.2.0" in spec: - install_tree("hisatgenotype_modules", prefix.hisatgenotype_modules) - install_tree("hisatgenotype_scripts", prefix.hisatgenotype_scripts) - - mkdirp(prefix.bin) - install("hisat2", prefix.bin) - install("hisat2-align-s", prefix.bin) - install("hisat2-align-l", prefix.bin) - install("hisat2-build", prefix.bin) - install("hisat2-build-s", prefix.bin) - install("hisat2-build-l", prefix.bin) - install("hisat2-inspect", prefix.bin) - install("hisat2-inspect-s", prefix.bin) - install("hisat2-inspect-l", prefix.bin) - install("*.py", prefix.bin) - - if "@2.2:" in spec: - install("hisat2-repeat", prefix.bin) - - @run_after("install") - def filter_sbang(self): - with working_dir(self.prefix.bin): - pattern = "^#!.*/usr/bin/env python" - repl = "#!{0}".format(self.spec["python"].command.path) - files = ["hisat2-build", "hisat2-inspect"] - for file in files: - filter_file(pattern, repl, *files, backup=False) - - pattern = "^#!.*/usr/bin/env perl" - repl = "#!{0}".format(self.spec["perl"].command.path) - files = ["hisat2"] - for file in files: - filter_file(pattern, repl, *files, backup=False) - - pattern = "^#!.*/usr/bin/env python3" - repl = "#!{0}".format(self.spec["python"].command.path) - files = glob.glob("*.py") - for file in files: - filter_file(pattern, repl, *files, backup=False) - - with working_dir(self.prefix.scripts): - pattern = "^#!.*/usr/bin/perl" - repl = "#!{0}".format(self.spec["perl"].command.path) - files = glob.glob("*.pl") - for file in files: - filter_file(pattern, repl, *files, backup=False) diff --git a/repos/backports/packages/hisat2/sra.patch b/repos/backports/packages/hisat2/sra.patch deleted file mode 100644 index b7cbec03..00000000 --- a/repos/backports/packages/hisat2/sra.patch +++ /dev/null @@ -1,11 +0,0 @@ ---- a/Makefile 2020-07-24 10:46:16.000000000 -0500 -+++ b/Makefile 2023-01-12 20:28:08.919588735 -0600 -@@ -94,7 +94,7 @@ - SERACH_INC = - ifeq (1,$(USE_SRA)) - SRA_DEF = -DUSE_SRA -- SRA_LIB = -lncbi-ngs-c++-static -lngs-c++-static -lncbi-vdb-static -ldl -+ SRA_LIB = -lncbi-ngs-c++-static -lngs-c++-static -lncbi-ngs-static -lncbi-vdb-static -ldl - SEARCH_INC += -I$(NCBI_NGS_DIR)/include -I$(NCBI_VDB_DIR)/include - SEARCH_LIBS += -L$(NCBI_NGS_DIR)/lib64 -L$(NCBI_VDB_DIR)/lib64 - endif diff --git a/repos/backports/packages/jasper/fix_alpha_channel_assert_fail.patch b/repos/backports/packages/jasper/fix_alpha_channel_assert_fail.patch deleted file mode 100644 index cbf79ff9..00000000 --- a/repos/backports/packages/jasper/fix_alpha_channel_assert_fail.patch +++ /dev/null @@ -1,25 +0,0 @@ -diff --git a/src/libjasper/jpc/jpc_dec.c b/src/libjasper/jpc/jpc_dec.c -index fa72a0e..1f4845f 100644 ---- a/src/libjasper/jpc/jpc_dec.c -+++ b/src/libjasper/jpc/jpc_dec.c -@@ -1069,12 +1069,18 @@ static int jpc_dec_tiledecode(jpc_dec_t *dec, jpc_dec_tile_t *tile) - /* Apply an inverse intercomponent transform if necessary. */ - switch (tile->cp->mctid) { - case JPC_MCT_RCT: -- assert(dec->numcomps == 3); -+ if (dec->numcomps != 3 && dec->numcomps != 4) { -+ jas_eprintf("bad number of components (%d)\n", dec->numcomps); -+ return -1; -+ } - jpc_irct(tile->tcomps[0].data, tile->tcomps[1].data, - tile->tcomps[2].data); - break; - case JPC_MCT_ICT: -- assert(dec->numcomps == 3); -+ if (dec->numcomps != 3 && dec->numcomps != 4) { -+ jas_eprintf("bad number of components (%d)\n", dec->numcomps); -+ return -1; -+ } - jpc_iict(tile->tcomps[0].data, tile->tcomps[1].data, - tile->tcomps[2].data); - break; diff --git a/repos/backports/packages/jasper/package.py b/repos/backports/packages/jasper/package.py deleted file mode 100644 index 69a1c0b2..00000000 --- a/repos/backports/packages/jasper/package.py +++ /dev/null @@ -1,110 +0,0 @@ -# Copyright 2013-2023 Lawrence Livermore National Security, LLC and other -# Spack Project Developers. See the top-level COPYRIGHT file for details. -# -# SPDX-License-Identifier: (Apache-2.0 OR MIT) - -from spack.package import * - - -class Jasper(Package): - """Library for manipulating JPEG-2000 images""" - - homepage = "https://www.ece.uvic.ca/~frodo/jasper/" - url = "https://github.com/jasper-software/jasper/archive/version-2.0.32.tar.gz" - - version("3.0.3", sha256="1b324f7746681f6d24d06fcf163cf3b8ae7ac320adc776c3d611b2b62c31b65f") - version("2.0.32", sha256="a3583a06698a6d6106f2fc413aa42d65d86bedf9a988d60e5cfa38bf72bc64b9") - version("2.0.31", sha256="d419baa2f8a6ffda18472487f6314f0f08b673204723bf11c3a1f5b3f1b8e768") - version("2.0.16", sha256="f1d8b90f231184d99968f361884e2054a1714fdbbd9944ba1ae4ebdcc9bbfdb1") - version("2.0.14", sha256="85266eea728f8b14365db9eaf1edc7be4c348704e562bb05095b9a077cf1a97b") - version("1.900.1", sha256="c2b03f28166f9dc8ae434918839ae9aa9962b880fcfd24eebddd0a2daeb9192c") - - variant("jpeg", default=True, description="Enable the use of the JPEG library") - variant("opengl", default=False, description="Enable the use of the OpenGL and GLUT libraries") - variant("shared", default=True, description="Enable the building of shared libraries") - variant( - "build_type", - default="Release", - description="CMake build type", - values=("Debug", "Release"), - ) - - depends_on("cmake@2.8.11:", type="build", when="@2:") - depends_on("cmake@3.12:", type="build", when="@3:") - depends_on("jpeg", when="+jpeg") - depends_on("gl", when="+opengl") - - # invalid compilers flags - conflicts("@2.0.0:2", when="%nvhpc") - - # Fixes a bug where an assertion fails when certain JPEG-2000 - # files with an alpha channel are processed. - # See: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=469786 - patch("fix_alpha_channel_assert_fail.patch", when="@1.900.1") - - def cmake_args(self): - spec = self.spec - args = std_cmake_args - args.append("-DJAS_ENABLE_DOC=false") - - if "+jpeg" in spec: - args.append("-DJAS_ENABLE_LIBJPEG=true") - else: - args.append("-DJAS_ENABLE_LIBJPEG=false") - - if "+opengl" in spec: - args.append("-DJAS_ENABLE_OPENGL=true") - else: - args.append("-DJAS_ENABLE_OPENGL=false") - - if "+shared" in spec: - args.append("-DJAS_ENABLE_SHARED=true") - else: - args.append("-DJAS_ENABLE_SHARED=false") - - return args - - def configure_args(self): - spec = self.spec - args = ["--prefix={0}".format(self.prefix)] - - if "+jpeg" in spec: - args.append("--enable-libjpeg") - else: - args.append("--disable-libjpeg") - - if "+opengl" in spec: - args.append("--enable-opengl") - else: - args.append("--disable-opengl") - - if "+shared" in spec: - args.append("--enable-shared") - else: - args.append("--disable-shared") - - if "build_type=Debug" in spec: - args.append("--enable-debug") - else: - args.append("--disable-debug") - - return args - - @when("@2:") - def install(self, spec, prefix): - with working_dir("spack-build", create=True): - cmake("..", *self.cmake_args()) - make() - if self.run_tests: - make("test") - make("install") - - @when("@:1") - def install(self, spec, prefix): - configure(*self.configure_args()) - make() - if self.run_tests: - make("check") - make("install") - if self.run_tests: - make("installcheck") diff --git a/repos/backports/packages/jellyfish/dna_codes.patch b/repos/backports/packages/jellyfish/dna_codes.patch deleted file mode 100644 index 59bcce3e..00000000 --- a/repos/backports/packages/jellyfish/dna_codes.patch +++ /dev/null @@ -1,22 +0,0 @@ ---- spack-src/jellyfish/dna_codes.hpp.bak 2013-05-30 04:45:57.000000000 +0900 -+++ spack-src/jellyfish/dna_codes.hpp 2020-09-28 10:37:14.580832234 +0900 -@@ -14,7 +14,7 @@ - static const uint_t CODE_IGNORE = (uint_t)-2; - static const uint_t CODE_COMMENT = (uint_t)-3; - static const uint_t CODE_NOT_DNA = ((uint_t)1) << (bsizeof(uint_t) - 1); --extern const char dna_codes[256]; -+extern const signed char dna_codes[256]; - }; - - #endif /* __DNA_CODE_HPP__ */ ---- spack-src/jellyfish/dna_codes.cc.bak 2013-05-30 04:45:57.000000000 +0900 -+++ spack-src/jellyfish/dna_codes.cc 2020-09-28 10:29:08.810848835 +0900 -@@ -7,7 +7,7 @@ - #define C 1 - #define G 2 - #define T 3 --const char jellyfish::dna_codes[256] = { -+const signed char jellyfish::dna_codes[256] = { - O, O, O, O, O, O, O, O, O, O, I, O, O, O, O, O, - O, O, O, O, O, O, O, O, O, O, O, O, O, O, O, O, - O, O, O, O, O, O, O, O, O, O, O, O, O, R, O, O, diff --git a/repos/backports/packages/jellyfish/package.py b/repos/backports/packages/jellyfish/package.py deleted file mode 100644 index 47f78b7d..00000000 --- a/repos/backports/packages/jellyfish/package.py +++ /dev/null @@ -1,42 +0,0 @@ -# Copyright 2013-2023 Lawrence Livermore National Security, LLC and other -# Spack Project Developers. See the top-level COPYRIGHT file for details. -# -# SPDX-License-Identifier: (Apache-2.0 OR MIT) - -from spack.package import * - - -class Jellyfish(AutotoolsPackage): - """JELLYFISH is a tool for fast, memory-efficient counting of k-mers in DNA.""" - - homepage = "https://www.cbcb.umd.edu/software/jellyfish/" - url = "https://github.com/gmarcais/Jellyfish/releases/download/v2.3.0/jellyfish-2.3.0.tar.gz" - list_url = "https://github.com/gmarcais/Jellyfish/releases" - - version("2.3.0", sha256="e195b7cf7ba42a90e5e112c0ed27894cd7ac864476dc5fb45ab169f5b930ea5a") - version( - "2.2.7", - sha256="d80420b4924aa0119353a5b704f923863abc802e94efeb531593147c13e631a8", - preferred=True, - ) - version( - "1.1.11", - sha256="496645d96b08ba35db1f856d857a159798c73cbc1eccb852ef1b253d1678c8e2", - url="https://www.cbcb.umd.edu/software/jellyfish/jellyfish-1.1.11.tar.gz", - ) - - depends_on("perl", when="@2.2.7:", type=("build", "run")) - variant("ruby", default=False, description="Enable ruby bindings") - # Info: python bindings exist, but are for python2 which is no longer supported in spack - - extends("ruby@:2.6", when="+ruby") - - patch("dna_codes.patch", when="@1.1.11") - - # v1.1.11 does not support language bindings - conflicts("+ruby", when="@1.1.11") - - def configure_args(self): - if "+ruby" in self.spec: - return ["--enable-ruby-binding"] - return [] diff --git a/repos/backports/packages/julia/package.py b/repos/backports/packages/julia/package.py deleted file mode 100644 index 6daa1a0f..00000000 --- a/repos/backports/packages/julia/package.py +++ /dev/null @@ -1,299 +0,0 @@ -# Copyright 2013-2023 Lawrence Livermore National Security, LLC and other -# Spack Project Developers. See the top-level COPYRIGHT file for details. -# -# SPDX-License-Identifier: (Apache-2.0 OR MIT) - -import os - -from spack.package import * -from spack.version import ver - - -def get_best_target(microarch, compiler_name, compiler_version): - for compiler_entry in microarch.compilers[compiler_name]: - if compiler_version.satisfies(ver(compiler_entry["versions"])): - return compiler_entry.get("name", microarch.name) - raise InstallError("Could not find a target architecture") - - -class Julia(MakefilePackage): - """The Julia Language: A fresh approach to technical computing""" - - homepage = "https://julialang.org" - url = "https://github.com/JuliaLang/julia/releases/download/v1.7.0/julia-1.7.0.tar.gz" - git = "https://github.com/JuliaLang/julia.git" - - maintainers = ("glennpj", "vchuravy", "haampie", "giordano") - - version("master", branch="master") - version("1.8.5", sha256="d31026cc6b275d14abce26fd9fd5b4552ac9d2ce8bde4291e494468af5743031") - version("1.8.4", sha256="b7b8ee64fb947db8d61104f231e1b25342fe330d29e0d2273f93c264f32c5333") - version("1.8.3", sha256="4d8d460fcae5c6f8306a3e3c14371635c1a26f47c3ce62b2950cf9234b6ec849") - version("1.8.2", sha256="3e2cea35bf5df963ed7b75a83e8febfc000acf1e664ecd657a0772508eb1fb5d") - version("1.8.1", sha256="066f4ca7a2ad39b003e2af77dbecfbfb9b0a1cb1664033f657ffdbe2f374d956") - version("1.8.0", sha256="0fa980286d6d912f24ed9f90a02930560d985e0ada8233a4ae5610884feb2438") - - version("1.7.3", sha256="06df2a81e6a18d0333ffa58d36f6eb84934c38984898f9e0c3072c8facaa7306") - version("1.7.2", sha256="0847943dd65001f3322b00c7dc4e12f56e70e98c6b798ccbd4f02d27ce161fef") - version("1.7.1", sha256="17d298e50e4e3dd897246ccebd9f40ce5b89077fa36217860efaec4576aa718e") - version("1.7.0", sha256="8e870dbef71bc72469933317a1a18214fd1b4b12f1080784af7b2c56177efcb4") - - version("1.6.7", sha256="74af1dc7b5841757a06a899923a62cac04665c09829324e8bf53cfb66f7b3d61") - version("1.6.6", sha256="a8023708cadb2649395769810e6cec8afc8e352aa6d407189b6c88b86d7f5090") - version("1.6.5", sha256="b70ae299ff6b63a9e9cbf697147a48a31b4639476d1947cb52e4201e444f23cb") - version("1.6.4", sha256="a4aa921030250f58015201e28204bff604a007defc5a379a608723e6bb1808d4") - - variant("precompile", default=True, description="Improve julia startup time") - variant("openlibm", default=True, description="Use openlibm instead of libm") - - # Note, we just use link_llvm_dylib so that we not only get a libLLVM, - # but also so that llvm-config --libfiles gives only the dylib. Without - # it it also gives static libraries, and breaks Julia's build. - depends_on("llvm targets=amdgpu,bpf,nvptx,webassembly version_suffix=jl +link_llvm_dylib") - depends_on("libuv", when="@:1.7") - depends_on("libuv-julia@1.42.0", when="@1.8.0:1.8.1") - depends_on("libuv-julia@1.44.2", when="@1.8.2:") - - # Do not use internal unwind. We need to use a conflict, because - # `internal_unwind` is defined only when `+clang`. - conflicts("^llvm+internal_unwind") - - with when("@1.8.0:1.8"): - # libssh2.so.1, libpcre2-8.so.0, mbedtls.so.14, mbedcrypto.so.7, mbedx509.so.1 - # openlibm.so.4, libblastrampoline.so.5, libgit2.so.1.3, libnghttp2.so.14, - # libcurl.so.4 - depends_on("libblastrampoline@5.1.0:5") - depends_on("libgit2@1.3.0:1.3") - depends_on("libssh2@1.10.0:1.10") - depends_on("llvm@13.0.1 shlib_symbol_version=JL_LLVM_13.0") - depends_on("mbedtls@2.28.0:2.28") - depends_on("openlibm@0.8.1:0.8", when="+openlibm") - depends_on("nghttp2@1.47.0:1.47") - depends_on("curl@7.84.0:") - - with when("@1.7.0:1.7"): - # libssh2.so.1, libpcre2-8.so.0, mbedtls.so.13, mbedcrypto.so.5, mbedx509.so.1 - # openlibm.so.3 - depends_on("libblastrampoline@3.0.0:3") - depends_on("libgit2@1.1.0:1.1") - depends_on("libssh2@1.9.0:1.9") - depends_on("libuv@1.42.0") - depends_on("llvm@12.0.1") - depends_on("mbedtls@2.24.0:2.24") - depends_on("openlibm@0.7.0:0.7", when="+openlibm") - depends_on("curl@7.73.0:") - - with when("@1.6.0:1.6"): - # libssh2.so.1, libpcre2-8.so.0, mbedtls.so.13, mbedcrypto.so.5, mbedx509.so.1 - # openlibm.so.3, (todo: complete this list for upperbounds...) - depends_on("libgit2@1.1.0:1.1") - depends_on("libssh2@1.9.0:1.9") - depends_on("libuv@1.39.0") - depends_on("llvm@11.0.1") - depends_on("mbedtls@2.24.0:2.24") - depends_on("openlibm@0.7.0:0.7", when="+openlibm") - depends_on("curl@7.73.0:") - - # Patches for llvm - depends_on("llvm", patches="llvm7-symver-jlprefix.patch", when="@:1.7") - depends_on( - "llvm", - when="^llvm@11.0.1", - patches=patch( - "https://raw.githubusercontent.com/spack/patches/0b543955683a903d711a3e95ff29a4ce3951ca13/julia/llvm-11.0.1-julia-1.6.patch", - sha256="8866ee0595272b826b72d173301a2e625855e80680a84af837f1ed6db4657f42", - ), - ) - depends_on( - "llvm", - when="^llvm@12.0.1", - patches=patch( - "https://github.com/JuliaLang/llvm-project/compare/fed41342a82f5a3a9201819a82bf7a48313e296b...980d2f60a8524c5546397db9e8bbb7d6ea56c1b7.patch", - sha256="10cb42f80c2eaad3e9c87cb818b6676f1be26737bdf972c77392d71707386aa4", - ), - ) - depends_on( - "llvm", - when="^llvm@13.0.1", - patches=patch( - "https://github.com/JuliaLang/llvm-project/compare/75e33f71c2dae584b13a7d1186ae0a038ba98838...2f4460bd46aa80d4fe0d80c3dabcb10379e8d61b.patch", - sha256="45f72c59ae5cf45461e9cd8b224ca49b739d885c79b3786026433c6c22f83b5f", - ), - ) - - # Patches for libuv - depends_on( - "libuv", - when="^libuv@1.39.0", - patches=patch( - "https://raw.githubusercontent.com/spack/patches/b59ca193423c4c388254f528afabb906b5373162/julia/libuv-1.39.0.patch", - sha256="f7c1e7341e89dc35dfd85435ba35833beaef575b997c3f978c27d0dbf805149b", - ), - ) - depends_on( - "libuv", - when="^libuv@1.42.0", - patches=patch( - "https://raw.githubusercontent.com/spack/patches/89b6d14eb1f3c3d458a06f1e06f7dda3ab67bd38/julia/libuv-1.42.0.patch", - sha256="d9252fbe67ac8f15e15653f0f6b00dffa07ae1a42f013d4329d17d8b492b7cdb", - ), - ) - - # patchelf 0.13 is required because the rpath patch uses --add-rpath - depends_on("patchelf@0.13:", type="build") - depends_on("perl", type="build") - depends_on("libwhich", type="build") - - depends_on("blas") # note: for now openblas is fixed... - depends_on("curl tls=mbedtls +nghttp2 +libssh2") - depends_on("dsfmt@2.2.4:") # apparently 2.2.3->2.2.4 breaks API - depends_on("gmp") - depends_on("lapack") # note: for now openblas is fixed... - depends_on("libblastrampoline", when="@1.7.0:") - depends_on("libgit2") - depends_on("libssh2 crypto=mbedtls") - depends_on("mbedtls libs=shared") - depends_on("mpfr") - depends_on("nghttp2") - depends_on("openblas +ilp64 symbol_suffix=64_") - depends_on("openlibm", when="+openlibm") - depends_on("p7zip") - depends_on("pcre2") - depends_on("suite-sparse +pic") - depends_on("unwind") - depends_on("utf8proc") - depends_on("zlib +shared +pic +optimize") - - # Patches for julia - patch("julia-1.6-system-libwhich-and-p7zip-symlink.patch", when="@1.6.0:1.6") - patch("use-add-rpath.patch", when="@:1.8.0") - patch("use-add-rpath-2.patch", when="@1.8.1:") - - # Fix gfortran abi detection https://github.com/JuliaLang/julia/pull/44026 - patch("fix-gfortran.patch", when="@1.7.0:1.7.2") - - # Don't make julia run patchelf --set-rpath on llvm (presumably this should've - # only applied to libllvm when it's vendored by julia). - patch("revert-fix-rpath-of-libllvm.patch", when="@1.7.0:1.7.2") - - # Allow build with clang. - patch("gcc-ifdef.patch", when="@1.7.0:1.7") - - # Make sure Julia sets -DNDEBUG when including LLVM header files. - patch("llvm-NDEBUG.patch", when="@1.7.0:1.7") - - def patch(self): - # The system-libwhich-libblastrampoline.patch causes a rebuild of docs as it - # touches the main Makefile, so we reset the a/m-time to doc/_build's. - f = os.path.join("doc", "_build", "html", "en", "index.html") - if os.path.exists(f): - time = (os.path.getatime(f), os.path.getmtime(f)) - os.utime(os.path.join("base", "Makefile"), time) - - def setup_build_environment(self, env): - # this is a bit ridiculous, but we are setting runtime linker paths to - # dependencies so that libwhich can locate them. - if self.spec.satisfies("platform=linux") or self.spec.satisfies("platform=cray"): - linker_var = "LD_LIBRARY_PATH" - elif self.spec.satisfies("platform=darwin"): - linker_var = "DYLD_FALLBACK_LIBRARY_PATH" - else: - return - pkgs = [ - "curl", - "dsfmt", - "gmp", - "libgit2", - "libssh2", - "libunwind", - "mbedtls", - "mpfr", - "nghttp2", - "openblas", - "pcre2", - "suite-sparse", - "utf8proc", - "zlib", - ] - if "+openlibm" in self.spec: - pkgs.append("openlibm") - if self.spec.satisfies("@1.7.0:"): - pkgs.append("libblastrampoline") - for pkg in pkgs: - for dir in self.spec[pkg].libs.directories: - env.prepend_path(linker_var, dir) - - def edit(self, spec, prefix): - # TODO: use a search query for blas / lapack? - libblas = os.path.splitext(spec["blas"].libs.basenames[0])[0] - liblapack = os.path.splitext(spec["lapack"].libs.basenames[0])[0] - - # Host compiler target name - march = get_best_target(spec.target, spec.compiler.name, spec.compiler.version) - - # LLVM compatible name for the JIT - julia_cpu_target = get_best_target(spec.target, "clang", spec["llvm"].version) - - libuv = "libuv-julia" if "^libuv-julia" in spec else "libuv" - - options = [ - "prefix:={0}".format(prefix), - "MARCH:={0}".format(march), - "JULIA_CPU_TARGET:={0}".format(julia_cpu_target), - "USE_BINARYBUILDER:=0", - "VERBOSE:=1", - # Spack managed dependencies - "USE_SYSTEM_BLAS:=1", - "USE_SYSTEM_CSL:=1", - "USE_SYSTEM_CURL:=1", - "USE_SYSTEM_DSFMT:=1", - "USE_SYSTEM_GMP:=1", - "USE_SYSTEM_LAPACK:=1", - "USE_SYSTEM_LIBBLASTRAMPOLINE:=1", - "USE_SYSTEM_LIBGIT2:=1", - "USE_SYSTEM_LIBSSH2:=1", - "USE_SYSTEM_LIBSUITESPARSE:=1", # @1.7: - "USE_SYSTEM_SUITESPARSE:=1", # @:1.6 - "USE_SYSTEM_LIBUNWIND:=1", - "USE_SYSTEM_LIBUV:=1", - "USE_SYSTEM_LIBWHICH:=1", - "USE_SYSTEM_LLVM:=1", - "USE_SYSTEM_MBEDTLS:=1", - "USE_SYSTEM_MPFR:=1", - "USE_SYSTEM_P7ZIP:=1", - "USE_SYSTEM_PATCHELF:=1", - "USE_SYSTEM_PCRE:=1", - "USE_SYSTEM_UTF8PROC:=1", - "USE_SYSTEM_ZLIB:=1", - # todo: ilp depends on arch - "USE_BLAS64:=1", - "LIBBLASNAME:={0}".format(libblas), - "LIBLAPACKNAME:={0}".format(liblapack), - "override LIBUV:={0}".format(spec[libuv].libs.libraries[0]), - "override LIBUV_INC:={0}".format(spec[libuv].headers.directories[0]), - "override USE_LLVM_SHLIB:=1", - # make rebuilds a bit faster for now, not sure if this should be kept - "JULIA_PRECOMPILE:={0}".format("1" if spec.variants["precompile"].value else "0"), - ] - - options.append("USEGCC:={}".format("1" if "%gcc" in spec else "0")) - options.append("USECLANG:={}".format("1" if "%clang" in spec else "0")) - - options.extend( - [ - "override CC:={0}".format(spack_cc), - "override CXX:={0}".format(spack_cxx), - "override FC:={0}".format(spack_fc), - ] - ) - - # libm or openlibm? - if spec.variants["openlibm"].value: - options.append("USE_SYSTEM_LIBM=0") - options.append("USE_SYSTEM_OPENLIBM=1") - else: - options.append("USE_SYSTEM_LIBM=1") - options.append("USE_SYSTEM_OPENLIBM=0") - - with open("Make.user", "w") as f: - f.write("\n".join(options) + "\n") diff --git a/repos/backports/packages/libicd/package.py b/repos/backports/packages/libicd/package.py deleted file mode 100644 index a5468064..00000000 --- a/repos/backports/packages/libicd/package.py +++ /dev/null @@ -1,20 +0,0 @@ -# Copyright 2013-2023 Lawrence Livermore National Security, LLC and other -# Spack Project Developers. See the top-level COPYRIGHT file for details. -# -# SPDX-License-Identifier: (Apache-2.0 OR MIT) - -from spack.package import * - - -class Libicd(CMakePackage): - """Image codec library.""" - - homepage = "https://github.com/lucianpls/libicd" - git = "https://github.com/lucianpls/libicd.git" - - version("main", branch="main") - - depends_on("cmake@3.5:", type="build") - depends_on("jpeg") - depends_on("libpng") - depends_on("lerc") diff --git a/repos/backports/packages/libuv b/repos/backports/packages/libuv deleted file mode 120000 index 495ad62d..00000000 --- a/repos/backports/packages/libuv +++ /dev/null @@ -1 +0,0 @@ -/share/apps/22.04/spack/spack-v0.19.1/var/spack/repos/builtin/packages/libuv \ No newline at end of file diff --git a/repos/backports/packages/llvm/D133513.diff b/repos/backports/packages/llvm/D133513.diff deleted file mode 100644 index 54849b8e..00000000 --- a/repos/backports/packages/llvm/D133513.diff +++ /dev/null @@ -1,29 +0,0 @@ -Index: lldb/bindings/python/get-python-config.py -=================================================================== ---- lldb/bindings/python/get-python-config.py -+++ lldb/bindings/python/get-python-config.py -@@ -44,15 +44,21 @@ - elif args.variable_name == "LLDB_PYTHON_EXE_RELATIVE_PATH": - tried = list() - exe = sys.executable -- prefix = os.path.realpath(sys.prefix) -+ prefix = sys.prefix - while True: - try: - print(relpath_nodots(exe, prefix)) - break - except ValueError: - tried.append(exe) -- if os.path.islink(exe): -- exe = os.path.join(os.path.realpath(os.path.dirname(exe)), os.readlink(exe)) -+ real_exe_dirname = os.path.realpath(os.path.dirname(exe)) -+ real_prefix = os.path.realpath(prefix) -+ if prefix != real_prefix: -+ prefix = real_prefix -+ exe = os.path.join(real_exe_dirname, os.path.basename(exe)) -+ continue -+ elif os.path.islink(exe): -+ exe = os.path.join(real_exe_dirname, os.readlink(exe)) - continue - else: - print("Could not find a relative path to sys.executable under sys.prefix", file=sys.stderr) diff --git a/repos/backports/packages/llvm/constexpr_longdouble.patch b/repos/backports/packages/llvm/constexpr_longdouble.patch deleted file mode 100644 index 8b90001d..00000000 --- a/repos/backports/packages/llvm/constexpr_longdouble.patch +++ /dev/null @@ -1,28 +0,0 @@ -From 3bf63cf3b366d3a57cf5cbad4112a6abf6c0c3b1 Mon Sep 17 00:00:00 2001 -From: Marshall Clow -Date: Tue, 2 Apr 2019 14:46:36 +0000 -Subject: [PATCH] Special case some duration arithmetic for GCC and PPC because - their long double constant folding is broken. Fixes PR#39696. - -llvm-svn: 357478 ---- - libcxx/include/thread | 5 +++++ - 1 file changed, 5 insertions(+) - -diff --git a/libcxx/include/thread b/libcxx/include/thread -index df06ff70f8e37f22f4108be8e5e79a38052a11dd..400459ae7f32c4d7cd24b2d85c49d789500e432d 100644 ---- a/libcxx/include/thread -+++ b/libcxx/include/thread -@@ -434,7 +434,12 @@ sleep_for(const chrono::duration<_Rep, _Period>& __d) - using namespace chrono; - if (__d > duration<_Rep, _Period>::zero()) - { -+#if defined(_LIBCPP_COMPILER_GCC) && (__powerpc__ || __POWERPC__) -+ // GCC's long double const folding is incomplete for IBM128 long doubles. -+ _LIBCPP_CONSTEXPR duration _Max = duration(ULLONG_MAX/1000000000ULL) ; -+#else - _LIBCPP_CONSTEXPR duration _Max = nanoseconds::max(); -+#endif - nanoseconds __ns; - if (__d < _Max) - { diff --git a/repos/backports/packages/llvm/constexpr_longdouble_9.0.patch b/repos/backports/packages/llvm/constexpr_longdouble_9.0.patch deleted file mode 100644 index 9a62f270..00000000 --- a/repos/backports/packages/llvm/constexpr_longdouble_9.0.patch +++ /dev/null @@ -1,38 +0,0 @@ -From d9a42ec98adcb1ebc0c3837715df4e5a50c7ccc0 Mon Sep 17 00:00:00 2001 -From: "Joel E. Denny" -Date: Wed, 10 Jun 2020 12:40:43 -0400 -Subject: [PATCH] [libc++] Work around gcc/Power9 bug in `include/thread` - -This fixes PR39696, which breaks the libcxx build with gcc (I tested -7.5.0) on Power9. This fix was suggested at - -https://bugs.llvm.org/show_bug.cgi?id=39696#c38 - -but never applied. It just reverts 0583d9ea8d5e, which reverses -components of the original fix in 3bf63cf3b366, which is correct. - -Fixes https://llvm.org/PR39696 - -Reviewed By: ldionne - -Differential Revision: https://reviews.llvm.org/D81438 ---- - libcxx/include/thread | 4 ++-- - 1 file changed, 2 insertions(+), 2 deletions(-) - -diff --git a/libcxx/include/thread b/libcxx/include/thread -index 22aa4f201295867cff57b7a944e6b7bd67b22ad3..6eff1800acdbef09eae4417eee977fa350c596ea 100644 ---- a/libcxx/include/thread -+++ b/libcxx/include/thread -@@ -365,9 +365,9 @@ sleep_for(const chrono::duration<_Rep, _Period>& __d) - { - #if defined(_LIBCPP_COMPILER_GCC) && (__powerpc__ || __POWERPC__) - // GCC's long double const folding is incomplete for IBM128 long doubles. -- _LIBCPP_CONSTEXPR duration _Max = nanoseconds::max(); --#else - _LIBCPP_CONSTEXPR duration _Max = duration(ULLONG_MAX/1000000000ULL) ; -+#else -+ _LIBCPP_CONSTEXPR duration _Max = nanoseconds::max(); - #endif - nanoseconds __ns; - if (__d < _Max) diff --git a/repos/backports/packages/llvm/libomp-libflags-as-list.patch b/repos/backports/packages/llvm/libomp-libflags-as-list.patch deleted file mode 100644 index 995f55a4..00000000 --- a/repos/backports/packages/llvm/libomp-libflags-as-list.patch +++ /dev/null @@ -1,14 +0,0 @@ -diff --git a/openmp/runtime/cmake/LibompHandleFlags.cmake b/openmp/runtime/cmake/LibompHandleFlags.cmake -index 9e19e59ba17d..f92fa12d851a 100644 ---- a/openmp/runtime/cmake/LibompHandleFlags.cmake -+++ b/openmp/runtime/cmake/LibompHandleFlags.cmake -@@ -144,7 +144,8 @@ function(libomp_get_libflags libflags) - endif() - set(libflags_local ${libflags_local} ${LIBOMP_LIBFLAGS}) - libomp_setup_flags(libflags_local) -- set(${libflags} ${libflags_local} PARENT_SCOPE) -+ libomp_string_to_list("${libflags_local}" libflags_local_list) -+ set(${libflags} ${libflags_local_list} PARENT_SCOPE) - endfunction() - - # Fortran flags diff --git a/repos/backports/packages/llvm/lldb_external_ncurses-10.patch b/repos/backports/packages/llvm/lldb_external_ncurses-10.patch deleted file mode 100644 index 34ed0e3c..00000000 --- a/repos/backports/packages/llvm/lldb_external_ncurses-10.patch +++ /dev/null @@ -1,31 +0,0 @@ -diff --git a/lldb/include/lldb/Host/Config.h.cmake b/lldb/include/lldb/Host/Config.h.cmake ---- a/lldb/include/lldb/Host/Config.h.cmake -+++ b/lldb/include/lldb/Host/Config.h.cmake -@@ -38,6 +38,8 @@ - - #cmakedefine01 LLDB_ENABLE_CURSES - -+#cmakedefine01 CURSES_HAVE_NCURSES_CURSES_H -+ - #cmakedefine01 LLDB_ENABLE_LIBEDIT - - #cmakedefine01 LLDB_ENABLE_LIBXML2 -diff --git a/lldb/source/Core/IOHandlerCursesGUI.cpp b/lldb/source/Core/IOHandlerCursesGUI.cpp ---- a/lldb/source/Core/IOHandlerCursesGUI.cpp -+++ b/lldb/source/Core/IOHandlerCursesGUI.cpp -@@ -10,9 +10,14 @@ - #include "lldb/Host/Config.h" - - #if LLDB_ENABLE_CURSES -+#if CURSES_HAVE_NCURSES_CURSES_H -+#include -+#include -+#else - #include - #include - #endif -+#endif - - #if defined(__APPLE__) - #include - diff --git a/repos/backports/packages/llvm/llvm-gcc11.patch b/repos/backports/packages/llvm/llvm-gcc11.patch deleted file mode 100644 index 8e081e87..00000000 --- a/repos/backports/packages/llvm/llvm-gcc11.patch +++ /dev/null @@ -1,9 +0,0 @@ ---- a/llvm/utils/benchmark/src/benchmark_register.h -+++ b/llvm/utils/benchmark/src/benchmark_register.h -@@ -2,6 +2,7 @@ - #define BENCHMARK_REGISTER_H - - #include -+#include - - #include "check.h" diff --git a/repos/backports/packages/llvm/llvm12-thread.patch b/repos/backports/packages/llvm/llvm12-thread.patch deleted file mode 100644 index bbe3c253..00000000 --- a/repos/backports/packages/llvm/llvm12-thread.patch +++ /dev/null @@ -1,31 +0,0 @@ -diff --git a/openmp/libomptarget/cmake/Modules/LibomptargetGetDependencies.cmake b/openmp/libomptarget/cmake/Modules/LibomptargetGetDependencies.cmake -index e3c2a580396e..5f76992d193e 100644 ---- a/openmp/libomptarget/cmake/Modules/LibomptargetGetDependencies.cmake -+++ b/openmp/libomptarget/cmake/Modules/LibomptargetGetDependencies.cmake -@@ -249,3 +249,6 @@ if (NOT LIBOMPTARGET_CUDA_TOOLKIT_ROOT_DIR_PRESET AND - endif() - endif() - endif() -+ -+find_package(Threads REQUIRED) -+set(OPENMP_PTHREAD_LIB ${CMAKE_THREAD_LIBS_INIT}) -diff --git a/openmp/libomptarget/src/CMakeLists.txt b/openmp/libomptarget/src/CMakeLists.txt -index 15e6c3bbaf1f..3e5a73504a08 100644 ---- a/openmp/libomptarget/src/CMakeLists.txt -+++ b/openmp/libomptarget/src/CMakeLists.txt -@@ -30,6 +30,7 @@ if(OPENMP_STANDALONE_BUILD OR (NOT OPENMP_ENABLE_LIBOMPTARGET_PROFILING)) - add_library(omptarget SHARED ${LIBOMPTARGET_SRC_FILES}) - target_link_libraries(omptarget - ${CMAKE_DL_LIBS} -+ ${OPENMP_PTHREAD_LIB} - "-Wl,--version-script=${CMAKE_CURRENT_SOURCE_DIR}/exports") - else() - set(LLVM_LINK_COMPONENTS -@@ -37,6 +38,7 @@ else() - ) - add_llvm_library(omptarget SHARED ${LIBOMPTARGET_SRC_FILES} - LINK_LIBS ${CMAKE_DL_LIBS} -+ ${OPENMP_PTHREAD_LIB} - "-Wl,--version-script=${CMAKE_CURRENT_SOURCE_DIR}/exports" - ) - target_compile_definitions(omptarget PUBLIC OMPTARGET_PROFILE_ENABLED) diff --git a/repos/backports/packages/llvm/llvm13-14-thread.patch b/repos/backports/packages/llvm/llvm13-14-thread.patch deleted file mode 100644 index 0067a930..00000000 --- a/repos/backports/packages/llvm/llvm13-14-thread.patch +++ /dev/null @@ -1,19 +0,0 @@ ---- spack-src/openmp/libomptarget/cmake/Modules/LibomptargetGetDependencies.cmake.org 2022-02-08 14:58:13.000000000 +0900 -+++ spack-src/openmp/libomptarget/cmake/Modules/LibomptargetGetDependencies.cmake 2022-02-08 13:58:53.000000000 +0900 -@@ -276,4 +276,5 @@ - endif() - endif() - --set(OPENMP_PTHREAD_LIB ${LLVM_PTHREAD_LIB}) -+find_package(Threads REQUIRED) -+set(OPENMP_PTHREAD_LIB ${CMAKE_THREAD_LIBS_INIT}) ---- spack-src/openmp/libomptarget/src/CMakeLists.txt.org 2022-02-09 08:49:35.000000000 +0900 -+++ spack-src/openmp/libomptarget/src/CMakeLists.txt 2022-02-09 08:50:18.000000000 +0900 -@@ -36,6 +36,7 @@ - endif() - target_link_libraries(omptarget PRIVATE - ${CMAKE_DL_LIBS} -+ ${OPENMP_PTHREAD_LIB} - "-Wl,--version-script=${CMAKE_CURRENT_SOURCE_DIR}/exports") - - # Install libomptarget under the lib destination folder. diff --git a/repos/backports/packages/llvm/llvm13-fujitsu.patch b/repos/backports/packages/llvm/llvm13-fujitsu.patch deleted file mode 100644 index aa215bcf..00000000 --- a/repos/backports/packages/llvm/llvm13-fujitsu.patch +++ /dev/null @@ -1,15 +0,0 @@ ---- spack-src/libcxx/include/__config.org 2022-02-03 14:36:11.000000000 +0900 -+++ spack-src/libcxx/include/__config 2022-02-04 08:39:59.000000000 +0900 -@@ -52,7 +52,11 @@ - # elif __cplusplus <= 201703L - # define _LIBCPP_STD_VER 17 - # elif __cplusplus <= 202002L --# define _LIBCPP_STD_VER 20 -+# if defined(__FUJITSU) || defined(__CLANG_FUJITSU) -+# define _LIBCPP_STD_VER 17 -+# else -+# define _LIBCPP_STD_VER 20 -+# endif - # else - # define _LIBCPP_STD_VER 21 // current year, or date of c++2b ratification - # endif diff --git a/repos/backports/packages/llvm/llvm14-hwloc-ompd.patch b/repos/backports/packages/llvm/llvm14-hwloc-ompd.patch deleted file mode 100644 index bdae92e0..00000000 --- a/repos/backports/packages/llvm/llvm14-hwloc-ompd.patch +++ /dev/null @@ -1,13 +0,0 @@ ---- a/openmp/libompd/src/CMakeLists.txt -+++ b/openmp/libompd/src/CMakeLists.txt -@@ -44,6 +44,10 @@ - ${LIBOMP_SRC_DIR} - ) - -+if(${LIBOMP_USE_HWLOC}) -+ include_directories(${LIBOMP_HWLOC_INSTALL_DIR}/include) -+endif() -+ - INSTALL( TARGETS ompd - LIBRARY DESTINATION ${OPENMP_INSTALL_LIBDIR} - ARCHIVE DESTINATION ${OPENMP_INSTALL_LIBDIR} diff --git a/repos/backports/packages/llvm/llvm15-thread.patch b/repos/backports/packages/llvm/llvm15-thread.patch deleted file mode 100644 index cffb5591..00000000 --- a/repos/backports/packages/llvm/llvm15-thread.patch +++ /dev/null @@ -1,23 +0,0 @@ -diff --git a/openmp/libomptarget/cmake/Modules/LibomptargetGetDependencies.cmake b/openmp/libomptarget/cmake/Modules/LibomptargetGetDependencies.cmake -index 1f2a50667c4f..d3ff232f6bd3 100644 ---- a/openmp/libomptarget/cmake/Modules/LibomptargetGetDependencies.cmake -+++ b/openmp/libomptarget/cmake/Modules/LibomptargetGetDependencies.cmake -@@ -280,4 +280,5 @@ if (NOT LIBOMPTARGET_CUDA_TOOLKIT_ROOT_DIR_PRESET AND - endif() - endif() - --set(OPENMP_PTHREAD_LIB ${LLVM_PTHREAD_LIB}) -+find_package(Threads REQUIRED) -+set(OPENMP_PTHREAD_LIB Threads::Threads) -diff --git a/openmp/libomptarget/src/CMakeLists.txt b/openmp/libomptarget/src/CMakeLists.txt -index 071ec61889a2..b782c3b07e6f 100644 ---- a/openmp/libomptarget/src/CMakeLists.txt -+++ b/openmp/libomptarget/src/CMakeLists.txt -@@ -33,6 +33,7 @@ add_llvm_library(omptarget - LINK_LIBS - PRIVATE - ${CMAKE_DL_LIBS} -+ ${OPENMP_PTHREAD_LIB} - "-Wl,--version-script=${CMAKE_CURRENT_SOURCE_DIR}/exports" - NO_INSTALL_RPATH - ) diff --git a/repos/backports/packages/llvm/llvm5-lld-ELF-Symbols.patch b/repos/backports/packages/llvm/llvm5-lld-ELF-Symbols.patch deleted file mode 100644 index 727647d3..00000000 --- a/repos/backports/packages/llvm/llvm5-lld-ELF-Symbols.patch +++ /dev/null @@ -1,33 +0,0 @@ -# Fix lld templates: https://bugs.freebsd.org/bugzilla/show_bug.cgi?id=230463 ---- a/lld/ELF/Symbols.cpp -+++ b/lld/ELF/Symbols.cpp -@@ -383,17 +383,17 @@ - return B.getName(); - } - --template uint32_t SymbolBody::template getSize() const; --template uint32_t SymbolBody::template getSize() const; --template uint64_t SymbolBody::template getSize() const; --template uint64_t SymbolBody::template getSize() const; -+template uint32_t SymbolBody::getSize() const; -+template uint32_t SymbolBody::getSize() const; -+template uint64_t SymbolBody::getSize() const; -+template uint64_t SymbolBody::getSize() const; - --template bool DefinedRegular::template isMipsPIC() const; --template bool DefinedRegular::template isMipsPIC() const; --template bool DefinedRegular::template isMipsPIC() const; --template bool DefinedRegular::template isMipsPIC() const; -+template bool DefinedRegular::isMipsPIC() const; -+template bool DefinedRegular::isMipsPIC() const; -+template bool DefinedRegular::isMipsPIC() const; -+template bool DefinedRegular::isMipsPIC() const; - --template uint32_t SharedSymbol::template getAlignment() const; --template uint32_t SharedSymbol::template getAlignment() const; --template uint32_t SharedSymbol::template getAlignment() const; --template uint32_t SharedSymbol::template getAlignment() const; -+template uint32_t SharedSymbol::getAlignment() const; -+template uint32_t SharedSymbol::getAlignment() const; -+template uint32_t SharedSymbol::getAlignment() const; -+template uint32_t SharedSymbol::getAlignment() const; diff --git a/repos/backports/packages/llvm/llvm5-sanitizer-ustat.patch b/repos/backports/packages/llvm/llvm5-sanitizer-ustat.patch deleted file mode 100644 index 531a3c5d..00000000 --- a/repos/backports/packages/llvm/llvm5-sanitizer-ustat.patch +++ /dev/null @@ -1,25 +0,0 @@ -# has been removed from glibc 2.28, -# backport fix from llvm-6.0.1: ---- a/compiler-rt/lib/sanitizer_common/sanitizer_platform_limits_posix.cc -+++ b/compiler-rt/lib/sanitizer_common/sanitizer_platform_limits_posix.cc -@@ -159,1 +159,0 @@ --#include -@@ -252,5 +252,17 @@ - - #if SANITIZER_LINUX && !SANITIZER_ANDROID -- unsigned struct_ustat_sz = sizeof(struct ustat); -+ // Use pre-computed size of struct ustat to avoid which -+ // has been removed from glibc 2.28. -+#if defined(__aarch64__) || defined(__s390x__) || defined (__mips64) \ -+ || defined(__powerpc64__) || defined(__arch64__) || defined(__sparcv9) \ -+ || defined(__x86_64__) -+#define SIZEOF_STRUCT_USTAT 32 -+#elif defined(__arm__) || defined(__i386__) || defined(__mips__) \ -+ || defined(__powerpc__) || defined(__s390__) -+#define SIZEOF_STRUCT_USTAT 20 -+#else -+#error Unknown size of struct ustat -+#endif -+ unsigned struct_ustat_sz = SIZEOF_STRUCT_USTAT; - unsigned struct_rlimit64_sz = sizeof(struct rlimit64); - unsigned struct_statvfs64_sz = sizeof(struct statvfs64); diff --git a/repos/backports/packages/llvm/llvm7_intel.patch b/repos/backports/packages/llvm/llvm7_intel.patch deleted file mode 100644 index 710545a6..00000000 --- a/repos/backports/packages/llvm/llvm7_intel.patch +++ /dev/null @@ -1,50 +0,0 @@ -diff --git a/llvm/include/llvm/ADT/StringExtras.h b/llvm/include/llvm/ADT/StringExtras.h -index 71b0e7527cb..3304a378f37 100644 ---- a/llvm/include/llvm/ADT/StringExtras.h -+++ b/llvm/include/llvm/ADT/StringExtras.h -@@ -369,7 +369,7 @@ inline size_t join_items_size(const A1 &A, Args &&... Items) { - template - inline std::string join(IteratorT Begin, IteratorT End, StringRef Separator) { - using tag = typename std::iterator_traits::iterator_category; -- return detail::join_impl(Begin, End, Separator, tag()); -+ return llvm::detail::join_impl(Begin, End, Separator, tag()); - } - - /// Joins the strings in the range [R.begin(), R.end()), adding Separator -diff --git a/llvm/include/llvm/Analysis/BlockFrequencyInfoImpl.h b/llvm/include/llvm/Analysis/BlockFrequencyInfoImpl.h -index 25b2efd33c9..40144d96044 100644 ---- a/llvm/include/llvm/Analysis/BlockFrequencyInfoImpl.h -+++ b/llvm/include/llvm/Analysis/BlockFrequencyInfoImpl.h -@@ -186,8 +186,9 @@ public: - /// topological sort) and it's class is the same regardless of block type. - struct BlockNode { - using IndexType = uint32_t; -+ using IndexTypeLimits = std::numeric_limits; - -- IndexType Index = std::numeric_limits::max(); -+ IndexType Index = IndexTypeLimits::max(); - - BlockNode() = default; - BlockNode(IndexType Index) : Index(Index) {} -diff --git a/llvm/lib/ExecutionEngine/Orc/Core.cpp b/llvm/lib/ExecutionEngine/Orc/Core.cpp -index 4325d57f73d..96e1e1d5503 100644 ---- a/llvm/lib/ExecutionEngine/Orc/Core.cpp -+++ b/llvm/lib/ExecutionEngine/Orc/Core.cpp -@@ -1423,7 +1423,7 @@ VSO::lookupImpl(std::shared_ptr &Q, - if (SymI->second.getAddress() != 0) { - Q->resolve(Name, SymI->second); - if (Q->isFullyResolved()) -- ActionFlags |= NotifyFullyResolved; -+ ActionFlags = static_cast(ActionFlags | NotifyFullyResolved); - } - - // If the symbol is lazy, get the MaterialiaztionUnit for it. -@@ -1456,7 +1456,7 @@ VSO::lookupImpl(std::shared_ptr &Q, - // continue. - Q->notifySymbolReady(); - if (Q->isFullyReady()) -- ActionFlags |= NotifyFullyReady; -+ ActionFlags = static_cast(ActionFlags | NotifyFullyReady); - continue; - } - diff --git a/repos/backports/packages/llvm/llvm_py37.patch b/repos/backports/packages/llvm/llvm_py37.patch deleted file mode 100644 index 478be879..00000000 --- a/repos/backports/packages/llvm/llvm_py37.patch +++ /dev/null @@ -1,37 +0,0 @@ -From ecdefed7f6ba11421fe1ecc6c13a135ab7bcda73 Mon Sep 17 00:00:00 2001 -From: Pavel Labath -Date: Mon, 23 Jul 2018 11:37:36 +0100 -Subject: [PATCH] Fix PythonString::GetString for >=python-3.7 - -The return value of PyUnicode_AsUTF8AndSize is now "const char *". ---- - .../Plugins/ScriptInterpreter/Python/PythonDataObjects.cpp | 6 ++++-- - 1 file changed, 4 insertions(+), 2 deletions(-) - -diff --git a/tools/lldb/source/Plugins/ScriptInterpreter/Python/PythonDataObjects.cpp b/tools/lldb/source/Plugins/ScriptInterpreter/Python/PythonDataObjects.cpp -index 6a9d57d5a..94f16b2c7 100644 ---- a/lldb/source/Plugins/ScriptInterpreter/Python/PythonDataObjects.cpp -+++ b/lldb/source/Plugins/ScriptInterpreter/Python/PythonDataObjects.cpp -@@ -404,14 +404,16 @@ llvm::StringRef PythonString::GetString() const { - return llvm::StringRef(); - - Py_ssize_t size; -- char *c; -+ const char *data; - - #if PY_MAJOR_VERSION >= 3 -- c = PyUnicode_AsUTF8AndSize(m_py_obj, &size); -+ data = PyUnicode_AsUTF8AndSize(m_py_obj, &size); - #else -+ char *c; - PyString_AsStringAndSize(m_py_obj, &c, &size); -+ data = c; - #endif -- return llvm::StringRef(c, size); -+ return llvm::StringRef(data, size); - } - - size_t PythonString::GetSize() const { --- -2.18.0.233.g985f88cf7e-goog - diff --git a/repos/backports/packages/llvm/llvm_python_path.patch b/repos/backports/packages/llvm/llvm_python_path.patch deleted file mode 100644 index 9f821cc3..00000000 --- a/repos/backports/packages/llvm/llvm_python_path.patch +++ /dev/null @@ -1,14 +0,0 @@ -diff --git a/compiler-rt/cmake/Modules/AddCompilerRT.cmake b/compiler-rt/cmake/Modules/AddCompilerRT.cmake -index dab55707338..6f4c6791141 100644 ---- a/compiler-rt/cmake/Modules/AddCompilerRT.cmake -+++ b/compiler-rt/cmake/Modules/AddCompilerRT.cmake -@@ -612,6 +612,9 @@ macro(add_custom_libcxx name prefix) - CMAKE_OBJDUMP - CMAKE_STRIP - CMAKE_SYSROOT -+ PYTHON_EXECUTABLE -+ Python3_EXECUTABLE -+ Python2_EXECUTABLE - CMAKE_SYSTEM_NAME) - foreach(variable ${PASSTHROUGH_VARIABLES}) - get_property(is_value_set CACHE ${variable} PROPERTY VALUE SET) diff --git a/repos/backports/packages/llvm/missing-includes.patch b/repos/backports/packages/llvm/missing-includes.patch deleted file mode 100644 index e88b8fcf..00000000 --- a/repos/backports/packages/llvm/missing-includes.patch +++ /dev/null @@ -1,23 +0,0 @@ -# https://github.com/spack/spack/issues/24270 (This hunk is upstream since llvm-10) ---- a/llvm/include/llvm/Demangle/MicrosoftDemangleNodes.h -+++ b/llvm/include/llvm/Demangle/MicrosoftDemangleNodes.h -@@ -4,6 +4,8 @@ - #include "llvm/Demangle/Compiler.h" - #include "llvm/Demangle/StringView.h" - #include -+#include -+#include - - class OutputStream; - -# https://github.com/spack/spack/pull/27233 ---- a/llvm/utils/benchmark/src/benchmark_register.h -+++ b/llvm/utils/benchmark/src/benchmark_register.h -@@ -2,6 +2,7 @@ - #define BENCHMARK_REGISTER_H - - #include -+#include - - #include "check.h" - diff --git a/repos/backports/packages/llvm/no_cyclades.patch b/repos/backports/packages/llvm/no_cyclades.patch deleted file mode 100644 index 10f9d079..00000000 --- a/repos/backports/packages/llvm/no_cyclades.patch +++ /dev/null @@ -1,81 +0,0 @@ -diff --git a/compiler-rt/lib/sanitizer_common/sanitizer_common_interceptors_ioctl.inc b/compiler-rt/lib/sanitizer_common/sanitizer_common_interceptors_ioctl.inc ---- a/compiler-rt/lib/sanitizer_common/sanitizer_common_interceptors_ioctl.inc -+++ b/compiler-rt/lib/sanitizer_common/sanitizer_common_interceptors_ioctl.inc -@@ -370,15 +370,6 @@ - - #if SANITIZER_GLIBC - // _(SIOCDEVPLIP, WRITE, struct_ifreq_sz); // the same as EQL_ENSLAVE -- _(CYGETDEFTHRESH, WRITE, sizeof(int)); -- _(CYGETDEFTIMEOUT, WRITE, sizeof(int)); -- _(CYGETMON, WRITE, struct_cyclades_monitor_sz); -- _(CYGETTHRESH, WRITE, sizeof(int)); -- _(CYGETTIMEOUT, WRITE, sizeof(int)); -- _(CYSETDEFTHRESH, NONE, 0); -- _(CYSETDEFTIMEOUT, NONE, 0); -- _(CYSETTHRESH, NONE, 0); -- _(CYSETTIMEOUT, NONE, 0); - _(EQL_EMANCIPATE, WRITE, struct_ifreq_sz); - _(EQL_ENSLAVE, WRITE, struct_ifreq_sz); - _(EQL_GETMASTRCFG, WRITE, struct_ifreq_sz); -diff --git a/compiler-rt/lib/sanitizer_common/sanitizer_platform_limits_posix.h b/compiler-rt/lib/sanitizer_common/sanitizer_platform_limits_posix.h ---- a/compiler-rt/lib/sanitizer_common/sanitizer_platform_limits_posix.h -+++ b/compiler-rt/lib/sanitizer_common/sanitizer_platform_limits_posix.h -@@ -983,7 +983,6 @@ - - #if SANITIZER_LINUX && !SANITIZER_ANDROID - extern unsigned struct_ax25_parms_struct_sz; --extern unsigned struct_cyclades_monitor_sz; - extern unsigned struct_input_keymap_entry_sz; - extern unsigned struct_ipx_config_data_sz; - extern unsigned struct_kbdiacrs_sz; -@@ -1328,15 +1327,6 @@ - #endif // SANITIZER_LINUX - - #if SANITIZER_LINUX && !SANITIZER_ANDROID --extern unsigned IOCTL_CYGETDEFTHRESH; --extern unsigned IOCTL_CYGETDEFTIMEOUT; --extern unsigned IOCTL_CYGETMON; --extern unsigned IOCTL_CYGETTHRESH; --extern unsigned IOCTL_CYGETTIMEOUT; --extern unsigned IOCTL_CYSETDEFTHRESH; --extern unsigned IOCTL_CYSETDEFTIMEOUT; --extern unsigned IOCTL_CYSETTHRESH; --extern unsigned IOCTL_CYSETTIMEOUT; - extern unsigned IOCTL_EQL_EMANCIPATE; - extern unsigned IOCTL_EQL_ENSLAVE; - extern unsigned IOCTL_EQL_GETMASTRCFG; -diff --git a/compiler-rt/lib/sanitizer_common/sanitizer_platform_limits_posix.cpp b/compiler-rt/lib/sanitizer_common/sanitizer_platform_limits_posix.cpp ---- a/compiler-rt/lib/sanitizer_common/sanitizer_platform_limits_posix.cpp -+++ b/compiler-rt/lib/sanitizer_common/sanitizer_platform_limits_posix.cpp -@@ -143,7 +143,6 @@ - # include - #endif - #include --#include - #include - #include - #include -@@ -460,7 +459,6 @@ - - #if SANITIZER_GLIBC - unsigned struct_ax25_parms_struct_sz = sizeof(struct ax25_parms_struct); -- unsigned struct_cyclades_monitor_sz = sizeof(struct cyclades_monitor); - #if EV_VERSION > (0x010000) - unsigned struct_input_keymap_entry_sz = sizeof(struct input_keymap_entry); - #else -@@ -824,15 +822,6 @@ - #endif // SANITIZER_LINUX - - #if SANITIZER_LINUX && !SANITIZER_ANDROID -- unsigned IOCTL_CYGETDEFTHRESH = CYGETDEFTHRESH; -- unsigned IOCTL_CYGETDEFTIMEOUT = CYGETDEFTIMEOUT; -- unsigned IOCTL_CYGETMON = CYGETMON; -- unsigned IOCTL_CYGETTHRESH = CYGETTHRESH; -- unsigned IOCTL_CYGETTIMEOUT = CYGETTIMEOUT; -- unsigned IOCTL_CYSETDEFTHRESH = CYSETDEFTHRESH; -- unsigned IOCTL_CYSETDEFTIMEOUT = CYSETDEFTIMEOUT; -- unsigned IOCTL_CYSETTHRESH = CYSETTHRESH; -- unsigned IOCTL_CYSETTIMEOUT = CYSETTIMEOUT; - unsigned IOCTL_EQL_EMANCIPATE = EQL_EMANCIPATE; - unsigned IOCTL_EQL_ENSLAVE = EQL_ENSLAVE; - unsigned IOCTL_EQL_GETMASTRCFG = EQL_GETMASTRCFG; diff --git a/repos/backports/packages/llvm/no_cyclades9.patch b/repos/backports/packages/llvm/no_cyclades9.patch deleted file mode 100644 index 7532865e..00000000 --- a/repos/backports/packages/llvm/no_cyclades9.patch +++ /dev/null @@ -1,42 +0,0 @@ ---- a/compiler-rt/lib/sanitizer_common/sanitizer_common_interceptors_ioctl.inc -+++ b/compiler-rt/lib/sanitizer_common/sanitizer_common_interceptors_ioctl.inc -@@ -370,9 +370,0 @@ -- _(CYGETDEFTHRESH, WRITE, sizeof(int)); -- _(CYGETDEFTIMEOUT, WRITE, sizeof(int)); -- _(CYGETMON, WRITE, struct_cyclades_monitor_sz); -- _(CYGETTHRESH, WRITE, sizeof(int)); -- _(CYGETTIMEOUT, WRITE, sizeof(int)); -- _(CYSETDEFTHRESH, NONE, 0); -- _(CYSETDEFTIMEOUT, NONE, 0); -- _(CYSETTHRESH, NONE, 0); -- _(CYSETTIMEOUT, NONE, 0); ---- a/compiler-rt/lib/sanitizer_common/sanitizer_platform_limits_posix.h -+++ b/compiler-rt/lib/sanitizer_common/sanitizer_platform_limits_posix.h -@@ -986,1 +986,0 @@ -- extern unsigned struct_cyclades_monitor_sz; -@@ -1331,9 +1327,0 @@ -- extern unsigned IOCTL_CYGETDEFTHRESH; -- extern unsigned IOCTL_CYGETDEFTIMEOUT; -- extern unsigned IOCTL_CYGETMON; -- extern unsigned IOCTL_CYGETTHRESH; -- extern unsigned IOCTL_CYGETTIMEOUT; -- extern unsigned IOCTL_CYSETDEFTHRESH; -- extern unsigned IOCTL_CYSETDEFTIMEOUT; -- extern unsigned IOCTL_CYSETTHRESH; -- extern unsigned IOCTL_CYSETTIMEOUT; ---- a/compiler-rt/lib/sanitizer_common/sanitizer_platform_limits_posix.cc -+++ b/compiler-rt/lib/sanitizer_common/sanitizer_platform_limits_posix.cc -@@ -143,1 +143,0 @@ --#include -@@ -460,1 +459,0 @@ -- unsigned struct_cyclades_monitor_sz = sizeof(struct cyclades_monitor); -@@ -824,9 +822,0 @@ -- unsigned IOCTL_CYGETDEFTHRESH = CYGETDEFTHRESH; -- unsigned IOCTL_CYGETDEFTIMEOUT = CYGETDEFTIMEOUT; -- unsigned IOCTL_CYGETMON = CYGETMON; -- unsigned IOCTL_CYGETTHRESH = CYGETTHRESH; -- unsigned IOCTL_CYGETTIMEOUT = CYGETTIMEOUT; -- unsigned IOCTL_CYSETDEFTHRESH = CYSETDEFTHRESH; -- unsigned IOCTL_CYSETDEFTIMEOUT = CYSETDEFTIMEOUT; -- unsigned IOCTL_CYSETTHRESH = CYSETTHRESH; -- unsigned IOCTL_CYSETTIMEOUT = CYSETTIMEOUT; diff --git a/repos/backports/packages/llvm/package.py b/repos/backports/packages/llvm/package.py deleted file mode 100644 index 08c06a6c..00000000 --- a/repos/backports/packages/llvm/package.py +++ /dev/null @@ -1,816 +0,0 @@ -# Copyright 2013-2023 Lawrence Livermore National Security, LLC and other -# Spack Project Developers. See the top-level COPYRIGHT file for details. -# -# SPDX-License-Identifier: (Apache-2.0 OR MIT) -import os -import os.path -import re -import sys - -import llnl.util.tty as tty - -import spack.build_environment -import spack.util.executable -from spack.package import * - - -class Llvm(CMakePackage, CudaPackage): - """The LLVM Project is a collection of modular and reusable compiler and - toolchain technologies. Despite its name, LLVM has little to do - with traditional virtual machines, though it does provide helpful - libraries that can be used to build them. The name "LLVM" itself - is not an acronym; it is the full name of the project. - """ - - homepage = "https://llvm.org/" - url = "https://github.com/llvm/llvm-project/archive/llvmorg-7.1.0.tar.gz" - list_url = "https://releases.llvm.org/download.html" - git = "https://github.com/llvm/llvm-project" - maintainers = ("trws", "haampie") - - tags = ["e4s"] - - generator = "Ninja" - - family = "compiler" # Used by lmod - - version("main", branch="main") - version("16.0.0", sha256="cba969a0782a3a398658d439f047b5e548ea04724f4fbfdbe17cfc946f4cd3ed") - version("15.0.7", sha256="42a0088f148edcf6c770dfc780a7273014a9a89b66f357c761b4ca7c8dfa10ba") - version("15.0.6", sha256="4d857d7a180918bdacd09a5910bf9743c9861a1e49cb065a85f7a990f812161d") - version("15.0.5", sha256="c47640269e0251e009ae18a25162df4e20e175885286e21d28c054b084b991a4") - version("15.0.4", sha256="e24b4d3bf7821dcb1c901d1e09096c1f88fb00095c5a6ef893baab4836975e52") - version("15.0.3", sha256="8ac8e4c0982bf236526d737d385db5e1e66543ab217a9355d54159659eae3774") - version("15.0.2", sha256="dc11d35e60ab61792baa607dff080c993b39de23fb93b3d3369ba15b0601c307") - version("15.0.1", sha256="20bccb964e39f604fdc16d1258f94d2053fbdcdab2b2f6d5e20e6095ec403c00") - version("15.0.0", sha256="36d83cd84e1caf2bcfda1669c029e2b949adb9860cff01e7d3246ac2348b11ae") - version("14.0.6", sha256="98f15f842700bdb7220a166c8d2739a03a72e775b67031205078f39dd756a055") - version("14.0.5", sha256="a4a57f029cb81f04618e05853f05fc2d21b64353c760977d8e7799bf7218a23a") - version("14.0.4", sha256="1333236f9bee38658762076be4236cb5ebf15ae9b7f2bfce6946b96ae962dc73") - version("14.0.3", sha256="0e1d049b050127ecf6286107e9a4400b0550f841d5d2288b9d31fd32ed0683d5") - version("14.0.2", sha256="ca52232b3451c8e017f00eb882277707c13e30fac1271ec97015f6d0eeb383d1") - version("14.0.1", sha256="c8be00406e872c8a24f8571cf6f5517b73ae707104724b1fd1db2f0af9544019") - version("14.0.0", sha256="87b1a068b370df5b79a892fdb2935922a8efb1fddec4cc506e30fe57b6a1d9c4") - version("13.0.1", sha256="09c50d558bd975c41157364421820228df66632802a4a6a7c9c17f86a7340802") - version("13.0.0", sha256="a1131358f1f9f819df73fa6bff505f2c49d176e9eef0a3aedd1fdbce3b4630e8") - version("12.0.1", sha256="66b64aa301244975a4aea489f402f205cde2f53dd722dad9e7b77a0459b4c8df") - version("12.0.0", sha256="8e6c99e482bb16a450165176c2d881804976a2d770e0445af4375e78a1fbf19c") - version("11.1.0", sha256="53a0719f3f4b0388013cfffd7b10c7d5682eece1929a9553c722348d1f866e79") - version("11.0.1", sha256="9c7ad8e8ec77c5bde8eb4afa105a318fd1ded7dff3747d14f012758719d7171b") - version("11.0.0", sha256="8ad4ddbafac4f2c8f2ea523c2c4196f940e8e16f9e635210537582a48622a5d5") - version("10.0.1", sha256="c7ccb735c37b4ec470f66a6c35fbae4f029c0f88038f6977180b1a8ddc255637") - version("10.0.0", sha256="b81c96d2f8f40dc61b14a167513d87c0d813aae0251e06e11ae8a4384ca15451") - version("9.0.1", sha256="be7b034641a5fda51ffca7f5d840b1a768737779f75f7c4fd18fe2d37820289a") - version("9.0.0", sha256="7807fac25330e24e9955ca46cd855dd34bbc9cc4fdba8322366206654d1036f2") - version("8.0.1", sha256="5b18f6111c7aee7c0933c355877d4abcfe6cb40c1a64178f28821849c725c841") - version("8.0.0", sha256="d81238b4a69e93e29f74ce56f8107cbfcf0c7d7b40510b7879e98cc031e25167") - version("7.1.0", sha256="71c93979f20e01f1a1cc839a247945f556fa5e63abf2084e8468b238080fd839") - version("7.0.1", sha256="f17a6cd401e8fd8f811fbfbb36dcb4f455f898c9d03af4044807ad005df9f3c0") - version("6.0.1", sha256="aefadceb231f4c195fe6d6cd3b1a010b269c8a22410f339b5a089c2e902aa177") - version("6.0.0", sha256="1946ec629c88d30122afa072d3c6a89cc5d5e4e2bb28dc63b2f9ebcc7917ee64") - version("5.0.2", sha256="fe87aa11558c08856739bfd9bd971263a28657663cb0c3a0af01b94f03b0b795") - version("5.0.1", sha256="84ca454abf262579814a2a2b846569f6e0cb3e16dc33ca3642b4f1dff6fbafd3") - version("5.0.0", sha256="1f1843315657a4371d8ca37f01265fa9aae17dbcf46d2d0a95c1fdb3c6a4bab6") - - # NOTE: The debug version of LLVM is an order of magnitude larger than - # the release version, and may take up 20-30 GB of space. If you want - # to save space, build with `build_type=Release`. - - variant( - "clang", default=True, description="Build the LLVM C/C++/Objective-C compiler frontend" - ) - variant( - "flang", - default=False, - when="@11: +clang", - description="Build the LLVM Fortran compiler frontend " - "(experimental - parser only, needs GCC)", - ) - variant( - "omp_debug", - default=False, - description="Include debugging code in OpenMP runtime libraries", - ) - variant("lldb", default=True, when="+clang", description="Build the LLVM debugger") - variant("lld", default=True, description="Build the LLVM linker") - variant("mlir", default=False, when="@10:", description="Build with MLIR support") - variant( - "internal_unwind", default=True, when="+clang", description="Build the libcxxabi libunwind" - ) - variant( - "polly", - default=True, - description="Build the LLVM polyhedral optimization plugin, " "only builds for 3.7.0+", - ) - variant( - "libcxx", default=True, when="+clang", description="Build the LLVM C++ standard library" - ) - variant( - "compiler-rt", - when="+clang", - default=True, - description="Build LLVM compiler runtime, including sanitizers", - ) - variant( - "gold", - default=(sys.platform != "darwin"), - description="Add support for LTO with the gold linker plugin", - ) - variant("split_dwarf", default=False, description="Build with split dwarf information") - variant( - "llvm_dylib", - default=True, - description="Build a combined LLVM shared library with all components", - ) - variant( - "link_llvm_dylib", - default=False, - when="+llvm_dylib", - description="Link LLVM tools against the LLVM shared library", - ) - variant( - "targets", - default="none", - description=( - "What targets to build. Spack's target family is always added " - "(e.g. X86 is automatically enabled when targeting znver2)." - ), - values=( - "all", - "none", - "aarch64", - "amdgpu", - "arm", - "avr", - "bpf", - "cppbackend", - "hexagon", - "lanai", - "mips", - "msp430", - "nvptx", - "powerpc", - "riscv", - "sparc", - "systemz", - "webassembly", - "x86", - "xcore", - ), - multi=True, - ) - variant( - "build_type", - default="Release", - description="CMake build type", - values=("Debug", "Release", "RelWithDebInfo", "MinSizeRel"), - ) - variant( - "omp_tsan", - default=False, - when="@6:", - description="Build with OpenMP capable thread sanitizer", - ) - variant( - "omp_as_runtime", - default=True, - when="+clang @12:", - description="Build OpenMP runtime via ENABLE_RUNTIME by just-built Clang", - ) - variant( - "code_signing", - default=False, - when="+lldb platform=darwin", - description="Enable code-signing on macOS", - ) - variant("python", default=False, description="Install python bindings") - variant("version_suffix", default="none", description="Add a symbol suffix") - variant( - "shlib_symbol_version", - default="none", - description="Add shared library symbol version", - when="@13:", - ) - variant( - "z3", default=False, when="+clang @8:", description="Use Z3 for the clang static analyzer" - ) - variant( - "zstd", - default=False, - when="@15:", - description="Enable zstd support for static analyzer / lld", - ) - - provides("libllvm@14", when="@14.0.0:14") - provides("libllvm@13", when="@13.0.0:13") - provides("libllvm@12", when="@12.0.0:12") - provides("libllvm@11", when="@11.0.0:11") - provides("libllvm@10", when="@10.0.0:10") - provides("libllvm@9", when="@9.0.0:9") - provides("libllvm@8", when="@8.0.0:8") - provides("libllvm@7", when="@7.0.0:7") - provides("libllvm@6", when="@6.0.0:6") - provides("libllvm@5", when="@5.0.0:5") - provides("libllvm@4", when="@4.0.0:4") - provides("libllvm@3", when="@3.0.0:3") - - extends("python", when="+python") - - # Build dependency - depends_on("cmake@3.4.3:", type="build") - depends_on("cmake@3.13.4:", type="build", when="@12:") - depends_on("cmake@3.20:", type="build", when="@16:") - depends_on("python", when="~python", type="build") - depends_on("pkgconfig", type="build") - - # Universal dependency - depends_on("python", when="+python") - - # clang and clang-tools dependencies - depends_on("z3@4.7.1:", when="+z3") - - # openmp dependencies - depends_on("perl-data-dumper", type=("build")) - depends_on("hwloc") - depends_on("hwloc@2.0.1:", when="@9:") - depends_on("elf", when="+cuda") # libomptarget - depends_on("libffi", when="+cuda") # libomptarget - - # llvm-config --system-libs libraries. - depends_on("zlib") - - # needs zstd cmake config file, which is not added when built with makefile. - depends_on("zstd build_system=cmake", when="+zstd") - - # lldb dependencies - with when("+lldb +python"): - depends_on("swig") - depends_on("swig@2:", when="@10:") - depends_on("swig@3:", when="@12:") - depends_on("libedit", when="+lldb") - depends_on("ncurses", when="+lldb") - depends_on("py-six", when="+lldb+python") - - # gold support, required for some features - depends_on("binutils+gold+ld+plugins", when="+gold") - - # Older LLVM do not build with newer compilers, and vice versa - with when("@16:"): - conflicts("%gcc@:7.0") - conflicts("%clang@:4") - conflicts("%apple-clang@:9") - conflicts("%gcc@8:", when="@:5") - conflicts("%gcc@:5.0", when="@8:") - # Internal compiler error on gcc 8.4 on aarch64 https://bugzilla.redhat.com/show_bug.cgi?id=1958295 - conflicts("%gcc@8.4:8.4.9", when="@12: target=aarch64:") - - # When these versions are concretized, but not explicitly with +libcxx, these - # conflicts will enable clingo to set ~libcxx, making the build successful: - - # libc++ of LLVM13, see https://libcxx.llvm.org/#platform-and-compiler-support - # @13 does not support %gcc@:10 https://bugs.llvm.org/show_bug.cgi?id=51359#c1 - # GCC 11 - latest stable release per GCC release page - # Clang: 11, 12 - latest two stable releases per LLVM release page - # AppleClang 12 - latest stable release per Xcode release page - conflicts("%gcc@:10", when="@13:+libcxx") - conflicts("%clang@:10", when="@13:+libcxx") - conflicts("%apple-clang@:11", when="@13:+libcxx") - - # cuda_arch value must be specified - conflicts("cuda_arch=none", when="+cuda", msg="A value for cuda_arch must be specified.") - - # LLVM bug https://bugs.llvm.org/show_bug.cgi?id=48234 - # CMake bug: https://gitlab.kitware.com/cmake/cmake/-/issues/21469 - # Fixed in upstream versions of both - conflicts("^cmake@3.19.0", when="@6:11.0.0") - - # sys/ustat.h has been removed in favour of statfs from glibc-2.28. Use fixed sizes: - patch("llvm5-sanitizer-ustat.patch", when="@4:6.0.0+compiler-rt") - - # Fix lld templates: https://bugs.freebsd.org/bugzilla/show_bug.cgi?id=230463 - patch("llvm5-lld-ELF-Symbols.patch", when="@5+lld%clang@7:") - - # Fix missing std:size_t in 'llvm@4:5' when built with '%clang@7:' - patch("xray_buffer_queue-cstddef.patch", when="@4:5+compiler-rt%clang@7:") - - # https://github.com/llvm/llvm-project/commit/947f9692440836dcb8d88b74b69dd379d85974ce - patch("sanitizer-ipc_perm_mode.patch", when="@5:7+compiler-rt%clang@11:") - patch("sanitizer-ipc_perm_mode.patch", when="@5:9+compiler-rt%gcc@9:") - - # github.com/spack/spack/issues/24270: MicrosoftDemangle for %gcc@10: and %clang@13: - patch("missing-includes.patch", when="@8") - - # Backport from llvm upstream gcc ppc const expr long double issue - # see https://bugs.llvm.org/show_bug.cgi?id=39696 - # This fix was initially commited (3bf63cf3b366) for the 9.0 release - # but was then broken (0583d9ea8d5e) prior to the 9.0 release and - # eventually unbroken (d9a42ec98adc) for the 11.0 release. The first - # patch backports the original correct fix to previous releases. The - # second patch backports the un-breaking of the original fix. - patch("constexpr_longdouble.patch", when="@6:8+libcxx") - patch("constexpr_longdouble_9.0.patch", when="@9:10+libcxx") - - # Backport from llvm master; see - # https://bugs.llvm.org/show_bug.cgi?id=38233 - # for a bug report about this problem in llvm master. - patch("llvm_py37.patch", when="@4:6 ^python@3.7:") - - # https://github.com/spack/spack/issues/19625, - # merged in llvm-11.0.0_rc2, but not found in 11.0.1 - patch("lldb_external_ncurses-10.patch", when="@10.0.0:11.0.1+lldb") - - # https://github.com/spack/spack/issues/19908 - # merged in llvm main prior to 12.0.0 - patch("llvm_python_path.patch", when="@:11") - - # Workaround for issue https://github.com/spack/spack/issues/18197 - patch("llvm7_intel.patch", when="@7 %intel@18.0.2,19.0.0:19.1.99") - - # Remove cyclades support to build against newer kernel headers - # https://reviews.llvm.org/D102059 - patch("no_cyclades.patch", when="@10:12.0.0") - patch("no_cyclades9.patch", when="@6:9") - - patch("llvm-gcc11.patch", when="@9:11%gcc@11:") - - # add -lpthread to build OpenMP libraries with Fujitsu compiler - patch("llvm12-thread.patch", when="@12 %fj") - - # add -lpthread to build OpenMP libraries - patch("llvm13-14-thread.patch", when="@13:14") - patch("llvm15-thread.patch", when="@15") - - # avoid build failed with Fujitsu compiler - patch("llvm13-fujitsu.patch", when="@13 %fj") - - # patch for missing hwloc.h include for libompd - patch("llvm14-hwloc-ompd.patch", when="@14") - - # make libflags a list in openmp subproject when ~omp_as_runtime - patch("libomp-libflags-as-list.patch", when="@3.7:14") - - # Add missing include leading to build fail with clang - patch( - "https://github.com/llvm/llvm-project/commit/b498303066a63a203d24f739b2d2e0e56dca70d1.patch?full_index=1", - sha256="514926d661635de47972c7d403c9c4669235aa51e22e56d44676d2a2709179b6", - when="@8:11", - ) - - # fix detection of LLDB_PYTHON_EXE_RELATIVE_PATH - # see https://reviews.llvm.org/D133513 - # TODO: adjust version constraint and switch to fetching from the upstream GitHub repo - # when/if the bugfix is merged - patch("D133513.diff", level=0, when="@14:15+lldb+python") - - # The functions and attributes below implement external package - # detection for LLVM. See: - # - # https://spack.readthedocs.io/en/latest/packaging_guide.html#making-a-package-discoverable-with-spack-external-find - executables = ["clang", "flang", "ld.lld", "lldb"] - - @classmethod - def filter_detected_exes(cls, prefix, exes_in_prefix): - result = [] - for exe in exes_in_prefix: - # Executables like lldb-vscode-X are daemon listening - # on some port and would hang Spack during detection. - # clang-cl and clang-cpp are dev tools that we don't - # need to test - if any(x in exe for x in ("vscode", "cpp", "-cl", "-gpu")): - continue - result.append(exe) - return result - - @classmethod - def determine_version(cls, exe): - version_regex = re.compile( - # Normal clang compiler versions are left as-is - r"clang version ([^ )\n]+)-svn[~.\w\d-]*|" - # Don't include hyphenated patch numbers in the version - # (see https://github.com/spack/spack/pull/14365 for details) - r"clang version ([^ )\n]+?)-[~.\w\d-]*|" - r"clang version ([^ )\n]+)|" - # LLDB - r"lldb version ([^ )\n]+)|" - # LLD - r"LLD ([^ )\n]+) \(compatible with GNU linkers\)" - ) - try: - compiler = Executable(exe) - output = compiler("--version", output=str, error=str) - if "Apple" in output: - return None - match = version_regex.search(output) - if match: - return match.group(match.lastindex) - except spack.util.executable.ProcessError: - pass - except Exception as e: - tty.debug(e) - - return None - - @classmethod - def determine_variants(cls, exes, version_str): - variants, compilers = ["+clang"], {} - lld_found, lldb_found = False, False - for exe in exes: - if "clang++" in exe: - compilers["cxx"] = exe - elif "clang" in exe: - compilers["c"] = exe - elif "flang" in exe: - variants.append("+flang") - compilers["fc"] = exe - compilers["f77"] = exe - elif "ld.lld" in exe: - lld_found = True - compilers["ld"] = exe - elif "lldb" in exe: - lldb_found = True - compilers["lldb"] = exe - - variants.append("+lld" if lld_found else "~lld") - variants.append("+lldb" if lldb_found else "~lldb") - - return "".join(variants), {"compilers": compilers} - - @classmethod - def validate_detected_spec(cls, spec, extra_attributes): - # For LLVM 'compilers' is a mandatory attribute - msg = 'the extra attribute "compilers" must be set for ' 'the detected spec "{0}"'.format( - spec - ) - assert "compilers" in extra_attributes, msg - compilers = extra_attributes["compilers"] - for key in ("c", "cxx"): - msg = "{0} compiler not found for {1}" - assert key in compilers, msg.format(key, spec) - - @property - def cc(self): - msg = "cannot retrieve C compiler [spec is not concrete]" - assert self.spec.concrete, msg - if self.spec.external: - return self.spec.extra_attributes["compilers"].get("c", None) - result = None - if "+clang" in self.spec: - result = os.path.join(self.spec.prefix.bin, "clang") - return result - - @property - def cxx(self): - msg = "cannot retrieve C++ compiler [spec is not concrete]" - assert self.spec.concrete, msg - if self.spec.external: - return self.spec.extra_attributes["compilers"].get("cxx", None) - result = None - if "+clang" in self.spec: - result = os.path.join(self.spec.prefix.bin, "clang++") - return result - - @property - def fc(self): - msg = "cannot retrieve Fortran compiler [spec is not concrete]" - assert self.spec.concrete, msg - if self.spec.external: - return self.spec.extra_attributes["compilers"].get("fc", None) - result = None - if "+flang" in self.spec: - result = os.path.join(self.spec.prefix.bin, "flang") - return result - - @property - def f77(self): - msg = "cannot retrieve Fortran 77 compiler [spec is not concrete]" - assert self.spec.concrete, msg - if self.spec.external: - return self.spec.extra_attributes["compilers"].get("f77", None) - result = None - if "+flang" in self.spec: - result = os.path.join(self.spec.prefix.bin, "flang") - return result - - @property - def libs(self): - return LibraryList(self.llvm_config("--libfiles", "all", result="list")) - - @run_before("cmake") - def codesign_check(self): - if self.spec.satisfies("+code_signing"): - codesign = which("codesign") - mkdir("tmp") - llvm_check_file = join_path("tmp", "llvm_check") - copy("/usr/bin/false", llvm_check_file) - try: - codesign("-f", "-s", "lldb_codesign", "--dryrun", llvm_check_file) - - except ProcessError: - # Newer LLVM versions have a simple script that sets up - # automatically when run with sudo priviliges - setup = Executable("./lldb/scripts/macos-setup-codesign.sh") - try: - setup() - except Exception: - raise RuntimeError( - "spack was unable to either find or set up" - "code-signing on your system. Please refer to" - "https://lldb.llvm.org/resources/build.html#" - "code-signing-on-macos for details on how to" - "create this identity." - ) - - def flag_handler(self, name, flags): - if name == "cxxflags": - flags.append(self.compiler.cxx11_flag) - return (None, flags, None) - elif name == "ldflags" and self.spec.satisfies("%intel"): - flags.append("-shared-intel") - return (None, flags, None) - return (flags, None, None) - - def setup_build_environment(self, env): - """When using %clang, add only its ld.lld-$ver and/or ld.lld to our PATH""" - if self.compiler.name in ["clang", "apple-clang"]: - for lld in "ld.lld-{0}".format(self.compiler.version.version[0]), "ld.lld": - bin = os.path.join(os.path.dirname(self.compiler.cc), lld) - sym = os.path.join(self.stage.path, "ld.lld") - if os.path.exists(bin) and not os.path.exists(sym): - mkdirp(self.stage.path) - os.symlink(bin, sym) - env.prepend_path("PATH", self.stage.path) - - def setup_run_environment(self, env): - if "+clang" in self.spec: - env.set("CC", join_path(self.spec.prefix.bin, "clang")) - env.set("CXX", join_path(self.spec.prefix.bin, "clang++")) - if "+flang" in self.spec: - env.set("FC", join_path(self.spec.prefix.bin, "flang")) - env.set("F77", join_path(self.spec.prefix.bin, "flang")) - - root_cmakelists_dir = "llvm" - - def cmake_args(self): - spec = self.spec - define = self.define - from_variant = self.define_from_variant - - python = spec["python"] - cmake_args = [ - define("LLVM_REQUIRES_RTTI", True), - define("LLVM_ENABLE_RTTI", True), - define("LLVM_ENABLE_EH", True), - define("LLVM_ENABLE_LIBXML2", False), - define("CLANG_DEFAULT_OPENMP_RUNTIME", "libomp"), - define("PYTHON_EXECUTABLE", python.command.path), - define("LIBOMP_USE_HWLOC", True), - define("LIBOMP_HWLOC_INSTALL_DIR", spec["hwloc"].prefix), - from_variant("LLVM_ENABLE_ZSTD", "zstd"), - ] - - version_suffix = spec.variants["version_suffix"].value - if version_suffix != "none": - cmake_args.append(define("LLVM_VERSION_SUFFIX", version_suffix)) - - shlib_symbol_version = spec.variants.get("shlib_symbol_version", None) - if shlib_symbol_version is not None and shlib_symbol_version.value != "none": - cmake_args.append(define("LLVM_SHLIB_SYMBOL_VERSION", shlib_symbol_version.value)) - - if python.version >= Version("3"): - cmake_args.append(define("Python3_EXECUTABLE", python.command.path)) - else: - cmake_args.append(define("Python2_EXECUTABLE", python.command.path)) - - projects = [] - runtimes = [] - - if "+cuda" in spec: - cmake_args.extend( - [ - define("CUDA_TOOLKIT_ROOT_DIR", spec["cuda"].prefix), - define( - "LIBOMPTARGET_NVPTX_COMPUTE_CAPABILITIES", - ",".join(spec.variants["cuda_arch"].value), - ), - define( - "CLANG_OPENMP_NVPTX_DEFAULT_ARCH", - "sm_{0}".format(spec.variants["cuda_arch"].value[-1]), - ), - ] - ) - if "+omp_as_runtime" in spec: - cmake_args.extend( - [ - define("LIBOMPTARGET_NVPTX_ENABLE_BCLIB", True), - # work around bad libelf detection in libomptarget - define("LIBOMPTARGET_DEP_LIBELF_INCLUDE_DIR", spec["elf"].prefix.include), - ] - ) - else: - # still build libomptarget but disable cuda - cmake_args.extend( - [ - define("CUDA_TOOLKIT_ROOT_DIR", "IGNORE"), - define("CUDA_SDK_ROOT_DIR", "IGNORE"), - define("CUDA_NVCC_EXECUTABLE", "IGNORE"), - define("LIBOMPTARGET_DEP_CUDA_DRIVER_LIBRARIES", "IGNORE"), - ] - ) - - cmake_args.append(from_variant("LIBOMPTARGET_ENABLE_DEBUG", "omp_debug")) - - if "+lldb" in spec: - projects.append("lldb") - cmake_args.append(define("LLDB_ENABLE_LIBEDIT", True)) - cmake_args.append(define("LLDB_ENABLE_CURSES", True)) - if spec["ncurses"].satisfies("+termlib"): - cmake_args.append(define("LLVM_ENABLE_TERMINFO", True)) - else: - cmake_args.append(define("LLVM_ENABLE_TERMINFO", False)) - cmake_args.append(define("LLDB_ENABLE_LIBXML2", False)) - if spec.version >= Version("10"): - cmake_args.append(from_variant("LLDB_ENABLE_PYTHON", "python")) - else: - cmake_args.append(define("LLDB_DISABLE_PYTHON", "~python" in spec)) - if spec.satisfies("@5.0.0: +python"): - cmake_args.append(define("LLDB_USE_SYSTEM_SIX", True)) - else: - cmake_args.append(define("LLVM_ENABLE_TERMINFO", False)) - - if "+gold" in spec: - cmake_args.append(define("LLVM_BINUTILS_INCDIR", spec["binutils"].prefix.include)) - - if "+clang" in spec: - projects.append("clang") - projects.append("clang-tools-extra") - if "+omp_as_runtime" in spec: - runtimes.append("openmp") - else: - projects.append("openmp") - - if "@8" in spec: - cmake_args.append(from_variant("CLANG_ANALYZER_ENABLE_Z3_SOLVER", "z3")) - elif "@9:" in spec: - cmake_args.append(from_variant("LLVM_ENABLE_Z3_SOLVER", "z3")) - - if "+flang" in spec: - projects.append("flang") - if "+lld" in spec: - projects.append("lld") - if "+compiler-rt" in spec: - if self.spec.satisfies("@15.0.0:"): - runtimes.append("compiler-rt") - else: - projects.append("compiler-rt") - if "+libcxx" in spec: - if self.spec.satisfies("@15.0.0:"): - runtimes.extend(["libcxx", "libcxxabi"]) - else: - projects.extend(["libcxx", "libcxxabi"]) - if "+mlir" in spec: - projects.append("mlir") - if "+internal_unwind" in spec: - if self.spec.satisfies("@15.0.0:"): - runtimes.append("libunwind") - else: - projects.append("libunwind") - if "+polly" in spec: - projects.append("polly") - cmake_args.append(define("LINK_POLLY_INTO_TOOLS", True)) - - cmake_args.extend( - [ - define("BUILD_SHARED_LIBS", False), - from_variant("LLVM_BUILD_LLVM_DYLIB", "llvm_dylib"), - from_variant("LLVM_LINK_LLVM_DYLIB", "link_llvm_dylib"), - from_variant("LLVM_USE_SPLIT_DWARF", "split_dwarf"), - # By default on Linux, libc++.so is a ldscript. CMake fails to add - # CMAKE_INSTALL_RPATH to it, which fails. Statically link libc++abi.a - # into libc++.so, linking with -lc++ or -stdlib=libc++ is enough. - define("LIBCXX_ENABLE_STATIC_ABI_LIBRARY", True), - ] - ) - - cmake_args.append(define("LLVM_TARGETS_TO_BUILD", get_llvm_targets_to_build(spec))) - - cmake_args.append(from_variant("LIBOMP_TSAN_SUPPORT", "omp_tsan")) - - if self.compiler.name == "gcc": - cmake_args.append(define("GCC_INSTALL_PREFIX", self.compiler.prefix)) - - if self.spec.satisfies("~code_signing platform=darwin"): - cmake_args.append(define("LLDB_USE_SYSTEM_DEBUGSERVER", True)) - - # Enable building with CLT [and not require full Xcode] - # https://github.com/llvm/llvm-project/issues/57037 - if self.spec.satisfies("@15.0.0: platform=darwin"): - cmake_args.append(define("BUILTINS_CMAKE_ARGS", "-DCOMPILER_RT_ENABLE_IOS=OFF")) - - # Semicolon seperated list of projects to enable - cmake_args.append(define("LLVM_ENABLE_PROJECTS", projects)) - - # Semicolon seperated list of runtimes to enable - if runtimes: - cmake_args.append(define("LLVM_ENABLE_RUNTIMES", runtimes)) - - return cmake_args - - @run_after("install") - def post_install(self): - spec = self.spec - define = self.define - - # unnecessary if we build openmp via LLVM_ENABLE_RUNTIMES - if "+cuda ~omp_as_runtime" in self.spec: - ompdir = "build-bootstrapped-omp" - prefix_paths = spack.build_environment.get_cmake_prefix_path(self) - prefix_paths.append(str(spec.prefix)) - # rebuild libomptarget to get bytecode runtime library files - with working_dir(ompdir, create=True): - cmake_args = [ - "-G", - "Ninja", - define("CMAKE_BUILD_TYPE", spec.variants["build_type"].value), - define("CMAKE_C_COMPILER", spec.prefix.bin + "/clang"), - define("CMAKE_CXX_COMPILER", spec.prefix.bin + "/clang++"), - define("CMAKE_INSTALL_PREFIX", spec.prefix), - define("CMAKE_PREFIX_PATH", prefix_paths), - ] - cmake_args.extend(self.cmake_args()) - cmake_args.extend( - [ - define("LIBOMPTARGET_NVPTX_ENABLE_BCLIB", True), - define("LIBOMPTARGET_DEP_LIBELF_INCLUDE_DIR", spec["elf"].prefix.include), - self.stage.source_path + "/openmp", - ] - ) - - cmake(*cmake_args) - ninja() - ninja("install") - if "+python" in self.spec: - install_tree("llvm/bindings/python", python_platlib) - - if "+clang" in self.spec: - install_tree("clang/bindings/python", python_platlib) - - with working_dir(self.build_directory): - install_tree("bin", join_path(self.prefix, "libexec", "llvm")) - - def llvm_config(self, *args, **kwargs): - lc = Executable(self.prefix.bin.join("llvm-config")) - if not kwargs.get("output"): - kwargs["output"] = str - ret = lc(*args, **kwargs) - if kwargs.get("result") == "list": - return ret.split() - else: - return ret - - -def get_llvm_targets_to_build(spec): - targets = spec.variants["targets"].value - - # Build everything? - if "all" in targets: - return "all" - - # Convert targets variant values to CMake LLVM_TARGETS_TO_BUILD array. - spack_to_cmake = { - "aarch64": "AArch64", - "amdgpu": "AMDGPU", - "arm": "ARM", - "avr": "AVR", - "bpf": "BPF", - "cppbackend": "CppBackend", - "hexagon": "Hexagon", - "lanai": "Lanai", - "mips": "Mips", - "msp430": "MSP430", - "nvptx": "NVPTX", - "powerpc": "PowerPC", - "riscv": "RISCV", - "sparc": "Sparc", - "systemz": "SystemZ", - "webassembly": "WebAssembly", - "x86": "X86", - "xcore": "XCore", - } - - if "none" in targets: - llvm_targets = set() - else: - llvm_targets = set(spack_to_cmake[target] for target in targets) - - if spec.target.family in ("x86", "x86_64"): - llvm_targets.add("X86") - elif spec.target.family == "arm": - llvm_targets.add("ARM") - elif spec.target.family == "aarch64": - llvm_targets.add("AArch64") - elif spec.target.family in ("sparc", "sparc64"): - llvm_targets.add("Sparc") - elif spec.target.family in ("ppc64", "ppc64le", "ppc", "ppcle"): - llvm_targets.add("PowerPC") - - return list(llvm_targets) diff --git a/repos/backports/packages/llvm/sanitizer-ipc_perm_mode.patch b/repos/backports/packages/llvm/sanitizer-ipc_perm_mode.patch deleted file mode 100644 index 8f91703a..00000000 --- a/repos/backports/packages/llvm/sanitizer-ipc_perm_mode.patch +++ /dev/null @@ -1,9 +0,0 @@ -# ipc_perm.mode is not used and has changed from short to int over architecures -# and versions. The last change was in glibc-2.31. -# LLVM upstream decided to not check ipc_perm.mode below glibc-2.31, -# because it is not actually used in the sanitizer: -# github.com/llvm/llvm-project/commit/947f9692440836dcb8d88b74b69dd379d85974ce ---- a/compiler-rt/lib/sanitizer_common/sanitizer_platform_limits_posix.cc -+++ b/compiler-rt/lib/sanitizer_common/sanitizer_platform_limits_posix.cc -@@ -1143,1 +1143,0 @@ --CHECK_SIZE_AND_OFFSET(ipc_perm, mode); diff --git a/repos/backports/packages/llvm/xray_buffer_queue-cstddef.patch b/repos/backports/packages/llvm/xray_buffer_queue-cstddef.patch deleted file mode 100644 index b5ca841e..00000000 --- a/repos/backports/packages/llvm/xray_buffer_queue-cstddef.patch +++ /dev/null @@ -1,5 +0,0 @@ -# Fix missing std:size_t in 'llvm@4:5' for build with '%clang@7:' ---- a/compiler-rt/lib/xray/xray_buffer_queue.h -+++ b/compiler-rt/lib/xray/xray_buffer_queue.h -@@ -18,0 +18,1 @@ -+#include diff --git a/repos/backports/packages/mesa/0001-disable-gallivm-coroutine-for-libllvm15.patch b/repos/backports/packages/mesa/0001-disable-gallivm-coroutine-for-libllvm15.patch deleted file mode 100644 index 3868052d..00000000 --- a/repos/backports/packages/mesa/0001-disable-gallivm-coroutine-for-libllvm15.patch +++ /dev/null @@ -1,206 +0,0 @@ -From ae9611b4cf3ee3395f0e6a94073120b87ba7c520 Mon Sep 17 00:00:00 2001 -From: sreenivasa murthy kolam -Date: Tue, 24 Jan 2023 17:13:36 -0800 -Subject: [PATCH] Updating patch w.r.t llvm 5.4.0 - ---- - src/gallium/auxiliary/gallivm/lp_bld.h | 51 +++++++++++++- - src/gallium/auxiliary/gallivm/lp_bld_arit.c | 78 ++++++--------------- - 2 files changed, 70 insertions(+), 59 deletions(-) - -diff --git a/src/gallium/auxiliary/gallivm/lp_bld.h b/src/gallium/auxiliary/gallivm/lp_bld.h -index 9144428..e1f6200 100644 ---- a/src/gallium/auxiliary/gallivm/lp_bld.h -+++ b/src/gallium/auxiliary/gallivm/lp_bld.h -@@ -81,10 +81,59 @@ - #define LLVMInsertBasicBlock ILLEGAL_LLVM_FUNCTION - #define LLVMCreateBuilder ILLEGAL_LLVM_FUNCTION - --#if LLVM_VERSION_MAJOR >= 8 -+#if LLVM_VERSION_MAJOR >= 15 -+#define GALLIVM_HAVE_CORO 0 -+#define GALLIVM_USE_NEW_PASS 1 -+#elif LLVM_VERSION_MAJOR >= 8 - #define GALLIVM_HAVE_CORO 1 -+#define GALLIVM_USE_NEW_PASS 0 - #else - #define GALLIVM_HAVE_CORO 0 -+#define GALLIVM_USE_NEW_PASS 0 - #endif - -+#define GALLIVM_COROUTINES (GALLIVM_HAVE_CORO || GALLIVM_USE_NEW_PASS) -+ -+/* LLVM is transitioning to "opaque pointers", and as such deprecates -+ * LLVMBuildGEP, LLVMBuildCall, LLVMBuildLoad, replacing them with -+ * LLVMBuildGEP2, LLVMBuildCall2, LLVMBuildLoad2 respectivelly. -+ * These new functions were added in LLVM 8.0; so for LLVM before 8.0 we -+ * simply forward to the non-opaque-pointer variants. -+ */ -+#if LLVM_VERSION_MAJOR < 8 -+ -+static inline LLVMValueRef -+LLVMBuildGEP2(LLVMBuilderRef B, LLVMTypeRef Ty, -+ LLVMValueRef Pointer, LLVMValueRef *Indices, -+ unsigned NumIndices, const char *Name) -+{ -+ return LLVMBuildGEP(B, Pointer, Indices, NumIndices, Name); -+} -+ -+static inline LLVMValueRef -+LLVMBuildInBoundsGEP2(LLVMBuilderRef B, LLVMTypeRef Ty, -+ LLVMValueRef Pointer, LLVMValueRef *Indices, -+ unsigned NumIndices, const char *Name) -+{ -+ return LLVMBuildInBoundsGEP(B, Pointer, Indices, NumIndices, Name); -+} -+ -+static inline LLVMValueRef -+LLVMBuildLoad2(LLVMBuilderRef B, LLVMTypeRef Ty, -+ LLVMValueRef PointerVal, const char *Name) -+{ -+ LLVMValueRef val = LLVMBuildLoad(B, PointerVal, Name); -+ return LLVMTypeOf(val) == Ty ? val : LLVMBuildBitCast(B, val, Ty, Name); -+} -+ -+static inline LLVMValueRef -+LLVMBuildCall2(LLVMBuilderRef B, LLVMTypeRef Ty, LLVMValueRef Fn, -+ LLVMValueRef *Args, unsigned NumArgs, -+ const char *Name) -+{ -+ return LLVMBuildCall(B, Fn, Args, NumArgs, Name); -+} -+ -+#endif /* LLVM_VERSION_MAJOR < 8 */ -+ - #endif /* LP_BLD_H */ -diff --git a/src/gallium/auxiliary/gallivm/lp_bld_arit.c b/src/gallium/auxiliary/gallivm/lp_bld_arit.c -index 9cff016..1dba199 100644 ---- a/src/gallium/auxiliary/gallivm/lp_bld_arit.c -+++ b/src/gallium/auxiliary/gallivm/lp_bld_arit.c -@@ -391,16 +391,11 @@ lp_build_comp(struct lp_build_context *bld, - return LLVMBuildNot(builder, a, ""); - } - -- if(LLVMIsConstant(a)) -- if (type.floating) -- return LLVMConstFSub(bld->one, a); -- else -- return LLVMConstSub(bld->one, a); -+ -+ if (type.floating) -+ return LLVMBuildFSub(builder, bld->one, a, ""); - else -- if (type.floating) -- return LLVMBuildFSub(builder, bld->one, a, ""); -- else -- return LLVMBuildSub(builder, bld->one, a, ""); -+ return LLVMBuildSub(builder, bld->one, a, ""); - } - - -@@ -479,16 +474,10 @@ lp_build_add(struct lp_build_context *bld, - } - } - -- if(LLVMIsConstant(a) && LLVMIsConstant(b)) -- if (type.floating) -- res = LLVMConstFAdd(a, b); -- else -- res = LLVMConstAdd(a, b); -+ if (type.floating) -+ res = LLVMBuildFAdd(builder, a, b, ""); - else -- if (type.floating) -- res = LLVMBuildFAdd(builder, a, b, ""); -- else -- res = LLVMBuildAdd(builder, a, b, ""); -+ res = LLVMBuildAdd(builder, a, b, ""); - - /* clamp to ceiling of 1.0 */ - if(bld->type.norm && (bld->type.floating || bld->type.fixed)) -@@ -815,16 +804,10 @@ lp_build_sub(struct lp_build_context *bld, - } - } - -- if(LLVMIsConstant(a) && LLVMIsConstant(b)) -- if (type.floating) -- res = LLVMConstFSub(a, b); -- else -- res = LLVMConstSub(a, b); -+ if (type.floating) -+ res = LLVMBuildFSub(builder, a, b, ""); - else -- if (type.floating) -- res = LLVMBuildFSub(builder, a, b, ""); -- else -- res = LLVMBuildSub(builder, a, b, ""); -+ res = LLVMBuildSub(builder, a, b, ""); - - if(bld->type.norm && (bld->type.floating || bld->type.fixed)) - res = lp_build_max_simple(bld, res, bld->zero, GALLIVM_NAN_RETURN_OTHER_SECOND_NONNAN); -@@ -980,29 +963,16 @@ lp_build_mul(struct lp_build_context *bld, - else - shift = NULL; - -- if(LLVMIsConstant(a) && LLVMIsConstant(b)) { -- if (type.floating) -- res = LLVMConstFMul(a, b); -- else -- res = LLVMConstMul(a, b); -- if(shift) { -- if(type.sign) -- res = LLVMConstAShr(res, shift); -- else -- res = LLVMConstLShr(res, shift); -- } -- } -- else { -- if (type.floating) -- res = LLVMBuildFMul(builder, a, b, ""); -+ if (type.floating) -+ res = LLVMBuildFMul(builder, a, b, ""); -+ else -+ res = LLVMBuildMul(builder, a, b, ""); -+ if (shift) { -+ if (type.sign) -+ res = LLVMBuildAShr(builder, res, shift, ""); - else -- res = LLVMBuildMul(builder, a, b, ""); -- if(shift) { -- if(type.sign) -- res = LLVMBuildAShr(builder, res, shift, ""); -- else -- res = LLVMBuildLShr(builder, res, shift, ""); -- } -+ res = LLVMBuildLShr(builder, res, shift, ""); -+ - } - - return res; -@@ -1288,14 +1258,6 @@ lp_build_div(struct lp_build_context *bld, - if(a == bld->undef || b == bld->undef) - return bld->undef; - -- if(LLVMIsConstant(a) && LLVMIsConstant(b)) { -- if (type.floating) -- return LLVMConstFDiv(a, b); -- else if (type.sign) -- return LLVMConstSDiv(a, b); -- else -- return LLVMConstUDiv(a, b); -- } - - /* fast rcp is disabled (just uses div), so makes no sense to try that */ - if(FALSE && -@@ -2646,7 +2608,7 @@ lp_build_rcp(struct lp_build_context *bld, - assert(type.floating); - - if(LLVMIsConstant(a)) -- return LLVMConstFDiv(bld->one, a); -+ return LLVMBuildFDiv(builder, bld->one, a, ""); - - /* - * We don't use RCPPS because: --- -2.22.0 - diff --git a/repos/backports/packages/mesa/handle_missing_set_override_stack_alignment.patch b/repos/backports/packages/mesa/handle_missing_set_override_stack_alignment.patch deleted file mode 100644 index 9e90f120..00000000 --- a/repos/backports/packages/mesa/handle_missing_set_override_stack_alignment.patch +++ /dev/null @@ -1,32 +0,0 @@ -diff --git a/src/gallium/auxiliary/gallivm/lp_bld_misc.cpp b/src/gallium/auxiliary/gallivm/lp_bld_misc.cpp -index be288ab02e2..378381b16ff 100644 ---- a/src/gallium/auxiliary/gallivm/lp_bld_misc.cpp -+++ b/src/gallium/auxiliary/gallivm/lp_bld_misc.cpp -@@ -616,11 +616,23 @@ - return LLVMGetValueKind(v) == LLVMFunctionValueKind; - } - -+// setOverrideStackAlignment if it exists, but SFINAE -+template -+static auto try_set_override_stack_alignment(T* M, unsigned align) -+ -> decltype(M->setOverrideStackAlignment(align)) -+{ -+ M->setOverrideStackAlignment(align); -+} -+ -+template -+static void try_set_override_stack_alignment(T M, unsigned align) -+{ -+// fallback for when setOverrideStackAlignment does not exist -+} -+ - extern "C" void - lp_set_module_stack_alignment_override(LLVMModuleRef MRef, unsigned align) - { --#if LLVM_VERSION_MAJOR >= 13 - llvm::Module *M = llvm::unwrap(MRef); -- M->setOverrideStackAlignment(align); --#endif -+ try_set_override_stack_alignment(M, align); - } - diff --git a/repos/backports/packages/mesa/package.py b/repos/backports/packages/mesa/package.py deleted file mode 100644 index fa0c8ac5..00000000 --- a/repos/backports/packages/mesa/package.py +++ /dev/null @@ -1,306 +0,0 @@ -# Copyright 2013-2023 Lawrence Livermore National Security, LLC and other -# Spack Project Developers. See the top-level COPYRIGHT file for details. -# -# SPDX-License-Identifier: (Apache-2.0 OR MIT) -import sys - -import spack.build_systems.meson -from spack.package import * - - -class Mesa(MesonPackage): - """Mesa is an open-source implementation of the OpenGL specification - - a system for rendering interactive 3D graphics.""" - - homepage = "https://www.mesa3d.org" - maintainerso = ["chuckatkins", "v-dobrev"] - - git = "https://gitlab.freedesktop.org/mesa/mesa.git" - url = "https://archive.mesa3d.org/mesa-20.2.1.tar.xz" - - version("main", tag="main") - version("22.3.2", sha256="c15df758a8795f53e57f2a228eb4593c22b16dffd9b38f83901f76cd9533140b") - version("22.2.5", sha256="850f063146f8ebb262aec04f666c2c1e5623f2a1987dda24e4361b17b912c73b") - version( - "22.1.6", - sha256="22ced061eb9adab8ea35368246c1995c09723f3f71653cd5050c5cec376e671a", - preferred=True, - ) - version("22.1.2", sha256="0971226b4a6a3d10cfc255736b33e4017e18c14c9db1e53863ac1f8ae0deb9ea") - version("22.0.5", sha256="5ee2dc06eff19e19b2867f12eb0db0905c9691c07974f6253f2f1443df4c7a35") - version("22.0.2", sha256="df4fa560dcce6680133067cd15b0505fc424ca703244ce9ab247c74d2fab6885") - version("21.3.8", sha256="e70d273bdc53a4e931871bb5550ba3900e6a3deab2fff64184107c33e92d9da7") - version("21.3.7", sha256="b4fa9db7aa61bf209ef0b40bef83080999d86ad98df8b8b4fada7c128a1efc3d") - version("21.3.1", sha256="2b0dc2540cb192525741d00f706dbc4586349185dafc65729c7fda0800cc474d") - version("21.2.6", sha256="1e7e22d93c6e8859fa044b1121119d26b2e67e4184b92ebb81c66497dc80c954") - version("21.2.5", sha256="8e49585fb760d973723dab6435d0c86f7849b8305b1e6d99f475138d896bacbb") - version("21.2.4", sha256="fe6ede82d1ac02339da3c2ec1820a379641902fd351a52cc01153f76eff85b44") - version("21.2.3", sha256="7245284a159d2484770e1835a673e79e4322a9ddf43b17859668244946db7174") - version("21.2.1", sha256="2c65e6710b419b67456a48beefd0be827b32db416772e0e363d5f7d54dc01787") - version("21.0.3", sha256="565c6f4bd2d5747b919454fc1d439963024fc78ca56fd05158c3b2cde2f6912b") - version("21.0.0", sha256="e6204e98e6a8d77cf9dc5d34f99dd8e3ef7144f3601c808ca0dd26ba522e0d84") - version("20.3.4", sha256="dc21a987ec1ff45b278fe4b1419b1719f1968debbb80221480e44180849b4084") - version("20.2.1", sha256="d1a46d9a3f291bc0e0374600bdcb59844fa3eafaa50398e472a36fc65fd0244a") - - depends_on("meson@0.52:", type="build") - - depends_on("pkgconfig", type="build") - depends_on("bison", type="build") - depends_on("cmake", type="build") - depends_on("flex", type="build") - depends_on("gettext", type="build") - depends_on("python@3:", type="build") - depends_on("py-mako@0.8.0:", type="build") - depends_on("unwind") - depends_on("expat") - depends_on("zlib@1.2.3:") - - # Override the build type variant so we can default to release - variant( - "buildtype", - default="release", - description="Meson build type", - values=("plain", "debug", "debugoptimized", "release", "minsize"), - ) - - # Internal options - variant("llvm", default=True, description="Enable LLVM.") - - # when clauses: - # +llvm - swr requires llvm - # buildtype=release - swr has known assert failures in debug that can be ignored - # @:21 - swr was removed in 22.0 - variant( - "swr", - values=spack.variant.DisjointSetsOfValues( - ("none",), ("auto",), ("avx", "avx2", "knl", "skx") - ) - .with_non_feature_values("auto") - .with_non_feature_values("none") - .with_default("auto"), - when="+llvm buildtype=release @:21", - description="Enable the SWR driver.", - ) - - # Front ends - variant("osmesa", default=True, description="Enable the OSMesa frontend.", when="+opengl") - - is_linux = sys.platform.startswith("linux") - variant("glx", default=is_linux, description="Enable the GLX frontend.", when="+opengl") - - # TODO: effectively deal with EGL. The implications of this have not been - # worked through yet - # variant('egl', default=False, description="Enable the EGL frontend.") - - # TODO: Effectively deal with hardware drivers - # The implication of this is enabling DRI, among other things, and - # needing to check which llvm targets were built (ptx or amdgpu, etc.) - - # Back ends - variant("opengl", default=True, description="Enable full OpenGL support.") - variant("opengles", default=False, description="Enable OpenGL ES support.") - - # Provides - provides("libglx", when="+glx") - - # provides('egl@1.5', when='+egl') - provides("libosmesa", when="+osmesa") - - # Variant dependencies - with when("+llvm"): - depends_on("libllvm@6:") - depends_on("libllvm@:11", when="@:20") - depends_on("libllvm@:12", when="@:21") - - depends_on("libx11", when="+glx") - depends_on("libxcb", when="+glx") - depends_on("libxext", when="+glx") - depends_on("libxt", when="+glx") - depends_on("xrandr", when="+glx") - depends_on("glproto@1.4.14:", when="+glx") - - # version specific issue - # https://gcc.gnu.org/bugzilla/show_bug.cgi?id=96130 - conflicts("%gcc@10.1.0", msg="GCC 10.1.0 has a bug") - - # Require at least 1 front-end - # TODO: Add egl to this conflict once made available - conflicts("~osmesa ~glx") - - # Require at least 1 back-end - # TODO: Add vulkan to this conflict once made available - conflicts("~opengl ~opengles") - - # OpenGL ES requires OpenGL - conflicts("~opengl +opengles") - - # requires native to be added to llvm_modules when using gallium swrast - patch( - "https://cgit.freedesktop.org/mesa/mesa/patch/meson.build?id=054dd668a69acc70d47c73abe4646e96a1f23577", - sha256="36096a178070e40217945e12d542dfe80016cb897284a01114d616656c577d73", - when="@21.0.0:21.0.3", - ) - - # llvm::Module::setOverrideStackAlignment was added in LLVM 13.0.0, but forks based - # on development versions of LLVM 13 may or may not have it. Use SFINAE to detect - # the existence of the function and call it only if it is available. - patch("handle_missing_set_override_stack_alignment.patch", when="@21.2.3:") - - # ROCm 5.3.0 is providing llvm15. Gallivm coroutine is disabled in mesa upstream version - # for llvm-15. Until mesa release is available with this changes below patch is required - # in order to move on with ROCm 5.3.0 and ROCm 5.4.0. - # The revised patch was part of https://gitlab.freedesktop.org/mesa/mesa/-/merge_requests/17518/diffs. - - patch("0001-disable-gallivm-coroutine-for-libllvm15.patch", when="@22.1.2: ^libllvm@15:") - - # Explicitly use the llvm-config tool - def patch(self): - filter_file(r"_llvm_method = 'auto'", "_llvm_method = 'config-tool'", "meson.build") - - def flag_handler(self, name, flags): - if self.spec.satisfies("%intel"): - if name == "cflags": - flags.append("-std=c99") - return super(Mesa, self).flag_handler(name, flags) - - @property - def libglx_headers(self): - return find_headers("GL/glx", root=self.spec.prefix.include, recursive=False) - - @property - def libglx_libs(self): - return find_libraries("libGL", root=self.spec.prefix, recursive=True) - - @property - def libosmesa_headers(self): - return find_headers("GL/osmesa", root=self.spec.prefix.include, recursive=False) - - @property - def libosmesa_libs(self): - if "platform=windows" in self.spec: - lib_name = "osmesa" - else: - lib_name = "libOSMesa" - return find_libraries(lib_name, root=self.spec.prefix, recursive=True) - - -class MesonBuilder(spack.build_systems.meson.MesonBuilder): - def meson_args(self): - spec = self.spec - args = [ - "-Dvulkan-drivers=", - "-Dgallium-vdpau=disabled", - "-Dgallium-omx=disabled", - "-Dgallium-va=disabled", - "-Dgallium-xa=disabled", - "-Dgallium-nine=false", - "-Dgallium-opencl=disabled", - "-Dbuild-tests=false", - "-Dglvnd=false", - ] - # gallium-xvmc was removed in @main and @2.23: - if self.spec.satisfies("@:22.2"): - args.append("-Dgallium-xvmc=disabled") - - args_platforms = [] - args_gallium_drivers = ["swrast"] - args_dri_drivers = [] - - opt_enable = lambda c, o: "-D%s=%sabled" % (o, "en" if c else "dis") - opt_bool = lambda c, o: "-D%s=%s" % (o, str(c).lower()) - if spec.target.family == "arm" or spec.target.family == "aarch64": - args.append("-Dlibunwind=disabled") - - num_frontends = 0 - - if spec.satisfies("@:20.3"): - osmesa_enable, osmesa_disable = ("gallium", "none") - else: - osmesa_enable, osmesa_disable = ("true", "false") - - if "+osmesa" in spec: - num_frontends += 1 - args.append("-Dosmesa={0}".format(osmesa_enable)) - else: - args.append("-Dosmesa={0}".format(osmesa_disable)) - - if "+glx" in spec: - num_frontends += 1 - if "+egl" in spec: - args.append("-Dglx=dri") - else: - if spec.satisfies("@22:"): - args.append("-Dglx=xlib") - else: - args.append("-Dglx=gallium-xlib") - args_platforms.append("x11") - else: - args.append("-Dglx=disabled") - - if "+egl" in spec: - num_frontends += 1 - args.extend(["-Degl=enabled", "-Dgbm=enabled", "-Ddri3=enabled"]) - args_platforms.append("surfaceless") - else: - args.extend(["-Degl=disabled", "-Dgbm=disabled", "-Ddri3=disabled"]) - - args.append(opt_bool("+opengl" in spec, "opengl")) - args.append(opt_enable("+opengles" in spec, "gles1")) - args.append(opt_enable("+opengles" in spec, "gles2")) - - args.append(opt_enable(num_frontends > 1, "shared-glapi")) - - if "+llvm" in spec: - llvm_config = Executable(spec["libllvm"].prefix.bin.join("llvm-config")) - # Fix builds on hosts where /usr/bin/llvm-config-* is found and provides an - # incompatible version. Ensure that the llvm-config of spec['libllvm'] is - # used. - args.append("--native-file") - args.append("meson-native-config.ini") - mkdirp(self.build_directory) - with working_dir(self.build_directory): - with open("meson-native-config.ini", "w") as native_config: - native_config.write("[binaries]\n") - native_config.write("llvm-config = '{0}'\n".format(llvm_config.path)) - args.append("-Dllvm=enabled") - args.append(opt_enable("+llvm_dylib" in spec["libllvm"], "shared-llvm")) - - # Match the llvm rtti setting - if llvm_config("--has-rtti", error=str, output=str).strip() == "YES": - args.append("-Dcpp_rtti=true") - else: - args.append("-Dcpp_rtti=false") - else: - args.append("-Dllvm=disabled") - - args_swr_arches = [] - if "swr=auto" in spec: - if "avx" in spec.target: - args_swr_arches.append("avx") - if "avx2" in spec.target: - args_swr_arches.append("avx2") - if "avx512f" in spec.target: - if "avx512er" in spec.target: - args_swr_arches.append("knl") - if "avx512bw" in spec.target: - args_swr_arches.append("skx") - else: - if "swr=avx" in spec: - args_swr_arches.append("avx") - if "swr=avx2" in spec: - args_swr_arches.append("avx2") - if "swr=knl" in spec: - args_swr_arches.append("knl") - if "swr=skx" in spec: - args_swr_arches.append("skx") - - if args_swr_arches: - args_gallium_drivers.append("swr") - args.append("-Dswr-arches=" + ",".join(args_swr_arches)) - - # Add the remaining list args - args.append("-Dplatforms=" + ",".join(args_platforms)) - args.append("-Dgallium-drivers=" + ",".join(args_gallium_drivers)) - args.append("-Ddri-drivers=" + ",".join(args_dri_drivers)) - - return args diff --git a/repos/backports/packages/meson/oneapi.patch b/repos/backports/packages/meson/oneapi.patch deleted file mode 100644 index e5996261..00000000 --- a/repos/backports/packages/meson/oneapi.patch +++ /dev/null @@ -1,158 +0,0 @@ -diff --git a/docs/markdown/Reference-tables.md b/docs/markdown/Reference-tables.md -index 60303dad6..421b33c07 100644 ---- a/docs/markdown/Reference-tables.md -+++ b/docs/markdown/Reference-tables.md -@@ -20,6 +20,7 @@ These are return values of the `get_id` (Compiler family) and - | gcc | The GNU Compiler Collection | gcc | - | intel | Intel compiler (Linux and Mac) | gcc | - | intel-cl | Intel compiler (Windows) | msvc | -+| intel-llvm| Intel oneAPI LLVM-based compiler | | - | lcc | Elbrus C/C++/Fortran Compiler | | - | llvm | LLVM-based compiler (Swift, D) | | - | mono | Xamarin C# compiler | | -diff --git a/docs/markdown/snippets/oneapi_compilers.md b/docs/markdown/snippets/oneapi_compilers.md -new file mode 100644 -index 000000000..a982da22a ---- /dev/null -+++ b/docs/markdown/snippets/oneapi_compilers.md -@@ -0,0 +1,8 @@ -+## Basic support for oneAPI compilers on Linux -+ -+To use: -+ -+``` -+source /opt/intel/oneapi/setvars.sh -+CC=icx CXX=icpx FC=ifx meson setup builddir -+``` -diff --git a/mesonbuild/compilers/c.py b/mesonbuild/compilers/c.py -index b1b4a7c92..9490ee688 100644 ---- a/mesonbuild/compilers/c.py -+++ b/mesonbuild/compilers/c.py -@@ -406,6 +406,13 @@ class IntelCCompiler(IntelGnuLikeCompiler, CCompiler): - return args - - -+class IntelLLVMCCompiler(ClangCCompiler): -+ -+ -+ id = 'intel-llvm' -+ -+ -+ - class VisualStudioLikeCCompilerMixin(CompilerMixinBase): - - """Shared methods that apply to MSVC-like C compilers.""" -diff --git a/mesonbuild/compilers/cpp.py b/mesonbuild/compilers/cpp.py -index ac65df9a1..3d728f169 100644 ---- a/mesonbuild/compilers/cpp.py -+++ b/mesonbuild/compilers/cpp.py -@@ -153,7 +153,7 @@ class CPPCompiler(CLikeCompiler, Compiler): - } - - # Currently, remapping is only supported for Clang, Elbrus and GCC -- assert self.id in frozenset(['clang', 'lcc', 'gcc', 'emscripten', 'armltdclang']) -+ assert self.id in frozenset(['clang', 'lcc', 'gcc', 'emscripten', 'armltdclang', 'intel-llvm']) - - if cpp_std not in CPP_FALLBACKS: - # 'c++03' and 'c++98' don't have fallback types -@@ -593,6 +593,13 @@ class IntelCPPCompiler(IntelGnuLikeCompiler, CPPCompiler): - return [] - - -+class IntelLLVMCPPCompiler(ClangCPPCompiler): -+ -+ -+ id = 'intel-llvm' -+ -+ -+ - class VisualStudioLikeCPPCompilerMixin(CompilerMixinBase): - - """Mixin for C++ specific method overrides in MSVC-like compilers.""" -diff --git a/mesonbuild/compilers/detect.py b/mesonbuild/compilers/detect.py -index f4afa777d..42a4b18a5 100644 ---- a/mesonbuild/compilers/detect.py -+++ b/mesonbuild/compilers/detect.py -@@ -62,6 +62,7 @@ from .c import ( - EmscriptenCCompiler, - IntelCCompiler, - IntelClCCompiler, -+ IntelLLVMCCompiler, - NvidiaHPC_CCompiler, - PGICCompiler, - CcrxCCompiler, -@@ -83,6 +84,7 @@ from .cpp import ( - EmscriptenCPPCompiler, - IntelCPPCompiler, - IntelClCPPCompiler, -+ IntelLLVMCPPCompiler, - NvidiaHPC_CPPCompiler, - PGICPPCompiler, - CcrxCPPCompiler, -@@ -106,6 +108,7 @@ from .fortran import ( - FlangFortranCompiler, - IntelFortranCompiler, - IntelClFortranCompiler, -+ IntelLLVMFortranCompiler, - NAGFortranCompiler, - Open64FortranCompiler, - PathScaleFortranCompiler, -@@ -180,11 +183,11 @@ else: - defaults['objc'] = ['clang'] - defaults['objcpp'] = ['clang++'] - else: -- defaults['c'] = ['cc', 'gcc', 'clang', 'nvc', 'pgcc', 'icc'] -- defaults['cpp'] = ['c++', 'g++', 'clang++', 'nvc++', 'pgc++', 'icpc'] -+ defaults['c'] = ['cc', 'gcc', 'clang', 'nvc', 'pgcc', 'icc', 'icx'] -+ defaults['cpp'] = ['c++', 'g++', 'clang++', 'nvc++', 'pgc++', 'icpc', 'icpx'] - defaults['objc'] = ['cc', 'gcc', 'clang'] - defaults['objcpp'] = ['c++', 'g++', 'clang++'] -- defaults['fortran'] = ['gfortran', 'flang', 'nvfortran', 'pgfortran', 'ifort', 'g95'] -+ defaults['fortran'] = ['gfortran', 'flang', 'nvfortran', 'pgfortran', 'ifort', 'ifx', 'g95'] - defaults['cs'] = ['mcs', 'csc'] - defaults['d'] = ['ldc2', 'ldc', 'gdc', 'dmd'] - defaults['java'] = ['javac'] -@@ -617,6 +620,12 @@ def _detect_c_or_cpp_compiler(env: 'Environment', lang: str, for_machine: Machin - return cls( - ccache + compiler, version, for_machine, is_cross, info, - exe_wrap, full_version=full_version, linker=l) -+ if 'Intel(R) oneAPI' in out: -+ cls = IntelLLVMCCompiler if lang == 'c' else IntelLLVMCPPCompiler -+ l = guess_nix_linker(env, compiler, cls, version, for_machine) -+ return cls( -+ ccache + compiler, version, for_machine, is_cross, info, -+ exe_wrap, full_version=full_version, linker=l) - if 'TMS320C2000 C/C++' in out or 'MSP430 C/C++' in out or 'TI ARM C/C++ Compiler' in out: - lnk: T.Union[T.Type[C2000DynamicLinker], T.Type[TIDynamicLinker]] - if 'TMS320C2000 C/C++' in out: -@@ -789,6 +798,13 @@ def detect_fortran_compiler(env: 'Environment', for_machine: MachineChoice) -> C - compiler, version, for_machine, is_cross, info, - exe_wrap, full_version=full_version, linker=linker) - -+ if 'ifx (IFORT)' in out: -+ cls = IntelLLVMFortranCompiler -+ linker = guess_nix_linker(env, compiler, cls, version, for_machine) -+ return cls( -+ compiler, version, for_machine, is_cross, info, -+ exe_wrap, full_version=full_version, linker=linker) -+ - if 'PathScale EKOPath(tm)' in err: - return PathScaleFortranCompiler( - compiler, version, for_machine, is_cross, info, -diff --git a/mesonbuild/compilers/fortran.py b/mesonbuild/compilers/fortran.py -index 0a0c3ec86..e7154fe87 100644 ---- a/mesonbuild/compilers/fortran.py -+++ b/mesonbuild/compilers/fortran.py -@@ -352,6 +352,12 @@ class IntelFortranCompiler(IntelGnuLikeCompiler, FortranCompiler): - return ['-gen-dep=' + outtarget, '-gen-depformat=make'] - - -+class IntelLLVMFortranCompiler(IntelFortranCompiler): -+ -+ -+ id = 'intel-llvm' -+ -+ - class IntelClFortranCompiler(IntelVisualStudioLikeCompiler, FortranCompiler): - - file_suffixes = ('f90', 'f', 'for', 'ftn', 'fpp', ) diff --git a/repos/backports/packages/meson/package.py b/repos/backports/packages/meson/package.py deleted file mode 100644 index a992a427..00000000 --- a/repos/backports/packages/meson/package.py +++ /dev/null @@ -1,95 +0,0 @@ -# Copyright 2013-2023 Lawrence Livermore National Security, LLC and other -# Spack Project Developers. See the top-level COPYRIGHT file for details. -# -# SPDX-License-Identifier: (Apache-2.0 OR MIT) - - -from spack.package import * - - -class Meson(PythonPackage): - """Meson is a portable open source build system meant to be both - extremely fast, and as user friendly as possible.""" - - homepage = "https://mesonbuild.com/" - url = "https://github.com/mesonbuild/meson/archive/0.49.0.tar.gz" - - tags = ["build-tools"] - - maintainers = ["eli-schwartz", "michaelkuhn"] - - version("1.0.1", sha256="4ab3a5c0060dc22bdefb04507efc6c38acb910e91bcd467a38e1fa211e5a6cfe") - version("1.0.0", sha256="a2ada84d43c7e57400daee80a880a1f5003d062b2cb6c9be1747b0db38f2eb8d") - version("0.64.1", sha256="1d12a4bc1cf3ab18946d12cf0b6452e5254ada1ad50aacc97f87e2cccd7da315") - version("0.64.0", sha256="6477993d781b6efea93091616a6d6a0766c0e026076dbeb11249bf1c9b49a347") - version("0.63.3", sha256="7c516c2099b762203e8a0a22412aa465b7396e6f9b1ab728bad6e6db44dc2659") - version("0.63.2", sha256="023a3f7c74e68991154c3205a6975705861eedbf8130e013d15faa1df1af216e") - version("0.63.1", sha256="f355829f0e8c714423f03a06604c04c216d4cbe3586f3154cb2181076b19207a") - version("0.62.2", sha256="97108f4d9bb16bc758c44749bd25ec7d42c6a762961efbed8b7589a2a3551ea6") - version("0.62.1", sha256="9fb52e66dbc613479a5f70e46cc2e8faf5aa65e09313f2c71fa63b8afd018107") - version("0.62.0", sha256="72ac3bab701dfd597604de29cc74baaa1cc0ad8ca26ae23d5288de26abfe1c80") - version("0.61.4", sha256="c9cc34bcb15c19cfd5ee0d7b07111152701f602db2b59ef6b63d3628e0bbe719") - version("0.61.2", sha256="33cd555314a94d52acfbb3f6f44d4e61c4ad0bfec7acf4301be7e40bb969b3a8") - version("0.60.3", sha256="6c191a9b4049e0c9a2a7d1275ab635b91f6ffec1912d75df4c5ec6acf35f74fe") - version("0.60.0", sha256="5672a560fc4094c88ca5b8be0487e099fe84357e5045f5aecf1113084800e6fd") - version("0.59.2", sha256="e6d5ccd503d41f938f6cfc4dc9e7326ffe28acabe091b1ff0c6535bdf09732dd") - version("0.59.1", sha256="f256eb15329a6064f8cc1f23b29de1fa8d21e324f939041e1a4efe77cf1362ef") - version("0.59.0", sha256="fdbbe8ea8a47f9e21cf4f578f85be8ec3d9c030df3d8cb17df1ae59d8683813a") - version("0.58.2", sha256="58115604dea9c1f70811578df3c210f4d67cf795d21a4418f6e9bb35406953f5") - version("0.58.1", sha256="78e0f553dd3bc632d5f96ab943b1bbccb599c2c84ff27c5fb7f7fff9c8a3f6b4") - version("0.58.0", sha256="991b882bfe4d37acc23c064a29ca209458764a580d52f044f3d50055a132bed4") - version("0.57.2", sha256="cd3773625253df4fd1c380faf03ffae3d02198d6301e7c8bc7bba6c66af66096") - version("0.57.1", sha256="0c043c9b5350e9087cd4f6becf6c0d10b1d618ca3f919e0dcca2cdf342360d5d") - version("0.57.0", sha256="fd26a27c1a509240c668ebd29d280649d9239cf8684ead51d5cb499d1e1188bd") - version("0.56.2", sha256="aaae961c3413033789248ffe6762589e80b6cf487c334d0b808e31a32c48f35f") - version("0.56.0", sha256="a9ca7adf66dc69fbb7e583f7c7aef16b9fe56ec2874a3d58747e69a3affdf300") - version("0.55.3", sha256="2b276df50c5b13ccdbfb14d3333141e9e7985aca31b60400b3f3e0be2ee6897e") - version("0.55.2", sha256="56244896e56c2b619f819d047b6de412ecc5250975ee8717f1e329113d178e06") - version("0.55.1", sha256="c7ebf2fff5934a974c7edd1aebb5fc9c3e1da5ae3184a29581fde917638eea39") - version("0.55.0", sha256="9034c943c8cf4d734c0e18e5ba038dd762fcdcc614c45b41703305da8382e90c") - version("0.54.3", sha256="c25caff342b5368bfe33fab6108f454fcf12e2f2cef70817205872ddef669e8b") - version("0.54.2", sha256="85cafdc70ae7d1d9d506e7356b917c649c4df2077bd6a0382db37648aa4ecbdb") - version("0.54.1", sha256="854e8b94ab36e5aece813d2b2aee8a639bd52201dfea50890722ac9128e2f59e") - version("0.54.0", sha256="95efdbaa7cb3e915ab9a7b26b1412475398fdc3e834842a780f1646c7764f2d9") - version("0.53.2", sha256="eab4f5d5dde12d002b7ddd958a9a0658589b63622b6cea2715e0235b95917888") - version("0.49.1", sha256="a944e7f25a2bc8e4ba3502ab5835d8a8b8f2530415c9d6fcffb53e0abaea2ced") - version("0.49.0", sha256="11bc959e7173e714e4a4e85dd2bd9d0149b0a51c8ba82d5f44cc63735f603c74") - version("0.42.0", sha256="6c318a2da3859326a37f8a380e3c50e97aaabff6990067218dffffea674ed76f") - version("0.41.2", sha256="2daf448d3f2479d60e30617451f09bf02d26304dd1bd12ee1de936a53e42c7a4") - version("0.41.1", sha256="a48901f02ffeb9ff5cf5361d71b1fca202f9cd72998043ad011fc5de0294cf8b") - - depends_on("python@3.7:", when="@0.62.0:", type=("build", "run")) - depends_on("python@3.6:", when="@0.57.0:", type=("build", "run")) - depends_on("python@3.5:", type=("build", "run")) - depends_on("py-setuptools@42:", when="@0.62.0:", type=("build", "run")) - depends_on("py-setuptools", type=("build", "run")) - depends_on("ninja@1.8.2:", when="@0.62.0:", type="run") - depends_on("ninja", type="run") - - # By default, Meson strips the rpath on installation. This patch disables - # rpath modification completely to make sure that Spack's rpath changes - # are not reverted. - patch("rpath-0.49.patch", when="@0.49:0.53") - patch("rpath-0.54.patch", when="@0.54:0.55") - patch("rpath-0.56.patch", when="@0.56:0.57") - patch("rpath-0.58.patch", when="@0.58:0.63") - patch("rpath-0.64.patch", when="@0.64:") - - # Intel OneAPI compiler support - # https://github.com/mesonbuild/meson/pull/10909 - # https://github.com/mesonbuild/meson/pull/9850 - patch("oneapi.patch", when="@0.62:0.63 %oneapi") - - executables = ["^meson$"] - - @classmethod - def determine_version(cls, exe): - return Executable(exe)("--version", output=str, error=str).rstrip() - - def setup_dependent_build_environment(self, env, dependent_spec): - # https://github.com/pybind/pybind11/issues/595 - if self.spec.satisfies("platform=darwin"): - env.set("STRIP", "strip -x") - - def setup_dependent_package(self, module, dspec): - module.meson = Executable(self.spec.prefix.bin.meson) diff --git a/repos/backports/packages/meson/rpath-0.49.patch b/repos/backports/packages/meson/rpath-0.49.patch deleted file mode 100644 index 05b4d142..00000000 --- a/repos/backports/packages/meson/rpath-0.49.patch +++ /dev/null @@ -1,20 +0,0 @@ ---- a/mesonbuild/scripts/depfixer.py -+++ b/mesonbuild/scripts/depfixer.py -@@ -15,6 +15,7 @@ - - import sys, struct - import shutil, subprocess -+import os - - from ..mesonlib import OrderedSet - -@@ -429,6 +430,9 @@ def fix_jar(fname): - subprocess.check_call(['jar', 'ufm', fname, 'META-INF/MANIFEST.MF']) - - def fix_rpath(fname, new_rpath, final_path, install_name_mappings, verbose=True): -+ # Do not strip rpath when run from within Spack -+ if 'SPACK_RPATH_DIRS' in os.environ: -+ return - # Static libraries never have rpaths - if fname.endswith('.a'): - return diff --git a/repos/backports/packages/meson/rpath-0.54.patch b/repos/backports/packages/meson/rpath-0.54.patch deleted file mode 100644 index 110e9106..00000000 --- a/repos/backports/packages/meson/rpath-0.54.patch +++ /dev/null @@ -1,20 +0,0 @@ ---- a/mesonbuild/scripts/depfixer.py -+++ b/mesonbuild/scripts/depfixer.py -@@ -15,6 +15,7 @@ - - import sys, struct - import shutil, subprocess -+import os - - from ..mesonlib import OrderedSet - -@@ -432,6 +433,9 @@ def fix_jar(fname): - - def fix_rpath(fname, new_rpath, final_path, install_name_mappings, verbose=True): - global INSTALL_NAME_TOOL -+ # Do not strip rpath when run from within Spack -+ if 'SPACK_RPATH_DIRS' in os.environ: -+ return - # Static libraries, import libraries, debug information, headers, etc - # never have rpaths - # DLLs and EXE currently do not need runtime path fixing diff --git a/repos/backports/packages/meson/rpath-0.56.patch b/repos/backports/packages/meson/rpath-0.56.patch deleted file mode 100644 index c1886555..00000000 --- a/repos/backports/packages/meson/rpath-0.56.patch +++ /dev/null @@ -1,20 +0,0 @@ ---- a/mesonbuild/scripts/depfixer.py 2020-10-30 03:25:24.000000000 -0500 -+++ b/mesonbuild/scripts/depfixer.py 2020-11-01 14:24:44.000000000 -0600 -@@ -13,6 +13,7 @@ - # limitations under the License. - - -+import os - import sys, struct - import shutil, subprocess - import typing as T -@@ -454,6 +455,9 @@ - - def fix_rpath(fname: str, rpath_dirs_to_remove: T.List[bytes], new_rpath: T.Union[str, bytes], final_path: str, install_name_mappings: T.Dict[str, str], verbose: bool = True) -> None: - global INSTALL_NAME_TOOL -+ # Do not strip rpath when run from within Spack -+ if 'SPACK_RPATH_DIRS' in os.environ: -+ return - # Static libraries, import libraries, debug information, headers, etc - # never have rpaths - # DLLs and EXE currently do not need runtime path fixing diff --git a/repos/backports/packages/meson/rpath-0.58.patch b/repos/backports/packages/meson/rpath-0.58.patch deleted file mode 100644 index 9e35933e..00000000 --- a/repos/backports/packages/meson/rpath-0.58.patch +++ /dev/null @@ -1,12 +0,0 @@ ---- a/mesonbuild/scripts/depfixer.py 2021-05-11 21:50:38.800645669 +0200 -+++ b/mesonbuild/scripts/depfixer.py 2021-05-11 21:51:44.503883473 +0200 -@@ -479,6 +479,9 @@ - - def fix_rpath(fname: str, rpath_dirs_to_remove: T.Set[bytes], new_rpath: T.Union[str, bytes], final_path: str, install_name_mappings: T.Dict[str, str], verbose: bool = True) -> None: - global INSTALL_NAME_TOOL -+ # Do not strip rpath when run from within Spack -+ if 'SPACK_RPATH_DIRS' in os.environ: -+ return - # Static libraries, import libraries, debug information, headers, etc - # never have rpaths - # DLLs and EXE currently do not need runtime path fixing diff --git a/repos/backports/packages/meson/rpath-0.64.patch b/repos/backports/packages/meson/rpath-0.64.patch deleted file mode 100644 index df69287c..00000000 --- a/repos/backports/packages/meson/rpath-0.64.patch +++ /dev/null @@ -1,12 +0,0 @@ ---- a/mesonbuild/scripts/depfixer.py 2021-05-11 21:50:38.800645669 +0200 -+++ b/mesonbuild/scripts/depfixer.py 2021-05-11 21:51:44.503883473 +0200 -@@ -479,6 +479,9 @@ - - def fix_rpath(fname: str, rpath_dirs_to_remove: T.Set[bytes], new_rpath: T.Union[str, bytes], final_path: str, install_name_mappings: T.Dict[str, str], verbose: bool = True) -> None: - global INSTALL_NAME_TOOL # pylint: disable=global-statement -+ # Do not strip rpath when run from within Spack -+ if 'SPACK_RPATH_DIRS' in os.environ: -+ return - # Static libraries, import libraries, debug information, headers, etc - # never have rpaths - # DLLs and EXE currently do not need runtime path fixing diff --git a/repos/backports/packages/minimap2/package.py b/repos/backports/packages/minimap2/package.py deleted file mode 100644 index e84bb540..00000000 --- a/repos/backports/packages/minimap2/package.py +++ /dev/null @@ -1,34 +0,0 @@ -# Copyright 2013-2023 Lawrence Livermore National Security, LLC and other -# Spack Project Developers. See the top-level COPYRIGHT file for details. -# -# SPDX-License-Identifier: (Apache-2.0 OR MIT) - -from spack.package import * - - -class Minimap2(PythonPackage): - """Minimap2 is a versatile sequence alignment program that aligns DNA or - mRNA sequences against a large reference database. - Mappy provides a convenient interface to minimap2.""" - - homepage = "https://github.com/lh3/minimap2" - url = "https://github.com/lh3/minimap2/releases/download/v2.2/minimap2-2.2.tar.bz2" - - version("2.26", sha256="6a588efbd273bff4f4808d5190957c50272833d2daeb4407ccf4c1b78143624c") - version("2.14", sha256="9088b785bb0c33488ca3a27c8994648ce21a8be54cb117f5ecee26343facd03b") - version("2.10", sha256="52b36f726ec00bfca4a2ffc23036d1a2b5f96f0aae5a92fd826be6680c481c20") - version("2.2", sha256="7e8683aa74c4454a8cfe3821f405c4439082e24c152b4b834fdb56a117ecaed9") - - conflicts("target=aarch64:", when="@:2.10") - depends_on("zlib-api", type="link") - depends_on("py-setuptools", type="build") - depends_on("py-cython", type="build") - - @run_after("install") - def install_minimap2(self): - make_arg = [] - if self.spec.target.family == "aarch64": - make_arg.extend(["arm_neon=1", "aarch64=1"]) - make(*make_arg) - mkdirp(prefix.bin) - install("minimap2", prefix.bin) diff --git a/repos/backports/packages/node-js/package.py b/repos/backports/packages/node-js/package.py deleted file mode 100644 index 798aabc9..00000000 --- a/repos/backports/packages/node-js/package.py +++ /dev/null @@ -1,168 +0,0 @@ -# Copyright 2013-2023 Lawrence Livermore National Security, LLC and other -# Spack Project Developers. See the top-level COPYRIGHT file for details. -# -# SPDX-License-Identifier: (Apache-2.0 OR MIT) -# -# BACKPORT: ddecf070454c3440c3342ab92f067b71c52a8336 -# - -import subprocess -import sys - -from spack.package import * - - -class NodeJs(Package): - """Node.js is an open-source, cross-platform JavaScript runtime environment.""" - - homepage = "https://nodejs.org/" - url = "https://nodejs.org/dist/v13.5.0/node-v13.5.0.tar.gz" - list_url = "https://nodejs.org/dist/" - list_depth = 1 - - #maintainers("cosmicexplorer") - - # Current (latest features) - odd major number - version("19.2.0", sha256="aac9d1a366fb57d68f4639f9204d1de5d6387656959a97ed929a5ba9e62c033a") - version("15.3.0", sha256="cadfa384a5f14591b84ce07a1afe529f28deb0d43366fb0ae4e78afba96bfaf2") - version("13.8.0", sha256="815b5e1b18114f35da89e4d98febeaba97555d51ef593bd5175db2b05f2e8be6") - version("13.5.0", sha256="4b8078d896a7550d7ed399c1b4ac9043e9f883be404d9b337185c8d8479f2db8") - - # LTS (recommended for most users) - even major number - version( - "18.12.1", - sha256="ba8174dda00d5b90943f37c6a180a1d37c861d91e04a4cb38dc1c0c74981c186", - preferred=True, - ) - version("16.18.1", sha256="3d24c9c3a953afee43edc44569045eda56cd45cd58b0539922d17da62736189c") - version("14.21.1", sha256="76ba961536dc11e4dfd9b198c61ff3399e655eca959ae4b66d926f29bfcce9d3") - version("14.16.1", sha256="5f5080427abddde7f22fd2ba77cd2b8a1f86253277a1eec54bc98a202728ce80") - version("14.15.1", sha256="a1120472bf55aea745287693a6651e16973e1008c9d6107df350126adf9716fe") - version("14.13.0", sha256="8538b2e76aa06ee0e6eb1c118426c3c5ca53b2e49d66591738eacf76e89edd61") - version("14.10.0", sha256="7e0d7a1aa23697415e3588a1ca4f1c47496e6c88b9cf37c66be90353d3e4ac3e") - version("12.18.4", sha256="a802d87e579e46fc52771ed6f2667048320caca867be3276f4c4f1bbb41389c3") - version("12.18.3", sha256="6ea85f80e01b007cc9b566b8836513bc5102667d833bad4c1092be60fa60c2d4") - version("12.16.0", sha256="ae2dfe74485d821d4fef7cf1802acd2322cd994c853a2327c4306952f4453441") - version("12.14.0", sha256="5c1939867228f3845c808ef84a89c8ee93cc35f857bf7587ecee1b5a6d9da67b") - - variant("debug", default=False, description="Include debugger support") - variant("doc", default=False, description="Compile with documentation") - variant( - "icu4c", - default=False, - description="Build with support for all locales instead of just English", - ) - variant( - "openssl", - default=True, - description="Build with Spacks OpenSSL instead of the bundled version", - ) - variant( - "zlib", default=True, description="Build with Spacks zlib instead of the bundled version" - ) - - # https://github.com/nodejs/node/blob/master/BUILDING.md#unix-and-macos - depends_on("gmake@3.81:", type="build") - depends_on("python@3.6:3.11", when="@19.1:", type="build") - depends_on("python@3.6:3.10", when="@16.11:19.0", type="build") - depends_on("python@3.6:3.9", when="@16.0:16.10", type="build") - depends_on("python@2.7,3.5:3.8", when="@15", type="build") - depends_on("python@2.7,3.6:3.10", when="@14.18.2:14", type="build") - depends_on("python@2.7,3.5:3.8", when="@13.1:14.18.1", type="build") - depends_on("python@2.7,3.5:3.7", when="@12:13.0", type="build") - depends_on("libtool", type="build", when=sys.platform != "darwin") - depends_on("pkgconfig", type="build") - # depends_on('bash-completion', when="+bash-completion") - depends_on("icu4c", when="+icu4c") - depends_on("openssl@1.1:", when="+openssl") - depends_on("zlib", when="+zlib") - - phases = ["configure", "build", "install"] - - # https://github.com/spack/spack/issues/19310 - conflicts( - "%gcc@:4.8", - msg="fails to build with gcc 4.8 (see https://github.com/spack/spack/issues/19310", - ) - - def setup_build_environment(self, env): - # Force use of experimental Python 3 support - env.set("PYTHON", self.spec["python"].command.path) - env.set("NODE_GYP_FORCE_PYTHON", self.spec["python"].command.path) - - def configure_args(self): - # On macOS, the system libtool must be used - # So, we ensure that this is the case by... - if sys.platform == "darwin": - # Possible output formats: - # - # /usr/bin/libtool - process_pipe = subprocess.Popen(["which", "libtool"], stdout=subprocess.PIPE) - result_which = process_pipe.communicate()[0].strip() - - # Possible output formats: - # - # /usr/bin/libtool - # libtool: /usr/bin/libtool - # libtool: /usr/bin/libtool /Applications/Xcode.app/.../share/man/man1/libtool.1 - process_pipe = subprocess.Popen(["whereis", "libtool"], stdout=subprocess.PIPE) - result_whereis_list = process_pipe.communicate()[0].strip().split() - if len(result_whereis_list) == 1: - result_whereis = result_whereis_list[0] - else: - result_whereis = result_whereis_list[1] - - assert result_which == result_whereis, ( - "On macOS the system libtool must be used. Please (temporarily) remove " - "\n or its link to libtool from PATH" - ) - - args = [ - "--prefix={0}".format(self.prefix), - # Note: npm is updated more regularly than node.js, so we build - # the package instead of using the bundled version - "--without-npm", - ] - - if "+debug" in self.spec: - args.append("--debug") - - if "+openssl" in self.spec: - args.extend( - [ - "--shared-openssl", - "--shared-openssl-includes={0}".format(self.spec["openssl"].prefix.include), - "--shared-openssl-libpath={0}".format(self.spec["openssl"].prefix.lib), - ] - ) - - if "+zlib" in self.spec: - args.extend( - [ - "--shared-zlib", - "--shared-zlib-includes={0}".format(self.spec["zlib"].prefix.include), - "--shared-zlib-libpath={0}".format(self.spec["zlib"].prefix.lib), - ] - ) - - if "+icu4c" in self.spec: - args.append("--with-intl=full-icu") - - return args - - def configure(self, spec, prefix): - python("configure.py", *self.configure_args()) - - def build(self, spec, prefix): - make() - if "+doc" in spec: - make("doc") - - @run_after("build") - @on_package_attributes(run_tests=True) - def build_test(self): - make("test") - make("test-addons") - - def install(self, spec, prefix): - make("install") diff --git a/repos/backports/packages/nvhpc/package.py b/repos/backports/packages/nvhpc/package.py deleted file mode 100644 index 9cef81b3..00000000 --- a/repos/backports/packages/nvhpc/package.py +++ /dev/null @@ -1,448 +0,0 @@ -# Copyright 2013-2023 Lawrence Livermore National Security, LLC and other -# Spack Project Developers. See the top-level COPYRIGHT file for details. -# -# SPDX-License-Identifier: (Apache-2.0 OR MIT) -# -# Copyright (c) 2020, NVIDIA CORPORATION. All rights reserved. - -import platform - -from spack.package import * -from spack.util.prefix import Prefix - -# FIXME Remove hack for polymorphic versions -# This package uses a ugly hack to be able to dispatch, given the same -# version, to different binary packages based on the platform that is -# running spack. See #13827 for context. -# If you need to add a new version, please be aware that: -# - versions in the following dict are automatically added to the package -# - version tuple must be in the form (checksum, url) -# - checksum must be sha256 -# - package key must be in the form '{os}-{arch}' where 'os' is in the -# format returned by platform.system() and 'arch' by platform.machine() -_versions = { - "23.1": { - "Linux-aarch64": ( - "5b430e03752954ea62ac1c745b1735cfdaa43b2e981a9412c1465ecb0412fff6", - "https://developer.download.nvidia.com/hpc-sdk/23.1/nvhpc_2023_231_Linux_aarch64_cuda_multi.tar.gz", - ), - "Linux-ppc64le": ( - "81759e7c747bf4f552b75e7657301f76ecc0828b94fe860f81108c6e83e6ad2b", - "https://developer.download.nvidia.com/hpc-sdk/23.1/nvhpc_2023_231_Linux_ppc64le_cuda_multi.tar.gz", - ), - "Linux-x86_64": ( - "55a064415f6d4ce6a01823ee27ebd266f4fb579679871e7c1a7c054bdc18e9f5", - "https://developer.download.nvidia.com/hpc-sdk/23.1/nvhpc_2023_231_Linux_x86_64_cuda_multi.tar.gz", - ), - }, - "22.11": { - "Linux-aarch64": ( - "e60e798657c33b06754d33dfd5ab3bea2882d4a9b9476102303edf2bbe3b7a95", - "https://developer.download.nvidia.com/hpc-sdk/22.11/nvhpc_2022_2211_Linux_aarch64_cuda_multi.tar.gz", - ), - "Linux-ppc64le": ( - "ef800203cf6040b3a5df24f19944b272f62caee8362875bcb394e86dc1de2353", - "https://developer.download.nvidia.com/hpc-sdk/22.11/nvhpc_2022_2211_Linux_ppc64le_cuda_multi.tar.gz", - ), - "Linux-x86_64": ( - "cb91b3a04368457d5cfe3c0e9c0611591fdc8076b01ea977343fe7db7fdcfa3c", - "https://developer.download.nvidia.com/hpc-sdk/22.11/nvhpc_2022_2211_Linux_x86_64_cuda_multi.tar.gz", - ), - }, - "22.9": { - "Linux-aarch64": ( - "bc4473f04b49bc9a26f08c17a72360650ddf48a3b6eefacdc525d79c8d730f30", - "https://developer.download.nvidia.com/hpc-sdk/22.9/nvhpc_2022_229_Linux_aarch64_cuda_multi.tar.gz", - ), - "Linux-ppc64le": ( - "9aac31d36bb09f6653544978021f5b78c272112e7748871566f7e930f5e7475b", - "https://developer.download.nvidia.com/hpc-sdk/22.9/nvhpc_2022_229_Linux_ppc64le_cuda_multi.tar.gz", - ), - "Linux-x86_64": ( - "aebfeb826ace3dabf9699f72390ca0340f8789a8ef6fe4032e3c7b794f073ea3", - "https://developer.download.nvidia.com/hpc-sdk/22.9/nvhpc_2022_229_Linux_x86_64_cuda_multi.tar.gz", - ), - }, - "22.7": { - "Linux-aarch64": ( - "2aae3fbfd2d0d2d09448a36166c42311368f5600c7c346f159c280b412fe924a", - "https://developer.download.nvidia.com/hpc-sdk/22.7/nvhpc_2022_227_Linux_aarch64_cuda_multi.tar.gz", - ), - "Linux-ppc64le": ( - "6dd4fd382c22769e4fa9508714119abd7d1df3dc58c69414a14b0b0dbc34564f", - "https://developer.download.nvidia.com/hpc-sdk/22.7/nvhpc_2022_227_Linux_ppc64le_cuda_multi.tar.gz", - ), - "Linux-x86_64": ( - "3ce1c346f8bc7e50defb41c545c8907fdc012ff60b27eb8985cf3213f19d863a", - "https://developer.download.nvidia.com/hpc-sdk/22.7/nvhpc_2022_227_Linux_x86_64_cuda_multi.tar.gz", - ), - }, - "22.5": { - "Linux-aarch64": ( - "ceeee84e6227e973ad1beded6008d330e3790f7c4598b948fa530fedfa830a16", - "https://developer.download.nvidia.com/hpc-sdk/22.5/nvhpc_2022_225_Linux_aarch64_cuda_multi.tar.gz", - ), - "Linux-ppc64le": ( - "54d1e45664352d0f9f85ab476dd39496dd1b290e0e1221d3bf63afb940dbe16d", - "https://developer.download.nvidia.com/hpc-sdk/22.5/nvhpc_2022_225_Linux_ppc64le_cuda_multi.tar.gz", - ), - "Linux-x86_64": ( - "7674bcf7a77570fafee5b8299959c9e998a9a10bb27904335cf1a58b71766137", - "https://developer.download.nvidia.com/hpc-sdk/22.5/nvhpc_2022_225_Linux_x86_64_cuda_multi.tar.gz", - ), - }, - "22.3": { - "Linux-aarch64": ( - "e0ea1cbb726556f6879f4b5dfe17238f8e7680c772368577945a85c0e08328f0", - "https://developer.download.nvidia.com/hpc-sdk/22.3/nvhpc_2022_223_Linux_aarch64_cuda_multi.tar.gz", - ), - "Linux-ppc64le": ( - "5e80db6010adc85fe799dac961ae69e43fdf18d35243666c96a70ecdb80bd280", - "https://developer.download.nvidia.com/hpc-sdk/22.3/nvhpc_2022_223_Linux_ppc64le_cuda_multi.tar.gz", - ), - "Linux-x86_64": ( - "bc60a6faf2237bf20550718f71079a714563fa85df62c341cb833f70eb2fe7bb", - "https://developer.download.nvidia.com/hpc-sdk/22.3/nvhpc_2022_223_Linux_x86_64_cuda_multi.tar.gz", - ), - }, - "22.2": { - "Linux-aarch64": ( - "a8241d1139a768d9a0066d1853748160e4098253024e17e997983884d0d33a19", - "https://developer.download.nvidia.com/hpc-sdk/22.2/nvhpc_2022_222_Linux_aarch64_cuda_multi.tar.gz", - ), - "Linux-ppc64le": ( - "f84f72423452968d5bbe02e297f188682c4759864a736a72b32acb3433db3a26", - "https://developer.download.nvidia.com/hpc-sdk/22.2/nvhpc_2022_222_Linux_ppc64le_cuda_multi.tar.gz", - ), - "Linux-x86_64": ( - "8dfb4007d6912b2722946358ac69409592c1f03426d81971ffbcb6fc5fea2cb8", - "https://developer.download.nvidia.com/hpc-sdk/22.2/nvhpc_2022_222_Linux_x86_64_cuda_multi.tar.gz", - ), - }, - "22.1": { - "Linux-aarch64": ( - "05cfa8c520a34eab01272a261b157d421a9ff7129fca7d859b944ce6a16d2255", - "https://developer.download.nvidia.com/hpc-sdk/22.1/nvhpc_2022_221_Linux_aarch64_cuda_multi.tar.gz", - ), - "Linux-ppc64le": ( - "9fa9b64fba2c9b287b5800693417d8065c695d18cab0526bad41d9aecc8be2b3", - "https://developer.download.nvidia.com/hpc-sdk/22.1/nvhpc_2022_221_Linux_ppc64le_cuda_multi.tar.gz", - ), - "Linux-x86_64": ( - "7e4366509ed9031ff271e73327dd3121909902a81ac436307801a5373efaff5e", - "https://developer.download.nvidia.com/hpc-sdk/22.1/nvhpc_2022_221_Linux_x86_64_cuda_multi.tar.gz", - ), - }, - "21.11": { - "Linux-aarch64": ( - "3b11bcd9cca862fabfce1e7bcaa2050ea12130c7e897f4e7859ba4c155d20720", - "https://developer.download.nvidia.com/hpc-sdk/21.11/nvhpc_2021_2111_Linux_aarch64_cuda_multi.tar.gz", - ), - "Linux-ppc64le": ( - "ac51ed92de4eb5e1bdb064ada5bbace5b89ac732ad6c6473778edfb8d29a6527", - "https://developer.download.nvidia.com/hpc-sdk/21.11/nvhpc_2021_2111_Linux_ppc64le_cuda_multi.tar.gz", - ), - "Linux-x86_64": ( - "d8d8ccd0e558d22bcddd955f2233219c96f7de56aa8e09e7be833e384d32d6aa", - "https://developer.download.nvidia.com/hpc-sdk/21.11/nvhpc_2021_2111_Linux_x86_64_cuda_multi.tar.gz", - ), - }, - "21.9": { - "Linux-aarch64": ( - "52c2c66e30043add4afccedf0ba77daa0000bf42e0db844baa630bb635b91a7d", - "https://developer.download.nvidia.com/hpc-sdk/21.9/nvhpc_2021_219_Linux_aarch64_cuda_multi.tar.gz", - ), - "Linux-ppc64le": ( - "cff0b55fb782be1982bfeec1d9763b674ddbf84ff2c16b364495299266320289", - "https://developer.download.nvidia.com/hpc-sdk/21.9/nvhpc_2021_219_Linux_ppc64le_cuda_multi.tar.gz", - ), - "Linux-x86_64": ( - "7de6a6880fd7e59afe0dee51f1fae4d3bff1ca0fb8ee234b24e1f2fdff23ffc9", - "https://developer.download.nvidia.com/hpc-sdk/21.9/nvhpc_2021_219_Linux_x86_64_cuda_multi.tar.gz", - ), - }, - "21.7": { - "Linux-aarch64": ( - "73eb3513845b59645f118b1e313472f54519dc252d5f5c32a05df2a2a8a19878", - "https://developer.download.nvidia.com/hpc-sdk/21.7/nvhpc_2021_217_Linux_aarch64_cuda_multi.tar.gz", - ), - "Linux-ppc64le": ( - "37ea23b5a9c696fb3fdb82855643afc4e02aea618102ec801206441f10fc9fba", - "https://developer.download.nvidia.com/hpc-sdk/21.7/nvhpc_2021_217_Linux_ppc64le_cuda_multi.tar.gz", - ), - "Linux-x86_64": ( - "49d6e23492d131474698cf12971722d42e13a54a4eddec382e66e1053b4ac902", - "https://developer.download.nvidia.com/hpc-sdk/21.7/nvhpc_2021_217_Linux_x86_64_cuda_multi.tar.gz", - ), - }, - "21.5": { - "Linux-aarch64": ( - "1a1748cd7cf538199d92ab3b1208935fa4a62708ba21125aeadb328ddc7380d4", - "https://developer.download.nvidia.com/hpc-sdk/21.5/nvhpc_2021_215_Linux_aarch64_cuda_multi.tar.gz", - ), - "Linux-ppc64le": ( - "4674931a5ce28724308cb9cebd546eefa3f0646d3d08adbea28ba5ad27f0c163", - "https://developer.download.nvidia.com/hpc-sdk/21.5/nvhpc_2021_215_Linux_ppc64le_cuda_multi.tar.gz", - ), - "Linux-x86_64": ( - "21989e52c58a6914743631c8200de1fec7e10b3449c6c1833f3032ee74b85f8e", - "https://developer.download.nvidia.com/hpc-sdk/21.5/nvhpc_2021_215_Linux_x86_64_cuda_multi.tar.gz", - ), - }, - "21.3": { - "Linux-aarch64": ( - "88e0dbf8fcdd06a2ba06aacf65ae1625b8683688f6593ed3bf8ce129ce1b17b7", - "https://developer.download.nvidia.com/hpc-sdk/21.3/nvhpc_2021_213_Linux_aarch64_cuda_multi.tar.gz", - ), - "Linux-ppc64le": ( - "08cd0cd6c80d633f107b44f88685ada7f014fbf6eac19ef5ae4a7952cabe4037", - "https://developer.download.nvidia.com/hpc-sdk/21.3/nvhpc_2021_213_Linux_ppc64le_cuda_multi.tar.gz", - ), - "Linux-x86_64": ( - "391d5604a70f61bdd4ca6a3e4692f6f2391948990c8a35c395b6867341890031", - "https://developer.download.nvidia.com/hpc-sdk/21.3/nvhpc_2021_213_Linux_x86_64_cuda_multi.tar.gz", - ), - }, - "21.2": { - "Linux-aarch64": ( - "fe19c0232f7c9534f8699b7432483c9cc649f1e92e7f0961d1aa7c54d83297ff", - "https://developer.download.nvidia.com/hpc-sdk/21.2/nvhpc_2021_212_Linux_aarch64_cuda_multi.tar.gz", - ), - "Linux-ppc64le": ( - "6b69b6e4ebec6a91b9f1627384c50adad79ebdd25dfb20a5f64cf01c3a07f11a", - "https://developer.download.nvidia.com/hpc-sdk/21.2/nvhpc_2021_212_Linux_ppc64le_cuda_multi.tar.gz", - ), - "Linux-x86_64": ( - "a3e3393040185ae844002fbc6c8eb4ffdfb97ce8b2ce29d796fe7e9a521fdc59", - "https://developer.download.nvidia.com/hpc-sdk/21.2/nvhpc_2021_212_Linux_x86_64_cuda_multi.tar.gz", - ), - }, - "21.1": { - "Linux-aarch64": ( - "b276e7c0ff78cee837a597d9136cd1d8ded27a9d1fdae1e7d674e2a072a9a6aa", - "https://developer.download.nvidia.com/hpc-sdk/21.1/nvhpc_2021_211_Linux_aarch64_cuda_multi.tar.gz", - ), - "Linux-ppc64le": ( - "bc236c212097bac6b7d04d627d9cc6b75bb6cd473a0b6a1bf010559ce328a2b0", - "https://developer.download.nvidia.com/hpc-sdk/21.1/nvhpc_2021_211_Linux_ppc64le_cuda_multi.tar.gz", - ), - "Linux-x86_64": ( - "d529daf46404724ac3f005be4239f2c30e53f5220bb9453f367dccc3a74d6b41", - "https://developer.download.nvidia.com/hpc-sdk/21.1/nvhpc_2021_211_Linux_x86_64_cuda_multi.tar.gz", - ), - }, - "20.11": { - "Linux-aarch64": ( - "2f26ca45b07b694b8669e4f761760d4f7faa8d032b21e430adee1af0a27032c1", - "https://developer.download.nvidia.com/hpc-sdk/20.11/nvhpc_2020_2011_Linux_aarch64_cuda_multi.tar.gz", - ), - "Linux-ppc64le": ( - "99e5a5437e82f3914e0fe81feb761a5b599a3fe8b31f3c2cac8ae47e8cdc7b0f", - "https://developer.download.nvidia.com/hpc-sdk/20.11/nvhpc_2020_2011_Linux_ppc64le_cuda_multi.tar.gz", - ), - "Linux-x86_64": ( - "c80fc26e5ba586696f7030f03054c1aaca0752a891c7923faf47eb23b66857ec", - "https://developer.download.nvidia.com/hpc-sdk/20.11/nvhpc_2020_2011_Linux_x86_64_cuda_multi.tar.gz", - ), - }, - "20.9": { - "Linux-aarch64": ( - "3bfb3d17f5ee99998bcc30d738e818d3b94b828e2d8da7db48bf152a01e22023", - "https://developer.download.nvidia.com/hpc-sdk/20.9/nvhpc_2020_209_Linux_aarch64_cuda_11.0.tar.gz", - ), - "Linux-ppc64le": ( - "b2966d4047e1dfd981ce63b333ab9c0acbdc2a6a505fa217456ac9fa3b8e7474", - "https://developer.download.nvidia.com/hpc-sdk/20.9/nvhpc_2020_209_Linux_ppc64le_cuda_multi.tar.gz", - ), - "Linux-x86_64": ( - "fe665ab611b03846a90bd70ca4e08c1e59ab527364b971ed0304e0ae73c778d8", - "https://developer.download.nvidia.com/hpc-sdk/20.9/nvhpc_2020_209_Linux_x86_64_cuda_multi.tar.gz", - ), - }, - "20.7": { - "Linux-aarch64": ( - "5b83ca1919199ac0aa609309b31c345c5a6453dd3131fddeef9e3ee9059a0e9b", - "https://developer.download.nvidia.com/hpc-sdk/20.7/nvhpc_2020_207_Linux_aarch64_cuda_11.0.tar.gz", - ), - "Linux-ppc64le": ( - "800ead240bdf61611910b2f6df24ee1d7359377ff3767c923738dd81fcea9312", - "https://developer.download.nvidia.com/hpc-sdk/20.7/nvhpc_2020_207_Linux_ppc64le_cuda_multi.tar.gz", - ), - "Linux-x86_64": ( - "a5c5c8726d2210f2310a852c6d6e03c9ef8c75e3643e9c94e24909f5e9c2ea7a", - "https://developer.download.nvidia.com/hpc-sdk/20.7/nvhpc_2020_207_Linux_x86_64_cuda_multi.tar.gz", - ), - }, -} - - -class Nvhpc(Package): - """The NVIDIA HPC SDK is a comprehensive suite of compilers, libraries - and tools essential to maximizing developer productivity and the - performance and portability of HPC applications. The NVIDIA HPC - SDK C, C++, and Fortran compilers support GPU acceleration of HPC - modeling and simulation applications with standard C++ and - Fortran, OpenACC directives, and CUDA. GPU-accelerated math - libraries maximize performance on common HPC algorithms, and - optimized communications libraries enable standards-based - multi-GPU and scalable systems programming. Performance profiling - and debugging tools simplify porting and optimization of HPC - applications.""" - - homepage = "https://developer.nvidia.com/hpc-sdk" - - maintainers = ["samcmill"] - tags = ["e4s"] - - for ver, packages in _versions.items(): - key = "{0}-{1}".format(platform.system(), platform.machine()) - pkg = packages.get(key) - if pkg: - version(ver, sha256=pkg[0], url=pkg[1]) - - variant("blas", default=True, description="Enable BLAS") - variant( - "install_type", - default="single", - values=("single", "network"), - multi=False, - description="Network installs are for installations shared " - "by different operating systems", - ) - variant("lapack", default=True, description="Enable LAPACK") - variant("mpi", default=False, description="Enable MPI") - - provides("blas", when="+blas") - provides("lapack", when="+lapack") - provides("mpi", when="+mpi") - - # TODO: effectively gcc is a direct dependency of nvhpc, but we cannot express that - # properly. For now, add conflicts for non-gcc compilers instead. - for __compiler in spack.compilers.supported_compilers(): - if __compiler != "gcc": - conflicts("%{0}".format(__compiler), msg="nvhpc must be installed with %gcc") - - def _version_prefix(self): - return join_path(self.prefix, "Linux_%s" % self.spec.target.family, self.version) - - def setup_build_environment(self, env): - env.set("NVHPC_SILENT", "true") - env.set("NVHPC_ACCEPT_EULA", "accept") - env.set("NVHPC_INSTALL_DIR", self.prefix) - - if self.spec.variants["install_type"].value == "network": - local_dir = join_path(self._version_prefix(), "share_objects") - env.set("NVHPC_INSTALL_TYPE", "network") - env.set("NVHPC_INSTALL_LOCAL_DIR", local_dir) - else: - env.set("NVHPC_INSTALL_TYPE", "single") - - def install(self, spec, prefix): - compilers_bin = join_path(self._version_prefix(), "compilers", "bin") - install = Executable("./install") - makelocalrc = Executable(join_path(compilers_bin, "makelocalrc")) - - makelocalrc_args = [ - "-gcc", - self.compiler.cc, - "-gpp", - self.compiler.cxx, - "-g77", - self.compiler.f77, - "-x", - compilers_bin, - ] - if self.spec.variants["install_type"].value == "network": - local_dir = join_path(self._version_prefix(), "share_objects") - makelocalrc_args.extend(["-net", local_dir]) - - # Run install script - install() - - # Update localrc to use Spack gcc - makelocalrc(*makelocalrc_args) - - def setup_run_environment(self, env): - prefix = Prefix( - join_path(self.prefix, "Linux_%s" % self.spec.target.family, self.version, "compilers") - ) - - env.set("CC", join_path(prefix.bin, "nvc")) - env.set("CXX", join_path(prefix.bin, "nvc++")) - env.set("F77", join_path(prefix.bin, "nvfortran")) - env.set("FC", join_path(prefix.bin, "nvfortran")) - - env.prepend_path("PATH", prefix.bin) - env.prepend_path("LIBRARY_PATH", prefix.lib) - env.prepend_path("LD_LIBRARY_PATH", prefix.lib) - env.prepend_path("MANPATH", prefix.man) - - if "+mpi" in self.spec: - mpi_prefix = Prefix( - join_path( - self.prefix, - "Linux_%s" % self.spec.target.family, - self.version, - "comm_libs", - "mpi", - ) - ) - env.prepend_path("PATH", mpi_prefix.bin) - env.prepend_path("LD_LIBRARY_PATH", mpi_prefix.lib) - - def setup_dependent_build_environment(self, env, dependent_spec): - prefix = Prefix( - join_path(self.prefix, "Linux_%s" % self.spec.target.family, self.version, "compilers") - ) - - env.prepend_path("LIBRARY_PATH", prefix.lib) - env.prepend_path("LD_LIBRARY_PATH", prefix.lib) - - if "+mpi" in self.spec: - mpi_prefix = Prefix( - join_path( - self.prefix, - "Linux_%s" % self.spec.target.family, - self.version, - "comm_libs", - "mpi", - ) - ) - - env.prepend_path("LD_LIBRARY_PATH", mpi_prefix.lib) - - def setup_dependent_package(self, module, dependent_spec): - if "+mpi" in self.spec or self.provides("mpi"): - mpi_prefix = Prefix( - join_path( - self.prefix, - "Linux_%s" % self.spec.target.family, - self.version, - "comm_libs", - "mpi", - ) - ) - - self.spec.mpicc = join_path(mpi_prefix.bin, "mpicc") - self.spec.mpicxx = join_path(mpi_prefix.bin, "mpicxx") - self.spec.mpif77 = join_path(mpi_prefix.bin, "mpif77") - self.spec.mpifc = join_path(mpi_prefix.bin, "mpif90") - - @property - def libs(self): - prefix = Prefix( - join_path(self.prefix, "Linux_%s" % self.spec.target.family, self.version, "compilers") - ) - libs = [] - - if "+blas" in self.spec: - libs.append("libblas") - - if "+lapack" in self.spec: - libs.append("liblapack") - libs.append("libnvf") - - return find_libraries(libs, root=prefix, recursive=True) - - # Avoid binding stub libraries by absolute path - non_bindable_shared_objects = ["stubs"] diff --git a/repos/backports/packages/qb3/package.py b/repos/backports/packages/qb3/package.py deleted file mode 100644 index a789d7fe..00000000 --- a/repos/backports/packages/qb3/package.py +++ /dev/null @@ -1,18 +0,0 @@ -# Copyright 2013-2023 Lawrence Livermore National Security, LLC and other -# Spack Project Developers. See the top-level COPYRIGHT file for details. -# -# SPDX-License-Identifier: (Apache-2.0 OR MIT) - -from spack.package import * - - -class Qb3(CMakePackage): - """QB3: Fast and Efficient Raster Compression.""" - - homepage = "https://github.com/lucianpls/QB3" - git = "https://github.com/lucianpls/QB3.git" - - version("master", branch="master") - - depends_on("cmake@3.5:", type="build") - depends_on("libicd") diff --git a/repos/backports/packages/qt/package.py b/repos/backports/packages/qt/package.py deleted file mode 100644 index 18c9c24d..00000000 --- a/repos/backports/packages/qt/package.py +++ /dev/null @@ -1,772 +0,0 @@ -# Copyright 2013-2023 Lawrence Livermore National Security, LLC and other -# Spack Project Developers. See the top-level COPYRIGHT file for details. -# -# SPDX-License-Identifier: (Apache-2.0 OR MIT) -import itertools -import os -import platform -import sys - -import llnl.util.tty as tty - -from spack.operating_systems.linux_distro import kernel_version -from spack.operating_systems.mac_os import macos_version -from spack.package import * - -MACOS_VERSION = macos_version() if sys.platform == "darwin" else None -LINUX_VERSION = kernel_version() if platform.system() == "Linux" else None - - -class Qt(Package): - """Qt is a comprehensive cross-platform C++ application framework.""" - - homepage = "https://qt.io" - - # Supported releases: 'https://download.qt.io/official_releases/qt/' - # Older archives: 'https://download.qt.io/new_archive/qt/' - url = "https://download.qt.io/archive/qt/5.15/5.15.2/single/qt-everywhere-src-5.15.2.tar.xz" - list_url = "https://download.qt.io/archive/qt/" - list_depth = 3 - #maintainers("sethrj") - - phases = ["configure", "build", "install"] - - version("5.15.8", sha256="776a9302c336671f9406a53bd30b8e36f825742b2ec44a57c08217bff0fa86b9") - version("5.15.7", sha256="8a71986676a3f37a198a9113acedbfd5bc5606a459b6b85816d951458adbe9a0") - version("5.15.6", sha256="ebc77d27934b70b25b3dc34fbec7c4471eb451848e891c42b32409ea30fe309f") - version("5.15.5", sha256="5a97827bdf9fd515f43bc7651defaf64fecb7a55e051c79b8f80510d0e990f06") - version("5.15.4", sha256="615ff68d7af8eef3167de1fd15eac1b150e1fd69d1e2f4239e54447e7797253b") - version("5.15.3", sha256="b7412734698a87f4a0ae20751bab32b1b07fdc351476ad8e35328dbe10efdedb") - version("5.15.2", sha256="3a530d1b243b5dec00bc54937455471aaa3e56849d2593edb8ded07228202240") - version("5.14.2", sha256="c6fcd53c744df89e7d3223c02838a33309bd1c291fcb6f9341505fe99f7f19fa") - version("5.12.10", sha256="3e0ee1e57f5cf3eeb038d0b4b22c7eb442285c62639290756b39dc93a1d0e14f") - version("5.9.9", sha256="5ce285209290a157d7f42ec8eb22bf3f1d76f2e03a95fc0b99b553391be01642") - version("5.6.3", sha256="2fa0cf2e5e8841b29a4be62062c1a65c4f6f2cf1beaf61a5fd661f520cd776d0") - version("5.3.2", sha256="c8d3fd2ead30705c6673c5e4af6c6f3973346b4fb2bd6079c7be0943a5b0282d") - version("5.2.1", sha256="84e924181d4ad6db00239d87250cc89868484a14841f77fb85ab1f1dbdcd7da1") - version("4.8.7", sha256="e2882295097e47fe089f8ac741a95fef47e0a73a3f3cdf21b56990638f626ea0") - version("4.8.6", sha256="8b14dd91b52862e09b8e6a963507b74bc2580787d171feda197badfa7034032c") - version("4.8.5", sha256="eb728f8268831dc4373be6403b7dd5d5dde03c169ad6882f9a8cb560df6aa138") - version("3.3.8b", sha256="1b7a1ff62ec5a9cb7a388e2ba28fda6f960b27f27999482ebeceeadb72ac9f6e") - - variant("debug", default=False, description="Build debug version.") - variant("dbus", default=False, description="Build with D-Bus support.") - variant("doc", default=False, description="Build QDoc and documentation.") - variant("examples", default=False, description="Build examples.") - variant( - "framework", default=bool(MACOS_VERSION), description="Build as a macOS Framework package." - ) - variant("gtk", default=False, description="Build with gtkplus.") - variant("gui", default=True, description="Build the Qt GUI module and dependencies") - variant("opengl", default=False, description="Build with OpenGL support.") - variant("phonon", default=False, description="Build with phonon support.") - variant("shared", default=True, description="Build shared libraries.") - variant("sql", default=True, description="Build with SQL support.") - variant("ssl", default=True, description="Build with OpenSSL support.") - variant("tools", default=True, description="Build tools, including Qt Designer.") - variant("webkit", default=False, description="Build the Webkit extension") - - # Patches for qt@3 - patch("qt3-accept.patch", when="@3") - patch("qt3-headers.patch", when="@3") - - # Patches for qt@4 - patch("qt4-configure-gcc.patch", when="@4:4.8.6 %gcc") - patch("qt4-87-configure-gcc.patch", when="@4.8.7 %gcc") - patch("qt4-tools.patch", when="@4+tools") - patch("qt4-mac.patch", when="@4.8.7 platform=darwin") - # https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=925811 - patch("qt4-qforeach.patch", when="@4 %gcc@9:") - - # Patches for qt@4: - # https://github.com/spack/spack/issues/1517 - patch("qt4-pcre.patch", when="@4") - patch("qt5-pcre.patch", when="@5:") - # https://bugreports.qt.io/browse/QTBUG-74196 - # https://gcc.gnu.org/bugzilla/show_bug.cgi?id=89585 - patch("qt4-asm-volatile.patch", when="@4") - patch("qt5-asm-volatile.patch", when="@5.0.0:5.12.1") - - # Patches for qt@5 - # https://bugreports.qt.io/browse/QTBUG-74219 - patch("qt5-btn_trigger_happy.patch", when="@5.7:5.12") - # https://bugreports.qt.io/browse/QTBUG-57656 - patch("qt5-8-framework.patch", when="@5.8.0 +framework") - # https://bugreports.qt.io/browse/QTBUG-58038 - patch("qt5-8-freetype.patch", when="@5.8.0 +gui") - # https://codereview.qt-project.org/c/qt/qtbase/+/245425 - patch( - "https://github.com/qt/qtbase/commit/a52d7861edfb5956de38ba80015c4dd0b596259b.patch?full_index=1", - sha256="c113b4e31fc648d15d6d401f7625909d84f88320172bd1fbc5b100cc2cbf71e9", - working_dir="qtbase", - when="@5.10:5.12.0 %gcc@9:", - ) - # https://github.com/Homebrew/homebrew-core/pull/5951 - patch("qt5-restore-pc-files.patch", when="@5.9:5.11 platform=darwin") - # https://github.com/spack/spack/issues/14400 - patch("qt5-11-intel-overflow.patch", when="@5.11 %intel") - patch("qt5-12-intel-overflow.patch", when="@5.12:5.14.0 %intel") - # https://bugreports.qt.io/browse/QTBUG-78937 - patch("qt5-12-configure.patch", when="@5.12.7") - # https://bugreports.qt.io/browse/QTBUG-93402 - patch("qt5-15-gcc-10.patch", when="@5.12.7:5.15 %gcc@8:") - patch("qt514.patch", when="@5.14") - patch("qt514-isystem.patch", when="@5.14.2") - # https://bugreports.qt.io/browse/QTBUG-84037 - patch("qt515-quick3d-assimp.patch", when="@5.15:5+opengl") - # https://bugreports.qt.io/browse/QTBUG-90395 - patch( - "https://src.fedoraproject.org/rpms/qt5-qtbase/raw/6ae41be8260f0f5403367eb01f7cd8319779674a/f/qt5-qtbase-gcc11.patch", - sha256="9378afd071ad5c0ec8f7aef48421e4b9fab02f24c856bee9c0951143941913c5", - working_dir="qtbase", - when="@5.14: %gcc@11:", - ) - patch( - "https://src.fedoraproject.org/rpms/qt5-qtdeclarative/raw/593481a2541d3218f285dd7b46bdc5f4c76075ab/f/qt5-qtdeclarative-gcc11.patch", - sha256="2081e9cb85f6712be9b63c70204efa3da954c07d857283eeae16d1b0409704bd", - working_dir="qtdeclarative", - when="@5.14: %gcc@11:", - ) - patch( - "https://src.fedoraproject.org/rpms/qt5-qtwebsockets/raw/f54f4ce6fa27941e9e6d606103d32056078edc74/f/qt5-qtwebsockets-gcc11.patch", - sha256="84b099109d08adf177adf9d3542b6215ec3e42138041d523860dbfdcb59fdaae", - working_dir="qtwebsockets", - when="@5.14: %gcc@11:", - ) - # https://github.com/microsoft/vcpkg/issues/21055 - patch("qt5-macos12.patch", working_dir="qtbase", when="@5.14: %apple-clang@13:") - - # Spack path substitution uses excessively long paths that exceed the hard-coded - # limit of 256 used by teh generated code with the prefix path as string literals - # causing qt to fail in ci. This increases that limit to 1024. - patch("qt59-qtbase-qtconfig256.patch", working_dir="qtbase", when="@5.9:5") - - conflicts("%gcc@10:", when="@5.9:5.12.6 +opengl") - conflicts("%gcc@11:", when="@5.8") - conflicts("%apple-clang@13:", when="@:5.13") - - # Build-only dependencies - depends_on("pkgconfig", type="build") - depends_on("python", when="@5.7.0:", type="build") - - # Dependencies, then variant- and version-specific dependencies - depends_on("icu4c") - depends_on("jpeg") - depends_on("libmng") - depends_on("libtiff") - depends_on("libxml2") - depends_on("zlib") - depends_on("freetype", when="+gui") - depends_on("gtkplus", when="+gtk") - depends_on("sqlite+column_metadata", when="+sql", type=("build", "run")) - - depends_on("libpng@1.2.57", when="@3") - depends_on("libsm", when="@3") - depends_on("pcre+multibyte", when="@5.0:5.8") - depends_on("inputproto", when="@:5.8") - - with when("+ssl"): - depends_on("openssl") - depends_on("openssl@:1.0", when="@4:5.9") - depends_on("openssl@1.1.1:", when="@5.15.0:") - - depends_on("glib", when="@4:") - depends_on("libpng", when="@4:") - depends_on("dbus", when="@4:+dbus") - depends_on("gl", when="@4:+opengl") - depends_on("assimp@5.0.0:5", when="@5.5:+opengl") - - depends_on("harfbuzz", when="@5:") - depends_on("double-conversion", when="@5.7:") - depends_on("pcre2+multibyte", when="@5.9:") - depends_on("llvm", when="@5.11: +doc") - depends_on("zstd@1.3:", when="@5.13:") - - with when("+webkit"): - patch( - "https://src.fedoraproject.org/rpms/qt5-qtwebengine/raw/32062243e895612823b47c2ae9eeb873a98a3542/f/qtwebengine-gcc11.patch", - sha256="14e2d6baff0d09a528ee3e2b5a14de160859880360100af75ea17f3e0f672787", - working_dir="qtwebengine", - when="@5.15.2: %gcc@11:", - ) - # the gl headers and dbus are needed to build webkit - conflicts("~opengl") - conflicts("~dbus") - - depends_on("flex", type="build") - depends_on("bison", type="build") - depends_on("gperf") - - with when("@5.10:"): - depends_on("nss@3.62:") - - with when("@5.7:"): - # https://www.linuxfromscratch.org/blfs/view/svn/x/qtwebengine.html - depends_on("ninja", type="build") - - # https://doc.qt.io/qt-5.15/qtwebengine-platform-notes.html - with when("@5.7: platform=linux"): - depends_on("libdrm") - depends_on("libxcomposite") - depends_on("libxcursor") - depends_on("libxi") - depends_on("libxtst") - depends_on("libxrandr") - depends_on("libxdamage") - depends_on("gettext") - - conflicts( - "+webkit", - when="@5.7:5.15", - msg="qtwebengine@5.7:5.15 are based on Google Chromium versions which depend on Py2", - ) - - # gcc@4 is not supported as of Qt@5.14 - # https://doc.qt.io/qt-5.14/supported-platforms.html - conflicts("%gcc@:4", when="@5.14:") - - # Non-macOS dependencies and special macOS constraints - if MACOS_VERSION is None: - with when("+gui"): - depends_on("fontconfig") - depends_on("libsm") - depends_on("libx11") - depends_on("libxcb") - depends_on("libxkbcommon") - depends_on("xcb-util-image") - depends_on("xcb-util-keysyms") - depends_on("xcb-util-renderutil") - depends_on("xcb-util-wm") - depends_on("libxext") - depends_on("libxrender") - - conflicts("+framework", msg="QT cannot be built as a framework except on macOS.") - else: - conflicts( - "platform=darwin", when="@:4.8.6", msg="QT 4 for macOS is only patched for 4.8.7" - ) - conflicts( - "target=aarch64:", - when="@:5.15.3", - msg="Apple Silicon requires a very new version of qt", - ) - - use_xcode = True - - # Mapping for compilers/systems in the QT 'mkspecs' - compiler_mapping = { - "intel": ("icc",), - "apple-clang": ("clang-libc++", "clang"), - "clang": ("clang-libc++", "clang"), - "fj": ("clang",), - "gcc": ("g++",), - } - platform_mapping = {"darwin": ("macx"), "cray": ("linux")} - - def url_for_version(self, version): - # URL keeps getting more complicated with every release - url = self.list_url - - if version < Version("5.12") and version.up_to(2) != Version("5.9"): - # As of 28 April 2021: - # - new_archive contains 1-5.8, 5.10-5.11 - # - archive contains 1-5.1, 5.9, 5.12-6.0 - # - official_releases containis 5.9, 5.12, 5.15, 6.0 - url = url.replace("archive", "new_archive") - - if version >= Version("4.0"): - url += str(version.up_to(2)) + "/" - else: - url += str(version.up_to(1)) + "/" - - if version >= Version("4.8"): - url += str(version) + "/" - - if version >= Version("5"): - url += "single/" - - url += "qt-" - - if version >= Version("4.6"): - url += "everywhere-" - elif version >= Version("2.1"): - url += "x11-" - - if version >= Version("5.10.0"): - if version >= Version("5.15.3"): - url += "opensource-src-" - else: - url += "src-" - elif version >= Version("4.0"): - url += "opensource-src-" - elif version >= Version("3"): - url += "free-" - - # 5.6.3 and 5.9 only has xz format. Some older versions have only .gz - if version >= Version("5.6"): - url += str(version) + ".tar.xz" - else: - url += str(version) + ".tar.gz" - - return url - - def setup_build_environment(self, env): - env.set("MAKEFLAGS", "-j{0}".format(make_jobs)) - if self.version >= Version("5.11"): - # QDoc uses LLVM as of 5.11; remove the LLVM_INSTALL_DIR to - # disable - try: - llvm_path = self.spec["llvm"].prefix - except KeyError: - # Prevent possibly incompatible system LLVM from being found - llvm_path = "/spack-disable-llvm" - env.set("LLVM_INSTALL_DIR", llvm_path) - - def setup_run_environment(self, env): - env.set("QTDIR", self.prefix) - env.set("QTINC", self.prefix.inc) - env.set("QTLIB", self.prefix.lib) - env.prepend_path("QT_PLUGIN_PATH", self.prefix.plugins) - - def setup_dependent_build_environment(self, env, dependent_spec): - env.set("QTDIR", self.prefix) - env.set("QTINC", self.prefix.inc) - env.set("QTLIB", self.prefix.lib) - env.prepend_path("QT_PLUGIN_PATH", self.prefix.plugins) - - def setup_dependent_package(self, module, dependent_spec): - module.qmake = Executable(join_path(self.spec.prefix.bin, "qmake")) - - def get_mkspec(self): - """Determine the mkspecs root directory and QT platform.""" - spec = self.spec - cname = spec.compiler.name - pname = spec.architecture.platform - - # Transform spack compiler name to a list of possible QT compilers - cnames = self.compiler_mapping.get(cname, [cname]) - # Transform platform name to match those in QT - pname = self.platform_mapping.get(pname, pname) - - qtplat = None - mkspec_dir = "qtbase/mkspecs" if spec.satisfies("@5:") else "mkspecs" - for subdir, cname in itertools.product(("", "unsupported/"), cnames): - platdirname = "".join([subdir, pname, "-", cname]) - tty.debug("Checking for platform '{0}' in {1}".format(platdirname, mkspec_dir)) - if os.path.exists(os.path.join(mkspec_dir, platdirname)): - qtplat = platdirname - break - else: - tty.warn( - "No matching QT platform was found in {0} " - "for platform '{1}' and compiler {2}".format(mkspec_dir, pname, ",".join(cnames)) - ) - - return (mkspec_dir, qtplat) - - # webkit requires libintl (gettext), but does not test for it - # correctly, so add it here. - def flag_handler(self, name, flags): - if "+webkit" in self.spec and name == "ldlibs": - flags.append("-lintl") - - return (flags, None, None) - - @when("@4 platform=darwin") - def patch(self): - ogl = self.spec["opengl"] if "+opengl" in self.spec else None - deployment_target = str(MACOS_VERSION.up_to(2)) - - patches = { - "MACOSX_DEPLOYMENT_TARGET": deployment_target, - "PREFIX": self.prefix, - "OPENGL_INCDIR": ogl.prefix.include if ogl else "", - "OPENGL_LIBS": ogl.libs.ld_flags if ogl else "", - } - - def repl(match): - # Replace the original config variable value with the one chosen - # here if it is mentioned in 'patches'; otherwise return the - # original value. - return patches.get(match.group(1), match.group(0)) - - files_to_filter = [ - "configure", - "mkspecs/common/mac.conf", - "mkspecs/common/unix.conf", - "mkspecs/common/gcc-base-macx.conf", - "mkspecs/common/gcc-base.conf", - "qmake/generators/unix/unixmake.cpp", - "qmake/qmake.pri", - "src/tools/bootstrap/bootstrap.pro", - ] - if "%clang" in self.spec or "%apple-clang" in self.spec: - files_to_filter += [ - "mkspecs/unsupported/macx-clang-libc++/qmake.conf", - "mkspecs/common/clang.conf", - ] - elif "%gcc" in self.spec: - files_to_filter += ["mkspecs/common/g++-macx.conf", "mkspecs/darwin-g++/qmake.conf"] - - # Filter inserted configure variables - filter_file(r"@([a-zA-Z0-9_]+)@", repl, *files_to_filter) - - # Remove debug build - files_to_filter = [ - "src/3rdparty/webkit/Source/WebKit.pri", - "src/3rdparty/webkit/Source/WebKit/qt/declarative/declarative.pro", - "src/imports/qimportbase.pri", - "src/plugins/qpluginbase.pri", - "src/qbase.pri", - "tools/designer/src/components/lib/lib.pro", - "tools/designer/src/lib/lib.pro", - "tools/designer/src/plugins/activeqt/activeqt.pro", - "tools/designer/src/plugins/plugins.pri", - "tools/designer/src/uitools/uitools.pro", - ] - filter_file(r"(\+=.*)debug_and_release", r"\1", *files_to_filter) - - @when("@4: %gcc") # *NOT* darwin/mac gcc - def patch(self): - (mkspec_dir, platform) = self.get_mkspec() - - def conf(name): - return os.path.join(mkspec_dir, "common", name + ".conf") - - # Fix qmake compilers in the default mkspec - filter_file("^QMAKE_CC .*", "QMAKE_CC = cc", conf("g++-base")) - filter_file("^QMAKE_CXX .*", "QMAKE_CXX = c++", conf("g++-base")) - - # Don't error out on undefined symbols - filter_file("^QMAKE_LFLAGS_NOUNDEF .*", "QMAKE_LFLAGS_NOUNDEF = ", conf("g++-unix")) - - # https://gcc.gnu.org/gcc-11/porting_to.html: add -include limits - if self.spec.satisfies("@5.9:5.14%gcc@11:"): - with open(conf("gcc-base"), "a") as f: - f.write("QMAKE_CXXFLAGS += -include limits\n") - - if self.spec.satisfies("@4"): - # The gnu98 flag is necessary to build with GCC 6 and other modern - # compilers (see http://stackoverflow.com/questions/10354371/); - # be permissive because of the abundance of older code, and hide - # all warnings because there are so many of them with newer - # compilers - with open(conf("gcc-base"), "a") as f: - f.write("QMAKE_CXXFLAGS += -std=gnu++98 -fpermissive -w\n") - - @when("@4: %intel") - def patch(self): - (mkspec_dir, platform) = self.get_mkspec() - conf_file = os.path.join(mkspec_dir, platform, "qmake.conf") - - # Intel's `ar` equivalent might not be in the path: replace it with - # explicit - xiar = os.path.join(os.path.dirname(self.compiler.cc), "xiar") - filter_file(r"\bxiar\b", xiar, conf_file) - - if self.spec.satisfies("@4"): - with open(conf_file, "a") as f: - f.write("QMAKE_CXXFLAGS += -std=gnu++98\n") - - @when("@4 %clang") - def patch(self): - (mkspec_dir, platform) = self.get_mkspec() - conf_file = os.path.join(mkspec_dir, platform, "qmake.conf") - - with open(conf_file, "a") as f: - f.write("QMAKE_CXXFLAGS += -std=gnu++98\n") - - @when("@5.9 platform=darwin") - def patch(self): - # 'javascriptcore' is in the include path, so its file named 'version' - # interferes with the standard library - os.unlink( - join_path(self.stage.source_path, "qtscript/src/3rdparty/javascriptcore/version") - ) - - @when("@4: %fj") - def patch(self): - (mkspec_dir, platform) = self.get_mkspec() - - conf = os.path.join(mkspec_dir, "common", "clang.conf") - - # Fix qmake compilers in the default mkspec - filter_file("^QMAKE_CC .*", "QMAKE_CC = fcc", conf) - filter_file("^QMAKE_CXX .*", "QMAKE_CXX = FCC", conf) - - if self.spec.satisfies("@4"): - conf_file = os.path.join(mkspec_dir, platform, "qmake.conf") - with open(conf_file, "a") as f: - f.write("QMAKE_CXXFLAGS += -std=gnu++98\n") - - def _dep_appender_factory(self, config_args): - spec = self.spec - - def use_spack_dep(spack_pkg, qt_name=None): - pkg = spec[spack_pkg] - config_args.append("-system-" + (qt_name or spack_pkg)) - if not pkg.external: - config_args.extend(pkg.libs.search_flags.split()) - config_args.extend(pkg.headers.include_flags.split()) - - return use_spack_dep - - @property - def common_config_args(self): - spec = self.spec - version = self.version - - # incomplete list is here https://doc.qt.io/qt-5/configure-options.html - config_args = [ - "-prefix", - self.prefix, - "-v", - "-opensource", - "-{0}opengl".format("" if "+opengl" in spec else "no-"), - "-{0}".format("debug" if "+debug" in spec else "release"), - "-confirm-license", - "-optimized-qmake", - "-no-pch", - ] - - use_spack_dep = self._dep_appender_factory(config_args) - - if "+gui" in spec: - use_spack_dep("freetype") - if not MACOS_VERSION: - config_args.append("-fontconfig") - else: - config_args.append("-no-freetype") - config_args.append("-no-gui") - - if "+ssl" in spec: - pkg = spec["openssl"] - config_args.append("-openssl-linked") - config_args.extend(pkg.libs.search_flags.split()) - config_args.extend(pkg.headers.include_flags.split()) - else: - config_args.append("-no-openssl") - - if "+sql" in spec: - use_spack_dep("sqlite") - else: - comps = ["db2", "ibase", "oci", "tds", "mysql", "odbc", "psql", "sqlite", "sqlite2"] - config_args.extend("-no-sql-" + component for component in comps) - - if "+shared" in spec: - config_args.append("-shared") - else: - config_args.append("-static") - - if version >= Version("5"): - use_spack_dep("pcre" if spec.satisfies("@5.0:5.8") else "pcre2", "pcre") - use_spack_dep("harfbuzz") - - if version >= Version("5.7"): - use_spack_dep("double-conversion", "doubleconversion") - - if version <= Version("5.7.1"): - config_args.append("-no-openvg") - else: - # FIXME: those could work for other versions - use_spack_dep("libpng") - use_spack_dep("jpeg", "libjpeg") - use_spack_dep("zlib") - - if "@:5.5" in spec: - config_args.extend( - [ - # NIS is deprecated in more recent glibc, - # but qt-5.6.3 does not recognize this option - "-no-nis", - ] - ) - - # COMPONENTS - - if "~examples" in spec: - config_args.extend(["-nomake", "examples"]) - - if "~tools" in spec: - config_args.extend(["-nomake", "tools"]) - - if "+dbus" in spec: - dbus = spec["dbus"].prefix - config_args.append("-dbus-linked") - config_args.append("-I%s/dbus-1.0/include" % dbus.lib) - config_args.append("-I%s/dbus-1.0" % dbus.include) - config_args.append("-L%s" % dbus.lib) - else: - config_args.append("-no-dbus") - - if MACOS_VERSION: - config_args.append("-{0}framework".format("" if "+framework" in spec else "no-")) - - (_, qtplat) = self.get_mkspec() - if qtplat is not None: - config_args.extend(["-platform", qtplat]) - - return config_args - - @when("@3") - def configure(self, spec, prefix): - # A user reported that this was necessary to link Qt3 on ubuntu. - # However, if LD_LIBRARY_PATH is not set the qt build fails, check - # and set LD_LIBRARY_PATH if not set, update if it is set. - if os.environ.get("LD_LIBRARY_PATH"): - os.environ["LD_LIBRARY_PATH"] += os.pathsep + os.getcwd() + "/lib" - else: - os.environ["LD_LIBRARY_PATH"] = os.pathsep + os.getcwd() + "/lib" - - configure("-prefix", prefix, "-v", "-thread", "-shared", "-release", "-fast") - - @when("@4") - def configure(self, spec, prefix): - config_args = self.common_config_args - - config_args.extend( - [ - "-fast", - "-no-declarative-debug", - "-{0}gtkstyle".format("" if "+gtk" in spec else "no-"), - "-{0}webkit".format("" if "+webkit" in spec else "no-"), - "-{0}phonon".format("" if "+phonon" in spec else "no-"), - "-arch", - str(spec.target.family), - "-xmlpatterns", - ] - ) - - # Disable phonon backend until gstreamer is setup as dependency - if "+phonon" in self.spec: - config_args.append("-no-phonon-backend") - - if "~examples" in self.spec: - config_args.extend(["-nomake", "demos"]) - - if MACOS_VERSION: - sdkpath = which("xcrun")("--show-sdk-path", output=str).strip() - config_args.extend(["-cocoa", "-sdk", sdkpath]) - - configure(*config_args) - - @when("@5") - def configure(self, spec, prefix): - config_args = self.common_config_args - version = self.version - - config_args.extend( - [ - "-no-eglfs", - "-no-directfb", - "-{0}gtk{1}".format( - "" if "+gtk" in spec else "no-", "" if version >= Version("5.7") else "style" - ), - ] - ) - - use_spack_dep = self._dep_appender_factory(config_args) - - if MACOS_VERSION: - if version < Version("5.9"): - config_args.append("-no-xcb-xlib") - if version < Version("5.12"): - config_args.append("-no-xinput2") - if spec.satisfies("@5.9"): - # Errors on bluetooth even when bluetooth is disabled... - # at least on apple-clang%12 - config_args.extend(["-skip", "connectivity"]) - elif version < Version("5.15") and "+gui" in spec: - # Linux-only QT5 dependencies - config_args.append("-system-xcb") - if "+opengl" in spec: - config_args.append("-I{0}/include".format(spec["libx11"].prefix)) - config_args.append("-I{0}/include".format(spec["xproto"].prefix)) - - # If the version of glibc is new enough Qt will configure features that - # may not be supported by the kernel version on the system. This will - # cause errors like: - # error while loading shared libraries: libQt5Core.so.5: cannot open - # shared object file: No such file or directory - # Test the kernel version and disable features that Qt detects in glibc - # but that are not supported in the kernel as determined by information - # in: qtbase/src/corelib/global/minimum-linux_p.h. - if LINUX_VERSION and version >= Version("5.10"): - if LINUX_VERSION < Version("3.16"): - config_args.append("-no-feature-renameat2") - if LINUX_VERSION < Version("3.17"): - config_args.append("-no-feature-getentropy") - - if "~webkit" in spec: - config_args.extend( - [ - "-skip", - "webengine" if version >= Version("5.6") else "qtwebkit", - ] - ) - - if spec.satisfies("@5.7"): - config_args.extend(["-skip", "virtualkeyboard"]) - - if version >= Version("5.8"): - # relies on a system installed wayland, i.e. no spack package yet - # https://wayland.freedesktop.org/ubuntu16.04.html - # https://wiki.qt.io/QtWayland - config_args.extend(["-skip", "wayland"]) - - if "~opengl" in spec: - config_args.extend(["-skip", "multimedia"]) - config_args.extend(["-skip", "qt3d"]) - - if version >= Version("5.10"): - config_args.extend(["-skip", "webglplugin"]) - - if version >= Version("5.14"): - config_args.extend(["-skip", "qtquick3d"]) - - if version >= Version("5.15"): - config_args.extend(["-skip", "qtlocation"]) - - else: - # v5.0: qt3d uses internal-only libassimp - # v5.5: external-only libassimp - # v5.6: either internal or external libassimp via autodetection - # v5.9: user-selectable internal-vs-external via -assimp - # v5.14: additional qtquick3d module uses -assimp - # v5.15: qtquick3d switched to the -quick3d-assimp option - if version >= Version("5.9"): - use_spack_dep("assimp") - elif version >= Version("5.15"): - use_spack_dep("assimp", "quick3d-assimp") - - if MACOS_VERSION and "+opengl" in spec: - # These options are only valid if 'multimedia' is enabled, i.e. - # +opengl is selected. Force them to be off on macOS, but let other - # platforms decide for themselves. - config_args.extend( - [ - "-no-pulseaudio", - "-no-alsa", - ] - ) - - if spec.satisfies("platform=darwin target=aarch64:"): - # https://www.qt.io/blog/qt-on-apple-silicon - # Not currently working for qt@5 - config_args.extend(["-device-option", "QMAKE_APPLE_DEVICE_ARCHS=arm64"]) - - configure(*config_args) - - def build(self, spec, prefix): - make() - - def install(self, spec, prefix): - make("install") - - # Documentation generation requires the doc tools to be installed. - # @when @run_after currently seems to ignore the 'when' restriction. - @run_after("install") - def install_docs(self): - if "+doc" in self.spec: - make("docs") - make("install_docs") diff --git a/repos/backports/packages/qt/qt3-accept.patch b/repos/backports/packages/qt/qt3-accept.patch deleted file mode 100644 index 32dfb9df..00000000 --- a/repos/backports/packages/qt/qt3-accept.patch +++ /dev/null @@ -1,38 +0,0 @@ ---- qt-x11-free-3.3.8b/configure 2008-01-15 13:09:15.000000000 -0600 -+++ qt-x11-free-3.3.8b-fixes/configure 2015-07-08 15:49:03.379560633 -0500 -@@ -2339,7 +2339,7 @@ - else - echo "Do you accept the terms of the $TheLicense? \c" - fi -- read acceptance -+ acceptance=yes - echo - if [ "$acceptance" = yes ]; then - break -@@ -2397,7 +2397,7 @@ - else - echo "Do you accept the terms of $affix license? \c" - fi -- read acceptance -+ acceptance=yes - echo - if [ "$acceptance" = "yes" ]; then - break -@@ -2443,7 +2443,7 @@ - else - echo "Do you accept the terms of the license? \c" - fi -- read acceptance -+ acceptance=yes - echo - if [ "$acceptance" = "yes" ]; then - break -@@ -2524,7 +2524,7 @@ - else - echo "Do you accept the terms of the $Platform License? \c" - fi -- read acceptance -+ acceptance=yes - echo - if [ "$acceptance" = "yes" ]; then - break diff --git a/repos/backports/packages/qt/qt3-headers.patch b/repos/backports/packages/qt/qt3-headers.patch deleted file mode 100644 index 52b133b5..00000000 --- a/repos/backports/packages/qt/qt3-headers.patch +++ /dev/null @@ -1,30 +0,0 @@ ---- a/src/tools/qmap.h 2008-01-16 06:09:13.000000000 +1100 -+++ b/src/tools/qmap.h 2018-01-07 11:32:38.720893324 +1100 -@@ -52,6 +52,7 @@ - #ifndef QT_NO_STL - #include - #include -+#include - #endif - - //#define QT_CHECK_MAP_RANGE ---- a/src/tools/qvaluelist.h 2008-01-16 06:09:13.000000000 +1100 -+++ b/src/tools/qvaluelist.h 2018-01-07 11:33:03.393206961 +1100 -@@ -50,6 +50,7 @@ - #ifndef QT_NO_STL - #include - #include -+#include - #endif - - //#define QT_CHECK_VALUELIST_RANGE ---- qt-x11-free-3.3.8b/src/tools/qvaluevector.h 2008-01-15 13:09:13.000000000 -0600 -+++ qt-x11-free-3.3.8b-fixes/src/tools/qvaluevector.h 2015-07-08 15:47:34.758565247 -0500 -@@ -47,6 +47,7 @@ - - #ifndef QT_NO_STL - #include -+#include - #endif - - template diff --git a/repos/backports/packages/qt/qt4-87-configure-gcc.patch b/repos/backports/packages/qt/qt4-87-configure-gcc.patch deleted file mode 100644 index ee3a6cd5..00000000 --- a/repos/backports/packages/qt/qt4-87-configure-gcc.patch +++ /dev/null @@ -1,20 +0,0 @@ ---- a/configure.orig 2018-09-18 07:02:33.866633000 +1000 -+++ b/configure 2018-09-18 07:05:21.935194000 +1000 -@@ -7708,7 +7708,7 @@ - - # Check gcc's version - case "$(${QMAKE_CONF_COMPILER} -dumpversion)" in -- 4*) -+ [4-8]*) - ;; - 3.4*) - canBuildQtXmlPatterns="no" -@@ -7729,7 +7729,7 @@ - *-g++*) - # Check gcc's version - case "$(${QMAKE_CONF_COMPILER} -dumpversion)" in -- 5*|4*|3.4*) -+ [4-8]*|3.4*) - ;; - 3.3*) - canBuildWebKit="no" diff --git a/repos/backports/packages/qt/qt4-asm-volatile.patch b/repos/backports/packages/qt/qt4-asm-volatile.patch deleted file mode 100644 index e3d3cae1..00000000 --- a/repos/backports/packages/qt/qt4-asm-volatile.patch +++ /dev/null @@ -1,236 +0,0 @@ -From 97ec1d1882a83c23c91f0f7daea48e05858d8c32 Mon Sep 17 00:00:00 2001 -From: Thiago Macieira -Date: Mon, 28 Jan 2019 14:33:12 -0800 -Subject: [PATCH] Fix build with GCC 8.3 - -Qualifiers in the asm statement are not allowed in the global scope. I -thought they were necessary for LTO, but I the commit to this file that -added them predates my work on setting up LTO for GCC. - -Change-Id: Id98140e1c2f0426cabbefffd157e23e5ece67a49 -Reviewed-by: Allan Sandfeld Jensen -**BACKPORTED** for use in QT4 by Omar Padron ---- - .../JavaScriptCore/jit/JITStubs.cpp | 48 +++++++++---------- - 1 file changed, 24 insertions(+), 24 deletions(-) - -diff --git a/src/3rdparty/javascriptcore/JavaScriptCore/jit/JITStubs.cpp b/src/3rdparty/javascriptcore/JavaScriptCore/jit/JITStubs.cpp -index 1abdf8b..9f60761 100644 ---- a/src/3rdparty/javascriptcore/JavaScriptCore/jit/JITStubs.cpp 2019-05-30 10:25:30.712979194 -0400 -+++ b/src/3rdparty/javascriptcore/JavaScriptCore/jit/JITStubs.cpp 2019-05-30 10:24:29.666340851 -0400 -@@ -116,7 +116,7 @@ COMPILE_ASSERT(offsetof(struct JITStackFrame, savedEBX) == 0x3c, JITStackFrame_s - COMPILE_ASSERT(offsetof(struct JITStackFrame, callFrame) == 0x58, JITStackFrame_callFrame_offset_matches_ctiTrampoline); - COMPILE_ASSERT(offsetof(struct JITStackFrame, code) == 0x50, JITStackFrame_code_offset_matches_ctiTrampoline); - --asm volatile ( -+asm ( - ".text\n" - ".globl " SYMBOL_STRING(ctiTrampoline) "\n" - HIDE_SYMBOL(ctiTrampoline) "\n" -@@ -138,7 +138,7 @@ SYMBOL_STRING(ctiTrampoline) ":" "\n" - "ret" "\n" - ); - --asm volatile ( -+asm ( - ".globl " SYMBOL_STRING(ctiVMThrowTrampoline) "\n" - HIDE_SYMBOL(ctiVMThrowTrampoline) "\n" - SYMBOL_STRING(ctiVMThrowTrampoline) ":" "\n" -@@ -154,7 +154,7 @@ SYMBOL_STRING(ctiVMThrowTrampoline) ":" "\n" - "ret" "\n" - ); - --asm volatile ( -+asm ( - ".globl " SYMBOL_STRING(ctiOpThrowNotCaught) "\n" - HIDE_SYMBOL(ctiOpThrowNotCaught) "\n" - SYMBOL_STRING(ctiOpThrowNotCaught) ":" "\n" -@@ -179,7 +179,7 @@ COMPILE_ASSERT(offsetof(struct JITStackFrame, savedRBX) == 0x48, JITStackFrame_s - COMPILE_ASSERT(offsetof(struct JITStackFrame, callFrame) == 0x90, JITStackFrame_callFrame_offset_matches_ctiTrampoline); - COMPILE_ASSERT(offsetof(struct JITStackFrame, code) == 0x80, JITStackFrame_code_offset_matches_ctiTrampoline); - --asm volatile ( -+asm ( - ".globl " SYMBOL_STRING(ctiTrampoline) "\n" - HIDE_SYMBOL(ctiTrampoline) "\n" - SYMBOL_STRING(ctiTrampoline) ":" "\n" -@@ -206,7 +206,7 @@ SYMBOL_STRING(ctiTrampoline) ":" "\n" - "ret" "\n" - ); - --asm volatile ( -+asm ( - ".globl " SYMBOL_STRING(ctiVMThrowTrampoline) "\n" - HIDE_SYMBOL(ctiVMThrowTrampoline) "\n" - SYMBOL_STRING(ctiVMThrowTrampoline) ":" "\n" -@@ -222,7 +222,7 @@ SYMBOL_STRING(ctiVMThrowTrampoline) ":" "\n" - "ret" "\n" - ); - --asm volatile ( -+asm ( - ".globl " SYMBOL_STRING(ctiOpThrowNotCaught) "\n" - HIDE_SYMBOL(ctiOpThrowNotCaught) "\n" - SYMBOL_STRING(ctiOpThrowNotCaught) ":" "\n" -@@ -242,7 +242,7 @@ SYMBOL_STRING(ctiOpThrowNotCaught) ":" "\n" - #error "JIT_STUB_ARGUMENT_VA_LIST not supported on ARMv7." - #endif - --asm volatile ( -+asm ( - ".text" "\n" - ".align 2" "\n" - ".globl " SYMBOL_STRING(ctiTrampoline) "\n" -@@ -269,7 +269,7 @@ SYMBOL_STRING(ctiTrampoline) ":" "\n" - "bx lr" "\n" - ); - --asm volatile ( -+asm ( - ".text" "\n" - ".align 2" "\n" - ".globl " SYMBOL_STRING(ctiVMThrowTrampoline) "\n" -@@ -287,7 +287,7 @@ SYMBOL_STRING(ctiVMThrowTrampoline) ":" "\n" - "bx lr" "\n" - ); - --asm volatile ( -+asm ( - ".text" "\n" - ".align 2" "\n" - ".globl " SYMBOL_STRING(ctiOpThrowNotCaught) "\n" -@@ -305,7 +305,7 @@ SYMBOL_STRING(ctiOpThrowNotCaught) ":" "\n" - - #elif COMPILER(GCC) && CPU(ARM_TRADITIONAL) - --asm volatile ( -+asm ( - ".globl " SYMBOL_STRING(ctiTrampoline) "\n" - HIDE_SYMBOL(ctiTrampoline) "\n" - SYMBOL_STRING(ctiTrampoline) ":" "\n" -@@ -323,7 +323,7 @@ SYMBOL_STRING(ctiTrampoline) ":" "\n" - "mov pc, lr" "\n" - ); - --asm volatile ( -+asm ( - ".globl " SYMBOL_STRING(ctiVMThrowTrampoline) "\n" - HIDE_SYMBOL(ctiVMThrowTrampoline) "\n" - SYMBOL_STRING(ctiVMThrowTrampoline) ":" "\n" -@@ -418,7 +418,7 @@ COMPILE_ASSERT(offsetof(struct JITStackFrame, callFrame) == 0x38, JITStackFrame_ - COMPILE_ASSERT(offsetof(struct JITStackFrame, code) == 0x30, JITStackFrame_code_offset_matches_ctiTrampoline); - COMPILE_ASSERT(offsetof(struct JITStackFrame, savedEBX) == 0x1c, JITStackFrame_stub_argument_space_matches_ctiTrampoline); - --asm volatile ( -+asm ( - ".text\n" - ".globl " SYMBOL_STRING(ctiTrampoline) "\n" - HIDE_SYMBOL(ctiTrampoline) "\n" -@@ -440,7 +440,7 @@ SYMBOL_STRING(ctiTrampoline) ":" "\n" - "ret" "\n" - ); - --asm volatile ( -+asm ( - ".globl " SYMBOL_STRING(ctiVMThrowTrampoline) "\n" - HIDE_SYMBOL(ctiVMThrowTrampoline) "\n" - SYMBOL_STRING(ctiVMThrowTrampoline) ":" "\n" -@@ -456,7 +456,7 @@ SYMBOL_STRING(ctiVMThrowTrampoline) ":" "\n" - "ret" "\n" - ); - --asm volatile ( -+asm ( - ".globl " SYMBOL_STRING(ctiOpThrowNotCaught) "\n" - HIDE_SYMBOL(ctiOpThrowNotCaught) "\n" - SYMBOL_STRING(ctiOpThrowNotCaught) ":" "\n" -@@ -480,7 +480,7 @@ COMPILE_ASSERT(offsetof(struct JITStackFrame, callFrame) == 0x58, JITStackFrame_ - COMPILE_ASSERT(offsetof(struct JITStackFrame, code) == 0x48, JITStackFrame_code_offset_matches_ctiTrampoline); - COMPILE_ASSERT(offsetof(struct JITStackFrame, savedRBX) == 0x78, JITStackFrame_stub_argument_space_matches_ctiTrampoline); - --asm volatile ( -+asm ( - ".text\n" - ".globl " SYMBOL_STRING(ctiTrampoline) "\n" - HIDE_SYMBOL(ctiTrampoline) "\n" -@@ -515,7 +515,7 @@ SYMBOL_STRING(ctiTrampoline) ":" "\n" - "ret" "\n" - ); - --asm volatile ( -+asm ( - ".globl " SYMBOL_STRING(ctiVMThrowTrampoline) "\n" - HIDE_SYMBOL(ctiVMThrowTrampoline) "\n" - SYMBOL_STRING(ctiVMThrowTrampoline) ":" "\n" -@@ -531,7 +531,7 @@ SYMBOL_STRING(ctiVMThrowTrampoline) ":" "\n" - "ret" "\n" - ); - --asm volatile ( -+asm ( - ".globl " SYMBOL_STRING(ctiOpThrowNotCaught) "\n" - HIDE_SYMBOL(ctiOpThrowNotCaught) "\n" - SYMBOL_STRING(ctiOpThrowNotCaught) ":" "\n" -@@ -551,7 +551,7 @@ SYMBOL_STRING(ctiOpThrowNotCaught) ":" "\n" - #error "JIT_STUB_ARGUMENT_VA_LIST not supported on ARMv7." - #endif - --asm volatile ( -+asm ( - ".text" "\n" - ".align 2" "\n" - ".globl " SYMBOL_STRING(ctiTrampoline) "\n" -@@ -578,7 +578,7 @@ SYMBOL_STRING(ctiTrampoline) ":" "\n" - "bx lr" "\n" - ); - --asm volatile ( -+asm ( - ".text" "\n" - ".align 2" "\n" - ".globl " SYMBOL_STRING(ctiVMThrowTrampoline) "\n" -@@ -596,7 +596,7 @@ SYMBOL_STRING(ctiVMThrowTrampoline) ":" "\n" - "bx lr" "\n" - ); - --asm volatile ( -+asm ( - ".text" "\n" - ".align 2" "\n" - ".globl " SYMBOL_STRING(ctiOpThrowNotCaught) "\n" -@@ -614,7 +614,7 @@ SYMBOL_STRING(ctiOpThrowNotCaught) ":" "\n" - - #elif COMPILER(GCC) && CPU(ARM_TRADITIONAL) - --asm volatile ( -+asm ( - ".text\n" - ".globl " SYMBOL_STRING(ctiTrampoline) "\n" - HIDE_SYMBOL(ctiTrampoline) "\n" -@@ -632,7 +632,7 @@ SYMBOL_STRING(ctiTrampoline) ":" "\n" - "mov pc, lr" "\n" - ); - --asm volatile ( -+asm ( - ".globl " SYMBOL_STRING(ctiVMThrowTrampoline) "\n" - HIDE_SYMBOL(ctiVMThrowTrampoline) "\n" - SYMBOL_STRING(ctiVMThrowTrampoline) ":" "\n" -@@ -1024,7 +1024,7 @@ static NEVER_INLINE void throwStackOverflowError(CallFrame* callFrame, JSGlobalD - extern "C" { \ - rtype JITStubThunked_##op(STUB_ARGS_DECLARATION); \ - }; \ -- asm volatile ( \ -+ asm ( \ - ".text" "\n" \ - ".align 2" "\n" \ - ".globl " SYMBOL_STRING(cti_##op) "\n" \ -@@ -1053,7 +1053,7 @@ COMPILE_ASSERT(offsetof(struct JITStackFrame, thunkReturnAddress) == THUNK_RETUR - extern "C" { \ - rtype JITStubThunked_##op(STUB_ARGS_DECLARATION); \ - }; \ -- asm volatile ( \ -+ asm ( \ - ".globl " SYMBOL_STRING(cti_##op) "\n" \ - HIDE_SYMBOL(cti_##op) "\n" \ - SYMBOL_STRING(cti_##op) ":" "\n" \ diff --git a/repos/backports/packages/qt/qt4-configure-gcc.patch b/repos/backports/packages/qt/qt4-configure-gcc.patch deleted file mode 100644 index 38a1c350..00000000 --- a/repos/backports/packages/qt/qt4-configure-gcc.patch +++ /dev/null @@ -1,20 +0,0 @@ ---- a/configure.orig 2018-09-18 07:02:33.866633000 +1000 -+++ b/configure 2018-09-18 07:05:21.935194000 +1000 -@@ -7708,7 +7708,7 @@ - - # Check gcc's version - case "$(${QMAKE_CONF_COMPILER} -dumpversion)" in -- 4*) -+ [4-8]*) - ;; - 3.4*) - canBuildQtXmlPatterns="no" -@@ -7729,7 +7729,7 @@ - *-g++*) - # Check gcc's version - case "$(${QMAKE_CONF_COMPILER} -dumpversion)" in -- 4*|3.4*) -+ [4-8]*|3.4*) - ;; - 3.3*) - canBuildWebKit="no" diff --git a/repos/backports/packages/qt/qt4-mac.patch b/repos/backports/packages/qt/qt4-mac.patch deleted file mode 100644 index 1b713157..00000000 --- a/repos/backports/packages/qt/qt4-mac.patch +++ /dev/null @@ -1,644 +0,0 @@ -diff -Naur a/src/gui/painting/qpaintengine_mac.cpp b/src/gui/painting/qpaintengine_mac.cpp ---- a/src/gui/painting/qpaintengine_mac.cpp 2015-05-07 09:14:43.000000000 -0500 -+++ b/src/gui/painting/qpaintengine_mac.cpp 2022-12-22 16:59:44.000000000 -0600 -@@ -340,13 +340,7 @@ - } - - // Get the color space from the display profile. -- CGColorSpaceRef colorSpace = 0; -- CMProfileRef displayProfile = 0; -- CMError err = CMGetProfileByAVID((CMDisplayIDType)displayID, &displayProfile); -- if (err == noErr) { -- colorSpace = CGColorSpaceCreateWithPlatformColorSpace(displayProfile); -- CMCloseProfile(displayProfile); -- } -+ CGColorSpaceRef colorSpace = CGDisplayCopyColorSpace(displayID); - - // Fallback: use generic DeviceRGB - if (colorSpace == 0) -diff -Naur a/src/gui/kernel/qt_cocoa_helpers_mac.mm b/src/gui/kernel/qt_cocoa_helpers_mac.mm ---- a/src/gui/kernel/qt_cocoa_helpers_mac.mm 2015-05-07 09:14:43.000000000 -0500 -+++ b/src/gui/kernel/qt_cocoa_helpers_mac.mm 2022-12-22 16:59:44.000000000 -0600 -@@ -73,6 +73,9 @@ - ** - ****************************************************************************/ - -+// Needed for macOS 10.13 (High Sierra) -+#define __ASSERT_MACROS_DEFINE_VERSIONS_WITHOUT_UNDERSCORES 1 -+ - #include - #include - #include -diff -Naur a/src/gui/text/qfontengine_coretext.mm b/src/gui/text/qfontengine_coretext.mm ---- a/src/gui/text/qfontengine_coretext.mm 2015-05-07 09:14:43.000000000 -0500 -+++ b/src/gui/text/qfontengine_coretext.mm 2022-12-22 16:59:44.000000000 -0600 -@@ -886,7 +886,7 @@ - - QFixed QCoreTextFontEngine::emSquareSize() const - { -- return QFixed::QFixed(int(CTFontGetUnitsPerEm(ctfont))); -+ return QFixed(int(CTFontGetUnitsPerEm(ctfont))); - } - - QFontEngine *QCoreTextFontEngine::cloneWithSize(qreal pixelSize) const -diff -Naur a/config.tests/unix/compile.test b/config.tests/unix/compile.test ---- a/config.tests/unix/compile.test 2015-05-07 09:14:42.000000000 -0500 -+++ b/config.tests/unix/compile.test 2022-12-22 16:59:44.000000000 -0600 -@@ -73,7 +73,7 @@ - rm -f "$EXE" "${EXE}.exe" - - echo "QT_BUILD_TREE = $OUTDIR" > "$OUTDIR/$TEST/.qmake.cache" --"$OUTDIR/bin/qmake" -spec "$QMKSPEC" "CONFIG+=$QMAKE_CONFIG" "CONFIG-=debug_and_release" "LIBS*=$LFLAGS" "LIBS+=$MAC_ARCH_LFLAGS" "INCLUDEPATH*=$INCLUDEPATH" "QMAKE_CXXFLAGS*=$CXXFLAGS" "QMAKE_CXXFLAGS+=$MAC_ARCH_CXXFLAGS" "$SRCDIR/$TEST/$EXE.pro" -o "$OUTDIR/$TEST/Makefile" -+"$OUTDIR/bin/qmake" -spec "$QMKSPEC" "CONFIG+=$QMAKE_CONFIG" "CONFIG-=debug_and_release app_bundle" "LIBS*=$LFLAGS" "LIBS+=$MAC_ARCH_LFLAGS" "INCLUDEPATH*=$INCLUDEPATH" "QMAKE_CFLAGS*=$CXXFLAGS" "QMAKE_CFLAGS+=$MAC_ARCH_CXXFLAGS" "QMAKE_OBJECTIVE_CFLAGS*=$CXXFLAGS" "QMAKE_OBJECTIVE_CFLAGS+=$MAC_ARCH_CXXFLAGS" "QMAKE_OBJECTIVE_CXXFLAGS*=$CXXFLAGS" "QMAKE_OBJECTIVE_CXXFLAGS+=$MAC_ARCH_CXXFLAGS" "QMAKE_CXXFLAGS*=$CXXFLAGS" "QMAKE_CXXFLAGS+=$MAC_ARCH_CXXFLAGS" "$SRCDIR/$TEST/$EXE.pro" -o "$OUTDIR/$TEST/Makefile" - - if [ "$VERBOSE" = "yes" ]; then - $MAKE -diff -Naur a/configure b/configure ---- a/configure 2015-05-07 09:14:56.000000000 -0500 -+++ b/configure 2022-12-22 16:59:44.000000000 -0600 -@@ -3472,9 +3472,8 @@ - # auto-detect support for -Xarch on the mac - if [ "$PLATFORM_MAC" = "yes" ] && [ "$CFG_MAC_XARCH" = "auto" ]; then - if "$mactests/xarch.test" "$TEST_COMPILER" "$OPT_VERBOSE" "$mactests" ; then -- CFG_MAC_XARCH=no -- else -- CFG_MAC_XARCH=yes -+ echo >&2 "error: -Xarch flag support is required to build on macOS." -+ exit 1 - fi - fi - -@@ -5013,8 +5012,8 @@ - # Avoid overriding the default configuration settings when building with clang/libc++ - ;; - *) -- # For all other configurations require a minimum of 10.5 -- echo "export MACOSX_DEPLOYMENT_TARGET = 10.5" >> "$mkfile" -+ # For all other configurations require a minimum of 10.13 -+ echo "export MACOSX_DEPLOYMENT_TARGET = @MACOSX_DEPLOYMENT_TARGET@" >> "$mkfile" - ;; - esac - -@@ -5025,20 +5024,11 @@ - EXTRA_CXXFLAGS="$EXTRA_CXXFLAGS \$(CARBON_CFLAGS)" - EXTRA_OBJS="qsettings_mac.o qcore_mac.o" - EXTRA_SRCS="\"$relpath/src/corelib/io/qsettings_mac.cpp\" \"$relpath/src/corelib/kernel/qcore_mac.cpp\"" -- if echo "$CFG_MAC_ARCHS" | grep x86 > /dev/null 2>&1; then # matches both x86 and x86_64 -- X86_CFLAGS="-arch i386" -- X86_LFLAGS="-arch i386" -- EXTRA_CFLAGS="$X86_CFLAGS $EXTRA_CFLAGS" -- EXTRA_CXXFLAGS="$X86_CFLAGS $EXTRA_CXXFLAGS" -- EXTRA_LFLAGS="$EXTRA_LFLAGS $X86_LFLAGS" -- fi -- if echo "$CFG_MAC_ARCHS" | grep ppc > /dev/null 2>&1; then # matches both ppc and ppc64 -- PPC_CFLAGS="-arch ppc" -- PPC_LFLAGS="-arch ppc" -- EXTRA_CFLAGS="$PPC_CFLAGS $EXTRA_CFLAGS" -- EXTRA_CXXFLAGS="$PPC_CFLAGS $EXTRA_CXXFLAGS" -- EXTRA_LFLAGS="$EXTRA_LFLAGS $PPC_LFLAGS" -- fi -+ ARCH_CFLAGS="-arch x86_64" -+ ARCH_LFLAGS="-arch x86_64" -+ EXTRA_CFLAGS="$ARCH_CFLAGS $EXTRA_CFLAGS" -+ EXTRA_CXXFLAGS="$ARCH_CFLAGS $EXTRA_CXXFLAGS" -+ EXTRA_LFLAGS="$EXTRA_LFLAGS $ARCH_LFLAGS" - if [ '!' -z "$CFG_SDK" ]; then - echo "SDK_LFLAGS =-Wl,-syslibroot,$CFG_SDK" >>"$mkfile" - echo "SDK_CFLAGS =-isysroot $CFG_SDK" >>"$mkfile" -@@ -7224,19 +7214,7 @@ - - # set the global Mac deployment target. This is overridden on an arch-by-arch basis - # in some cases, see code further down --case "$PLATFORM,$CFG_MAC_COCOA" in --*macx-clang-libc++,yes) -- # Avoid overriding the default configuration setting when building with clang/libc++ -- ;; --macx*,yes) -- # Cocoa -- QMakeVar set QMAKE_MACOSX_DEPLOYMENT_TARGET 10.5 -- ;; --macx*,no) -- # gcc, Carbon -- QMakeVar set QMAKE_MACOSX_DEPLOYMENT_TARGET 10.4 -- ;; --esac -+QMakeVar set QMAKE_MACOSX_DEPLOYMENT_TARGET @MACOSX_DEPLOYMENT_TARGET@ - - # disable Qt 3 support on VxWorks, Symbian and INTEGRITY - case "$XPLATFORM" in -@@ -7515,7 +7493,6 @@ - QCONFIG_FLAGS="$QCONFIG_FLAGS QT_NO_GUI" - fi - -- - if [ "x$PLATFORM_MAC" = "xyes" ] && [ "$XPLATFORM_MINGW" != "yes" ] && [ "$XPLATFORM_SYMBIAN" != "yes" ]; then - #On Mac we implicitly link against libz, so we - #never use the 3rdparty stuff. -@@ -7975,39 +7952,19 @@ - QMAKE_CONFIG="$QMAKE_CONFIG exceptions_off" - fi - --# On Mac, set the minimum deployment target for the different architechtures --# using the Xarch compiler option when supported (10.5 and up). On 10.4 the --# deployment version is set to 10.4 globally using the QMAKE_MACOSX_DEPLOYMENT_TARGET --# env. variable. -+# On Mac, set the minimum deployment target for the different architectures - if [ "$PLATFORM_MAC" = "yes" ] && [ "$CFG_MAC_XARCH" != "no" ]; then - case "$PLATFORM" in - *macx-clang-libc++) - # Avoid overriding the default settings when building clang/libc++. - ;; - *) -- if echo "$CFG_MAC_ARCHS" | grep '\' > /dev/null 2>&1; then -- QMakeVar add QMAKE_CFLAGS "-Xarch_i386 -mmacosx-version-min=10.4" -- QMakeVar add QMAKE_CXXFLAGS "-Xarch_i386 -mmacosx-version-min=10.4" -- QMakeVar add QMAKE_LFLAGS "-Xarch_i386 -mmacosx-version-min=10.4" -- QMakeVar add QMAKE_OBJECTIVE_CFLAGS_X86 "-arch i386 -Xarch_i386 -mmacosx-version-min=10.4" -- fi -- if echo "$CFG_MAC_ARCHS" | grep '\' > /dev/null 2>&1; then -- QMakeVar add QMAKE_CFLAGS "-Xarch_ppc -mmacosx-version-min=10.4" -- QMakeVar add QMAKE_CXXFLAGS "-Xarch_ppc -mmacosx-version-min=10.4" -- QMakeVar add QMAKE_LFLAGS "-Xarch_ppc -mmacosx-version-min=10.4" -- QMakeVar add QMAKE_OBJECTIVE_CFLAGS_PPC "-arch ppc -Xarch_ppc -mmacosx-version-min=10.4" -- fi - if echo "$CFG_MAC_ARCHS" | grep '\' > /dev/null 2>&1; then -- QMakeVar add QMAKE_CFLAGS "-Xarch_x86_64 -mmacosx-version-min=10.5" -- QMakeVar add QMAKE_CXXFLAGS "-Xarch_x86_64 -mmacosx-version-min=10.5" -- QMakeVar add QMAKE_LFLAGS "-Xarch_x86_64 -mmacosx-version-min=10.5" -- QMakeVar add QMAKE_OBJECTIVE_CFLAGS_X86_64 "-arch x86_64 -Xarch_x86_64 -mmacosx-version-min=10.5" -- fi -- if echo "$CFG_MAC_ARCHS" | grep '\' > /dev/null 2>&1; then -- QMakeVar add QMAKE_CFLAGS "-Xarch_ppc64 -mmacosx-version-min=10.5" -- QMakeVar add QMAKE_CXXFLAGS "-Xarch_ppc64 -mmacosx-version-min=10.5" -- QMakeVar add QMAKE_LFLAGS "-Xarch_ppc64 -mmacosx-version-min=10.5" -- QMakeVar add QMAKE_OBJECTIVE_CFLAGS_PPC_64 "-arch ppc64 -Xarch_ppc64 -mmacosx-version-min=10.5" -+ QMakeVar add QMAKE_CFLAGS "-Xarch_x86_64 -mmacosx-version-min=@MACOSX_DEPLOYMENT_TARGET@" -+ QMakeVar add QMAKE_CXXFLAGS "-Xarch_x86_64 -mmacosx-version-min=@MACOSX_DEPLOYMENT_TARGET@" -+ QMakeVar add QMAKE_OBJECTIVE_CFLAGS_X86_64 "-arch x86_64 -Xarch_x86_64 -mmacosx-version-min=@MACOSX_DEPLOYMENT_TARGET@" -+ QMakeVar add QMAKE_OBJECTIVE_CXXFLAGS_X86_64 "-arch x86_64 -Xarch_x86_64 -mmacosx-version-min=@MACOSX_DEPLOYMENT_TARGET@" -+ QMakeVar add QMAKE_LFLAGS "-Xarch_x86_64 -mmacosx-version-min=@MACOSX_DEPLOYMENT_TARGET@" - fi - ;; - esac -diff -Naur a/mkspecs/common/clang.conf b/mkspecs/common/clang.conf ---- a/mkspecs/common/clang.conf 2015-05-07 09:14:42.000000000 -0500 -+++ b/mkspecs/common/clang.conf 2022-12-22 16:59:44.000000000 -0600 -@@ -2,8 +2,8 @@ - # Qmake configuration for Clang on Linux and Mac - # - --QMAKE_CC = clang --QMAKE_CXX = clang++ -+QMAKE_CC = cc -+QMAKE_CXX = c++ - - QMAKE_LINK = $$QMAKE_CXX - QMAKE_LINK_SHLIB = $$QMAKE_CXX -diff -Naur a/mkspecs/common/g++-base.conf b/mkspecs/common/g++-base.conf ---- a/mkspecs/common/g++-base.conf 2015-05-07 09:14:42.000000000 -0500 -+++ b/mkspecs/common/g++-base.conf 2022-12-22 16:59:44.000000000 -0600 -@@ -8,14 +8,14 @@ - # you can use the manual test in tests/manual/mkspecs. - # - --QMAKE_CC = gcc -+QMAKE_CC = cc - - QMAKE_LINK_C = $$QMAKE_CC - QMAKE_LINK_C_SHLIB = $$QMAKE_CC - - QMAKE_CFLAGS_RELEASE_WITH_DEBUGINFO += -O2 -g - --QMAKE_CXX = g++ -+QMAKE_CXX = c++ - - QMAKE_LINK = $$QMAKE_CXX - QMAKE_LINK_SHLIB = $$QMAKE_CXX -diff -Naur a/mkspecs/common/g++-macx.conf b/mkspecs/common/g++-macx.conf ---- a/mkspecs/common/g++-macx.conf 2015-05-07 09:14:42.000000000 -0500 -+++ b/mkspecs/common/g++-macx.conf 2022-12-22 17:01:56.000000000 -0600 -@@ -16,8 +16,8 @@ - - QMAKE_LFLAGS_STATIC_LIB += -all_load - --QMAKE_CFLAGS_X86_64 += -Xarch_x86_64 -mmacosx-version-min=10.5 --QMAKE_CFLAGS_PPC_64 += -Xarch_ppc64 -mmacosx-version-min=10.5 -+QMAKE_CFLAGS_X86_64 += -Xarch_x86_64 -mmacosx-version-min=$$QMAKE_MACOSX_DEPLOYMENT_TARGET -+QMAKE_CFLAGS_PPC_64 += -Xarch_ppc64 -mmacosx-version-min=$$QMAKE_MACOSX_DEPLOYMENT_TARGET - - QMAKE_CXXFLAGS_X86_64 = $$QMAKE_CFLAGS_X86_64 - QMAKE_CXXFLAGS_PPC_64 = $$QMAKE_CFLAGS_PPC_64 -diff -Naur a/mkspecs/common/gcc-base-macx.conf b/mkspecs/common/gcc-base-macx.conf ---- a/mkspecs/common/gcc-base-macx.conf 2015-05-07 09:14:42.000000000 -0500 -+++ b/mkspecs/common/gcc-base-macx.conf 2022-12-22 16:59:44.000000000 -0600 -@@ -29,12 +29,21 @@ - QMAKE_OBJECTIVE_CFLAGS_WARN_OFF = $$QMAKE_CFLAGS_WARN_OFF - QMAKE_OBJECTIVE_CFLAGS_DEBUG = $$QMAKE_CFLAGS_DEBUG - QMAKE_OBJECTIVE_CFLAGS_RELEASE = $$QMAKE_CFLAGS_RELEASE --QMAKE_OBJECTIVE_CFLAGS_HIDESYMS = $$QMAKE_CXXFLAGS_HIDESYMS -+QMAKE_OBJECTIVE_CFLAGS_HIDESYMS = $$QMAKE_CFLAGS_HIDESYMS - QMAKE_OBJECTIVE_CFLAGS_X86 = $$QMAKE_CFLAGS_X86 - QMAKE_OBJECTIVE_CFLAGS_X86_64 = $$QMAKE_CFLAGS_X86_64 - QMAKE_OBJECTIVE_CFLAGS_PPC = $$QMAKE_CFLAGS_PPC - QMAKE_OBJECTIVE_CFLAGS_PPC_64 = $$QMAKE_CFLAGS_PPC_64 - -+QMAKE_OBJECTIVE_CXXFLAGS = $$QMAKE_CXXFLAGS -+QMAKE_OBJECTIVE_CXXFLAGS_WARN_ON = $$QMAKE_CXXFLAGS_WARN_ON -+QMAKE_OBJECTIVE_CXXFLAGS_WARN_OFF = $$QMAKE_CXXFLAGS_WARN_OFF -+QMAKE_OBJECTIVE_CXXFLAGS_DEBUG = $$QMAKE_CXXFLAGS_DEBUG -+QMAKE_OBJECTIVE_CXXFLAGS_RELEASE = $$QMAKE_CXXFLAGS_RELEASE -+QMAKE_OBJECTIVE_CXXFLAGS_HIDESYMS = $$QMAKE_CXXFLAGS_HIDESYMS -+QMAKE_OBJECTIVE_CXXFLAGS_X86 = $$QMAKE_CXXFLAGS_X86 -+QMAKE_OBJECTIVE_CXXFLAGS_X86_64 = $$QMAKE_CXXFLAGS_X86_64 -+ - QMAKE_LFLAGS_X86 += $$QMAKE_CFLAGS_X86 - QMAKE_LFLAGS_X86_64 += $$QMAKE_CFLAGS_X86_64 - QMAKE_LFLAGS_PPC += $$QMAKE_CFLAGS_PPC -diff -Naur a/mkspecs/common/gcc-base.conf b/mkspecs/common/gcc-base.conf ---- a/mkspecs/common/gcc-base.conf 2015-05-07 09:14:42.000000000 -0500 -+++ b/mkspecs/common/gcc-base.conf 2022-12-22 16:59:44.000000000 -0600 -@@ -42,7 +42,7 @@ - QMAKE_CFLAGS_YACC += -Wno-unused -Wno-parentheses - QMAKE_CFLAGS_HIDESYMS += -fvisibility=hidden - --QMAKE_CXXFLAGS += $$QMAKE_CFLAGS -+QMAKE_CXXFLAGS += -std=gnu++98 $$QMAKE_CFLAGS - QMAKE_CXXFLAGS_DEPS += $$QMAKE_CFLAGS_DEPS - QMAKE_CXXFLAGS_WARN_ON += $$QMAKE_CFLAGS_WARN_ON - QMAKE_CXXFLAGS_WARN_OFF += $$QMAKE_CFLAGS_WARN_OFF -diff -Naur a/mkspecs/common/mac.conf b/mkspecs/common/mac.conf ---- a/mkspecs/common/mac.conf 2015-05-07 09:14:42.000000000 -0500 -+++ b/mkspecs/common/mac.conf 2022-12-22 16:59:44.000000000 -0600 -@@ -9,15 +9,14 @@ - QMAKE_LIBDIR = - QMAKE_INCDIR_QT = $$[QT_INSTALL_HEADERS] - QMAKE_LIBDIR_QT = $$[QT_INSTALL_LIBS] --QMAKE_INCDIR_OPENGL = /System/Library/Frameworks/OpenGL.framework/Headers \ -- /System/Library/Frameworks/AGL.framework/Headers/ -+QMAKE_INCDIR_OPENGL = @OPENGL_INCDIR@ - - QMAKE_FIX_RPATH = install_name_tool -id - - QMAKE_LFLAGS_RPATH = - - QMAKE_LIBS_DYNLOAD = --QMAKE_LIBS_OPENGL = -framework OpenGL -framework AGL -+QMAKE_LIBS_OPENGL = @OPENGL_LIBS@ - QMAKE_LIBS_OPENGL_QT = $$QMAKE_LIBS_OPENGL - QMAKE_LIBS_THREAD = - -@@ -38,7 +37,6 @@ - QMAKE_DEL_DIR = rmdir - QMAKE_CHK_DIR_EXISTS = test -d - QMAKE_MKDIR = mkdir -p --QMAKE_MACOSX_DEPLOYMENT_TARGET = 10.4 # overridden to 10.5 for Cocoa on the compiler command line -- -+QMAKE_MACOSX_DEPLOYMENT_TARGET = @MACOSX_DEPLOYMENT_TARGET@ - - include(unix.conf) -diff -Naur a/mkspecs/features/debug.prf b/mkspecs/features/debug.prf ---- a/mkspecs/features/debug.prf 2015-05-07 09:14:42.000000000 -0500 -+++ b/mkspecs/features/debug.prf 2022-12-22 16:59:44.000000000 -0600 -@@ -3,6 +3,7 @@ - QMAKE_CFLAGS += $$QMAKE_CFLAGS_DEBUG - QMAKE_CXXFLAGS += $$QMAKE_CXXFLAGS_DEBUG - QMAKE_OBJECTIVE_CFLAGS += $$QMAKE_OBJECTIVE_CFLAGS_DEBUG -+QMAKE_OBJECTIVE_CXXFLAGS += $$QMAKE_OBJECTIVE_CXXFLAGS_DEBUG - QMAKE_LFLAGS += $$QMAKE_LFLAGS_DEBUG - QMAKE_LIBFLAGS += $$QMAKE_LIBFLAGS_DEBUG - !debug_and_release:fix_output_dirs:fixExclusiveOutputDirs(debug, release) -diff -Naur a/mkspecs/features/mac/default_post.prf b/mkspecs/features/mac/default_post.prf ---- a/mkspecs/features/mac/default_post.prf 2015-05-07 09:14:42.000000000 -0500 -+++ b/mkspecs/features/mac/default_post.prf 2022-12-22 16:59:44.000000000 -0600 -@@ -1,5 +1,5 @@ - load(default_post) --!no_objective_c:CONFIG += objective_c -+!no_objective_c:CONFIG += split_sources objective_c objective_cxx - - # Pick a suitable default architecture for qmake-based applications. - # If the Qt package contains one of x86 and x86_64, pick that one. If it -diff -Naur a/mkspecs/features/mac/objective_c.prf b/mkspecs/features/mac/objective_c.prf ---- a/mkspecs/features/mac/objective_c.prf 2015-05-07 09:14:42.000000000 -0500 -+++ b/mkspecs/features/mac/objective_c.prf 2022-12-22 16:59:44.000000000 -0600 -@@ -1,23 +1,18 @@ -- --for(source, SOURCES) { -- contains(source,.*\\.mm?$) { -- warning(Objective-C source \'$$source\' found in SOURCES but should be in OBJECTIVE_SOURCES) -- SOURCES -= $$source -- OBJECTIVE_SOURCES += $$source -- } --} -+# Add compiler directives for Objective C (.m) only -+# -+# OBJECTIVE_C_SOURCES has already been set in "split_sources" - - isEmpty(QMAKE_OBJECTIVE_CC):QMAKE_OBJECTIVE_CC = $$QMAKE_CC - - OBJECTIVE_C_OBJECTS_DIR = $$OBJECTS_DIR - isEmpty(OBJECTIVE_C_OBJECTS_DIR):OBJECTIVE_C_OBJECTS_DIR = . --isEmpty(QMAKE_EXT_OBJECTIVE_C):QMAKE_EXT_OBJECTIVE_C = .mm .m -+isEmpty(QMAKE_EXT_OBJECTIVE_C):QMAKE_EXT_OBJECTIVE_C = .m - - objective_c.dependency_type = TYPE_C - objective_c.variables = QMAKE_OBJECTIVE_CFLAGS --objective_c.commands = $$QMAKE_OBJECTIVE_CC -c $(QMAKE_COMP_QMAKE_OBJECTIVE_CFLAGS) $(DEFINES) $(INCPATH) ${QMAKE_FILE_IN} -o ${QMAKE_FILE_OUT} -+objective_c.commands = $$QMAKE_OBJECTIVE_CC -c $(QMAKE_COMP_QMAKE_OBJECTIVE_CFLAGS) $(DEFINES) $(INCPATH) -o ${QMAKE_FILE_OUT} ${QMAKE_FILE_IN} - objective_c.output = $$OBJECTIVE_C_OBJECTS_DIR/${QMAKE_FILE_BASE}$${first(QMAKE_EXT_OBJ)} --objective_c.input = OBJECTIVE_SOURCES -+objective_c.input = OBJECTIVE_C_SOURCES - objective_c.name = Compile ${QMAKE_FILE_IN} - silent:objective_c.commands = @echo objective-c ${QMAKE_FILE_IN} && $$objective_c.commands - QMAKE_EXTRA_COMPILERS += objective_c -diff -Naur a/mkspecs/features/mac/objective_cxx.prf b/mkspecs/features/mac/objective_cxx.prf ---- a/mkspecs/features/mac/objective_cxx.prf 1969-12-31 18:00:00.000000000 -0600 -+++ b/mkspecs/features/mac/objective_cxx.prf 2022-12-22 16:59:44.000000000 -0600 -@@ -0,0 +1,18 @@ -+# Add compiler directives for Objective C (.mm) only -+# -+# OBJECTIVE_CXX_SOURCES has already been set in "split_sources" -+ -+isEmpty(QMAKE_OBJECTIVE_CXX):QMAKE_OBJECTIVE_CXX = $$QMAKE_CC -+ -+OBJECTIVE_CXX_OBJECTS_DIR = $$OBJECTS_DIR -+isEmpty(OBJECTIVE_CXX_OBJECTS_DIR):OBJECTIVE_CXX_OBJECTS_DIR = . -+isEmpty(QMAKE_EXT_OBJECTIVE_CXX):QMAKE_EXT_OBJECTIVE_CXX = .mm -+ -+objective_cxx.dependency_type = TYPE_C -+objective_cxx.variables = QMAKE_OBJECTIVE_CXXFLAGS -+objective_cxx.commands = $$QMAKE_OBJECTIVE_CXX -c $(QMAKE_COMP_QMAKE_OBJECTIVE_CXXFLAGS) $(DEFINES) $(INCPATH) -o ${QMAKE_FILE_OUT} ${QMAKE_FILE_IN} -+objective_cxx.output = $$OBJECTIVE_CXX_OBJECTS_DIR/${QMAKE_FILE_BASE}$${first(QMAKE_EXT_OBJ)} -+objective_cxx.input = OBJECTIVE_CXX_SOURCES -+objective_cxx.name = Compile ${QMAKE_FILE_IN} -+silent:objective_cxx.commands = @echo objective-cxx ${QMAKE_FILE_IN} && $$objective_cxx.commands -+QMAKE_EXTRA_COMPILERS += objective_cxx -diff -Naur a/mkspecs/features/mac/split_sources.prf b/mkspecs/features/mac/split_sources.prf ---- a/mkspecs/features/mac/split_sources.prf 1969-12-31 18:00:00.000000000 -0600 -+++ b/mkspecs/features/mac/split_sources.prf 2022-12-22 16:59:44.000000000 -0600 -@@ -0,0 +1,52 @@ -+# move Objective C and C++ files from SOURCES to OBJECTIVE_SOURCES -+ -+for(source, SOURCES) { -+ contains(source,.*\\.m$) { -+ warning(Objective-C source \'$$source\' found in SOURCES but should be in OBJECTIVE_SOURCES) -+ SOURCES -= $$source -+ OBJECTIVE_SOURCES += $$source -+ } else { -+ contains(source,.*\\.mm$) { -+ warning(Objective-C++ source \'$$source\' found in SOURCES but should be in OBJECTIVE_SOURCES) -+ SOURCES -= $$source -+ OBJECTIVE_SOURCES += $$source -+ } -+ } -+} -+ -+# move C and C++ files from OBJECTIVE_SOURCES to SOURCES -+ -+for(source, OBJECTIVE_SOURCES) { -+ contains(source,.*\\.c$) { -+ warning(C source \'$$source\' found in SOURCES but should be in SOURCES) -+ OBJECTIVE_SOURCES -= $$source -+ SOURCES += $$source -+ } else { -+ contains(source,.*\\.cc$) { -+ warning(C++ source \'$$source\' found in SOURCES but should be in SOURCES) -+ OBJECTIVE_SOURCES -= $$source -+ SOURCES += $$source -+ } else { -+ contains(source,.*\\.cpp$) { -+ warning(C++ source \'$$source\' found in SOURCES but should be in SOURCES) -+ OBJECTIVE_SOURCES -= $$source -+ SOURCES += $$source -+ } -+ } -+ } -+} -+ -+# split Objective C and C++ sources into their own variables -+ -+for(source, OBJECTIVE_SOURCES) { -+ contains(source,.*\\.mm$) { -+ OBJECTIVE_CXX_SOURCES += $$source -+ } else { -+ contains(source,.*\\.m$) { -+ OBJECTIVE_C_SOURCES += $$source -+ } else { -+ warning(Source \'$$source\' was found in OBJECTIVE_SOURCES but its file extension is not a typical objective C (\'.m\') or C++ (\'.mm\') extension; assuming Objective C.) -+ OBJECTIVE_C_SOURCES += $$source -+ } -+ } -+} -diff -Naur a/mkspecs/features/mac/sdk.prf b/mkspecs/features/mac/sdk.prf ---- a/mkspecs/features/mac/sdk.prf 2015-05-07 09:14:42.000000000 -0500 -+++ b/mkspecs/features/mac/sdk.prf 2022-12-22 16:59:44.000000000 -0600 -@@ -2,6 +2,7 @@ - !macx-xcode:!macx-pbuilder { - QMAKE_CFLAGS += -isysroot $$QMAKE_MAC_SDK - QMAKE_OBJECTIVE_CFLAGS += -isysroot $$QMAKE_MAC_SDK -+ QMAKE_OBJECTIVE_CXXFLAGS += -isysroot $$QMAKE_MAC_SDK - QMAKE_CXXFLAGS += -isysroot $$QMAKE_MAC_SDK - QMAKE_LFLAGS += -Wl,-syslibroot,$$QMAKE_MAC_SDK - } -diff -Naur a/mkspecs/features/mac/x86.prf b/mkspecs/features/mac/x86.prf ---- a/mkspecs/features/mac/x86.prf 2015-05-07 09:14:42.000000000 -0500 -+++ b/mkspecs/features/mac/x86.prf 2022-12-22 16:59:44.000000000 -0600 -@@ -2,6 +2,7 @@ - } else { - QMAKE_CFLAGS += $$QMAKE_CFLAGS_X86 - QMAKE_OBJECTIVE_CFLAGS += $$QMAKE_OBJECTIVE_CFLAGS_X86 -+ QMAKE_OBJECTIVE_CXXFLAGS += $$QMAKE_OBJECTIVE_CXXFLAGS_X86 - QMAKE_CXXFLAGS += $$QMAKE_CXXFLAGS_X86 - QMAKE_LFLAGS += $$QMAKE_LFLAGS_X86 - } -diff -Naur a/mkspecs/features/mac/x86_64.prf b/mkspecs/features/mac/x86_64.prf ---- a/mkspecs/features/mac/x86_64.prf 2015-05-07 09:14:42.000000000 -0500 -+++ b/mkspecs/features/mac/x86_64.prf 2022-12-22 16:59:44.000000000 -0600 -@@ -2,6 +2,7 @@ - } else { - QMAKE_CFLAGS += $$QMAKE_CFLAGS_X86_64 - QMAKE_OBJECTIVE_CFLAGS += $$QMAKE_OBJECTIVE_CFLAGS_X86_64 -+ QMAKE_OBJECTIVE_CXXFLAGS += $$QMAKE_OBJECTIVE_CXXFLAGS_X86_64 - QMAKE_CXXFLAGS += $$QMAKE_CXXFLAGS_X86_64 - QMAKE_LFLAGS += $$QMAKE_LFLAGS_X86_64 - } -diff -Naur a/mkspecs/features/release.prf b/mkspecs/features/release.prf ---- a/mkspecs/features/release.prf 2015-05-07 09:14:42.000000000 -0500 -+++ b/mkspecs/features/release.prf 2022-12-22 16:59:44.000000000 -0600 -@@ -2,6 +2,7 @@ - QMAKE_CFLAGS += $$QMAKE_CFLAGS_RELEASE - QMAKE_CXXFLAGS += $$QMAKE_CXXFLAGS_RELEASE - QMAKE_OBJECTIVE_CFLAGS += $$QMAKE_OBJECTIVE_CFLAGS_RELEASE -+QMAKE_OBJECTIVE_CXXFLAGS += $$QMAKE_OBJECTIVE_CXXFLAGS_RELEASE - QMAKE_LFLAGS += $$QMAKE_LFLAGS_RELEASE - QMAKE_LIBFLAGS += $$QMAKE_LIBFLAGS_RELEASE --!debug_and_release:fix_output_dirs:fixExclusiveOutputDirs(release, debug) -\ No newline at end of file -+!debug_and_release:fix_output_dirs:fixExclusiveOutputDirs(release, debug) -diff -Naur a/mkspecs/features/unix/hide_symbols.prf b/mkspecs/features/unix/hide_symbols.prf ---- a/mkspecs/features/unix/hide_symbols.prf 2015-05-07 09:14:42.000000000 -0500 -+++ b/mkspecs/features/unix/hide_symbols.prf 2022-12-22 16:59:44.000000000 -0600 -@@ -1,4 +1,5 @@ - QMAKE_CFLAGS += $$QMAKE_CFLAGS_HIDESYMS - QMAKE_CXXFLAGS += $$QMAKE_CXXFLAGS_HIDESYMS - QMAKE_OBJECTIVE_CFLAGS += $$QMAKE_OBJECTIVE_CFLAGS_HIDESYMS -+QMAKE_OBJECTIVE_CXXFLAGS += $$QMAKE_OBJECTIVE_CXXFLAGS_HIDESYMS - QMAKE_LFLAGS += $$QMAKE_LFLAGS_HIDESYMS -diff -Naur a/mkspecs/features/warn_off.prf b/mkspecs/features/warn_off.prf ---- a/mkspecs/features/warn_off.prf 2015-05-07 09:14:42.000000000 -0500 -+++ b/mkspecs/features/warn_off.prf 2022-12-22 16:59:44.000000000 -0600 -@@ -1,4 +1,5 @@ - CONFIG -= warn_on - QMAKE_CFLAGS += $$QMAKE_CFLAGS_WARN_OFF - QMAKE_CXXFLAGS += $$QMAKE_CXXFLAGS_WARN_OFF --QMAKE_OBJECTIVE_CFLAGS += $$QMAKE_OBJECTIVE_CFLAGS_WARN_OFF -\ No newline at end of file -+QMAKE_OBJECTIVE_CFLAGS += $$QMAKE_OBJECTIVE_CFLAGS_WARN_OFF -+QMAKE_OBJECTIVE_CXXFLAGS += $$QMAKE_OBJECTIVE_CXXFLAGS_WARN_OFF -diff -Naur a/mkspecs/features/warn_on.prf b/mkspecs/features/warn_on.prf ---- a/mkspecs/features/warn_on.prf 2015-05-07 09:14:42.000000000 -0500 -+++ b/mkspecs/features/warn_on.prf 2022-12-22 16:59:44.000000000 -0600 -@@ -2,4 +2,4 @@ - QMAKE_CFLAGS += $$QMAKE_CFLAGS_WARN_ON - QMAKE_CXXFLAGS += $$QMAKE_CXXFLAGS_WARN_ON - QMAKE_OBJECTIVE_CFLAGS += $$QMAKE_OBJECTIVE_CFLAGS_WARN_ON -- -+QMAKE_OBJECTIVE_CXXFLAGS += $$QMAKE_OBJECTIVE_CXXFLAGS_WARN_ON -diff -Naur a/mkspecs/unsupported/macx-clang/qmake.conf b/mkspecs/unsupported/macx-clang/qmake.conf ---- a/mkspecs/unsupported/macx-clang/qmake.conf 2015-05-07 09:14:42.000000000 -0500 -+++ b/mkspecs/unsupported/macx-clang/qmake.conf 2022-12-22 16:59:44.000000000 -0600 -@@ -13,6 +13,13 @@ - include(../../common/gcc-base-macx.conf) - include(../../common/clang.conf) - -+QMAKE_MACOSX_DEPLOYMENT_TARGET = @MACOSX_DEPLOYMENT_TARGET@ -+ -+QMAKE_CFLAGS += -mmacosx-version-min=$$QMAKE_MACOSX_DEPLOYMENT_TARGET -+QMAKE_CXXFLAGS += -mmacosx-version-min=$$QMAKE_MACOSX_DEPLOYMENT_TARGET -+QMAKE_OBJECTIVE_CXXFLAGS += -mmacosx-version-min=$$QMAKE_MACOSX_DEPLOYMENT_TARGET -+QMAKE_LFLAGS += -mmacosx-version-min=$$QMAKE_MACOSX_DEPLOYMENT_TARGET -+ - QMAKE_OBJCFLAGS_PRECOMPILE = -x objective-c-header -c ${QMAKE_PCH_INPUT} -o ${QMAKE_PCH_OUTPUT} - QMAKE_OBJCFLAGS_USE_PRECOMPILE = $$QMAKE_CFLAGS_USE_PRECOMPILE - QMAKE_OBJCXXFLAGS_PRECOMPILE = -x objective-c++-header -c ${QMAKE_PCH_INPUT} -o ${QMAKE_PCH_OUTPUT} -diff -Naur a/mkspecs/unsupported/macx-clang-libc++/qmake.conf b/mkspecs/unsupported/macx-clang-libc++/qmake.conf ---- a/mkspecs/unsupported/macx-clang-libc++/qmake.conf 2015-05-07 09:14:42.000000000 -0500 -+++ b/mkspecs/unsupported/macx-clang-libc++/qmake.conf 2022-12-22 16:59:44.000000000 -0600 -@@ -13,10 +13,11 @@ - include(../../common/gcc-base-macx.conf) - include(../../common/clang.conf) - --QMAKE_MACOSX_DEPLOYMENT_TARGET = 10.7 # Libc++ is available from 10.7 onwards -+QMAKE_MACOSX_DEPLOYMENT_TARGET = @MACOSX_DEPLOYMENT_TARGET@ - - QMAKE_CFLAGS += -mmacosx-version-min=$$QMAKE_MACOSX_DEPLOYMENT_TARGET - QMAKE_CXXFLAGS += -stdlib=libc++ -mmacosx-version-min=$$QMAKE_MACOSX_DEPLOYMENT_TARGET -+QMAKE_OBJECTIVE_CXXFLAGS += -stdlib=libc++ -mmacosx-version-min=$$QMAKE_MACOSX_DEPLOYMENT_TARGET - QMAKE_LFLAGS += -stdlib=libc++ -mmacosx-version-min=$$QMAKE_MACOSX_DEPLOYMENT_TARGET - - QMAKE_OBJCFLAGS_PRECOMPILE = -x objective-c-header -c ${QMAKE_PCH_INPUT} -o ${QMAKE_PCH_OUTPUT} -diff -Naur a/qmake/qmake.pri b/qmake/qmake.pri ---- a/qmake/qmake.pri 2015-05-07 09:14:42.000000000 -0500 -+++ b/qmake/qmake.pri 2022-12-22 16:59:44.000000000 -0600 -@@ -135,7 +135,7 @@ - SOURCES += qfilesystemengine_unix.cpp qfilesystemiterator_unix.cpp qfsfileengine_unix.cpp - mac { - SOURCES += qcore_mac.cpp qsettings_mac.cpp -- QMAKE_MACOSX_DEPLOYMENT_TARGET = 10.4 #enables weak linking for 10.4 (exported) -+ QMAKE_MACOSX_DEPLOYMENT_TARGET = @MACOSX_DEPLOYMENT_TARGET@ - LIBS += -framework ApplicationServices - } - } else:win32 { -diff -Naur a/src/tools/bootstrap/bootstrap.pro b/src/tools/bootstrap/bootstrap.pro ---- a/src/tools/bootstrap/bootstrap.pro 2015-05-07 09:14:44.000000000 -0500 -+++ b/src/tools/bootstrap/bootstrap.pro 2022-12-22 16:59:44.000000000 -0600 -@@ -103,7 +103,7 @@ - else:win32:SOURCES += ../../corelib/tools/qlocale_win.cpp - - macx: { -- QMAKE_MACOSX_DEPLOYMENT_TARGET = 10.4 #enables weak linking for 10.4 (exported) -+ QMAKE_MACOSX_DEPLOYMENT_TARGET = @QMAKE_MACOSX_DEPLOYMENT_TARGET@ - SOURCES += ../../corelib/kernel/qcore_mac.cpp - LIBS += -framework CoreServices -framework ApplicationServices - } -diff -Naur a/tools/macdeployqt/shared/shared.cpp b/tools/macdeployqt/shared/shared.cpp ---- a/tools/macdeployqt/shared/shared.cpp 2015-05-07 09:14:40.000000000 -0500 -+++ b/tools/macdeployqt/shared/shared.cpp 2022-12-22 16:59:44.000000000 -0600 -@@ -141,7 +141,7 @@ - state = DylibName; - continue; - } else if (part < parts.count() && parts.at(part).endsWith(".framework")) { -- info.installName += "/" + (qtPath + "lib/").simplified(); -+ info.installName += "/" + (qtPath + "Frameworks/").simplified(); - info.frameworkDirectory = info.installName; - state = FrameworkName; - continue; -diff -Naur a/tools/qtconfig/main.cpp b/tools/qtconfig/main.cpp ---- a/tools/qtconfig/main.cpp 2015-05-07 09:14:41.000000000 -0500 -+++ b/tools/qtconfig/main.cpp 2022-12-22 16:59:44.000000000 -0600 -@@ -51,6 +51,13 @@ - { - Q_INIT_RESOURCE(qtconfig); - -+ const QByteArray graphicsSystem = qgetenv("QT_GRAPHICSSYSTEM"); -+ if (graphicsSystem.isNull() || graphicsSystem.isEmpty()) { -+ // force native graphics mode unless the user set one via QT_GRAPHICSSYSTEM. -+ // We have to use QT_GRAPHICSSYSTEM because that will override any previous -+ // settings stored in our own settings store. -+ qputenv("QT_GRAPHICSSYSTEM", "Native"); -+ } - QApplication app(argc, argv); - - QTranslator translator; -diff -Naur a/tools/qtconfig/mainwindow.cpp b/tools/qtconfig/mainwindow.cpp ---- a/tools/qtconfig/mainwindow.cpp 2015-05-07 09:14:41.000000000 -0500 -+++ b/tools/qtconfig/mainwindow.cpp 2022-12-22 16:59:44.000000000 -0600 -@@ -227,6 +227,7 @@ - connect(ui->rtlExtensionsCheckBox, SIGNAL(toggled(bool)), SLOT(somethingModified())); - connect(ui->inputStyleCombo, SIGNAL(activated(int)), SLOT(somethingModified())); - connect(ui->inputMethodCombo, SIGNAL(activated(int)), SLOT(somethingModified())); -+ connect(ui->graphicsSystemCombo, SIGNAL(activated(int)), SLOT(somethingModified())); - connect(ui->guiStyleCombo, SIGNAL(activated(QString)), SLOT(styleSelected(QString))); - connect(ui->familySubstitutionCombo, SIGNAL(activated(QString)), SLOT(substituteSelected(QString))); - connect(ui->tunePaletteButton, SIGNAL(clicked()), SLOT(tunePalette())); -@@ -416,7 +417,26 @@ - ui->inputMethodCombo->hide(); - ui->inputMethodLabel->hide(); - #endif -- -+#ifdef Q_OS_MAC -+ ui->graphicsSystemCombo->setToolTip(tr("Select the graphicsssystem to be used by default.\n" -+ "Native: use native CoreGraphics rendering\n" -+ "Raster: use raster graphics\n" -+ "OpenGL: use OpenGL (experimental!)\n" -+ "Raster mode is the preferred default except on Mac OS 10.14 and newer where it causes flickering.\n" -+ "Use Native rendering on those newer OS versions (or if you experience other graphics glitches).\n" -+ "Note that Raster mode is not compatible with certain built-in widget styles like CDE or Plastique.")); -+ QStringList graphicsSystems; -+ QString defaultGraphicsSystem = settings.value(QLatin1String("DefaultGraphicsSystem"), QLatin1String("(unset)")).toString(); -+ -+ graphicsSystems << "(unset)" << "Native" << "Raster" << "OpenGL"; -+ ui->graphicsSystemCombo->addItems(graphicsSystems); -+ if (!defaultGraphicsSystem.isNull() && !defaultGraphicsSystem.isEmpty()) { -+ ui->graphicsSystemCombo->setCurrentIndex(graphicsSystems.indexOf(QRegExp(defaultGraphicsSystem, Qt::CaseInsensitive))); -+ } -+#else -+ ui->graphicsSystemLabel->hide(); -+ ui->graphicsSystemCombo->hide(); -+#endif - ui->fontEmbeddingCheckBox->setChecked(settings.value(QLatin1String("embedFonts"), true) - .toBool()); - fontpaths = settings.value(QLatin1String("fontPath")).toStringList(); -@@ -573,6 +593,13 @@ - #if defined(Q_WS_X11) && !defined(QT_NO_XIM) - settings.setValue(QLatin1String("DefaultInputMethod"), ui->inputMethodCombo->currentText()); - #endif -+#ifdef Q_OS_MAC -+ if (ui->graphicsSystemCombo->currentIndex() > 0) { -+ settings.setValue(QLatin1String("DefaultGraphicsSystem"), ui->graphicsSystemCombo->currentText()); -+ } else { -+ settings.remove(QLatin1String("DefaultGraphicsSystem")); -+ } -+#endif - - QString audioSink = settings.value(QLatin1String("audiosink"), QLatin1String("Auto")).toString(); - QString videoMode = settings.value(QLatin1String("videomode"), QLatin1String("Auto")).toString(); diff --git a/repos/backports/packages/qt/qt4-pcre.patch b/repos/backports/packages/qt/qt4-pcre.patch deleted file mode 100644 index 854e564b..00000000 --- a/repos/backports/packages/qt/qt4-pcre.patch +++ /dev/null @@ -1,16 +0,0 @@ -diff -U5 -Nru qt-everywhere-opensource-src-4.8.6/src/3rdparty/javascriptcore/JavaScriptCore/yarr/RegexJIT.h qt-everywhere-opensource-src-4.8.6.pcre/src/3rdparty/javascriptcore/JavaScriptCore/yarr/RegexJIT.h ---- qt-everywhere-opensource-src-4.8.6/src/3rdparty/javascriptcore/JavaScriptCore/yarr/RegexJIT.h 2014-04-10 14:37:12.000000000 -0400 -+++ qt-everywhere-opensource-src-4.8.6.pcre/src/3rdparty/javascriptcore/JavaScriptCore/yarr/RegexJIT.h 2016-08-29 15:30:02.216546252 -0400 -@@ -32,11 +32,11 @@ - - #include "MacroAssembler.h" - #include "RegexPattern.h" - #include - --#include -+#include - struct JSRegExp; // temporary, remove when fallback is removed. - - #if CPU(X86) && !COMPILER(MSVC) - #define YARR_CALL __attribute__ ((regparm (3))) - #else diff --git a/repos/backports/packages/qt/qt4-qforeach.patch b/repos/backports/packages/qt/qt4-qforeach.patch deleted file mode 100644 index ae54cdbc..00000000 --- a/repos/backports/packages/qt/qt4-qforeach.patch +++ /dev/null @@ -1,64 +0,0 @@ -From c35a3f519007af44c3b364b9af86f6a336f6411b Mon Sep 17 00:00:00 2001 -From: Thiago Macieira -Date: Tue, 11 Feb 2014 16:17:46 -0800 -Subject: [PATCH] Redo the Q_FOREACH loop control without GCC statement - expressions - -It's possible to do without them, which probably makes the number of -supported compilers a lot bigger: they just need to support decltype() -or __typeof__. - -That includes the Intel compiler. The old code was also apparently -working, but no one had realized the old workaround for some old version -was still in place. - -The loop overhead is more or less the same. I have not done benchmarks, -but inspection of the generated assembly shows more or less the same -number of instructions. - -Change-Id: I32d499c84a6ddd19d994b49f17a469acb5c3a3f1 -Reviewed-by: Olivier Goffart -Reviewed-by: Marc Mutz - -Backported to Qt 4 - ---- a/src/corelib/global/qglobal.h -+++ b/src/corelib/global/qglobal.h -@@ -2482,22 +2482,32 @@ typedef uint Flags; - - #endif /* Q_NO_TYPESAFE_FLAGS */ - --#if defined(Q_CC_GNU) && !defined(Q_CC_INTEL) && !defined(Q_CC_RVCT) -+#if (defined(Q_CC_GNU) && !defined(Q_CC_RVCT)) - /* make use of typeof-extension */ - template - class QForeachContainer { - public: -- inline QForeachContainer(const T& t) : c(t), brk(0), i(c.begin()), e(c.end()) { } -+ inline QForeachContainer(const T& t) : c(t), i(c.begin()), e(c.end()), control(1) { } - const T c; - int brk; - typename T::const_iterator i, e; -+ int control; - }; - -+// Explanation of the control word: -+// - it's initialized to 1 -+// - that means both the inner and outer loops start -+// - if there were no breaks, at the end of the inner loop, it's set to 0, which -+// causes it to exit (the inner loop is run exactly once) -+// - at the end of the outer loop, it's inverted, so it becomes 1 again, allowing -+// the outer loop to continue executing -+// - if there was a break inside the inner loop, it will exit with control still -+// set to 1; in that case, the outer loop will invert it to 0 and will exit too - #define Q_FOREACH(variable, container) \ - for (QForeachContainer<__typeof__(container)> _container_(container); \ -- !_container_.brk && _container_.i != _container_.e; \ -- __extension__ ({ ++_container_.brk; ++_container_.i; })) \ -- for (variable = *_container_.i;; __extension__ ({--_container_.brk; break;})) -+ _container_.control && _container_.i != _container_.e; \ -+ ++_container_.i, _container_.control ^= 1) \ -+ for (variable = *_container_.i; _container_.control; _container_.control = 0) - - #else - diff --git a/repos/backports/packages/qt/qt4-tools.patch b/repos/backports/packages/qt/qt4-tools.patch deleted file mode 100644 index 39ccff29..00000000 --- a/repos/backports/packages/qt/qt4-tools.patch +++ /dev/null @@ -1,12 +0,0 @@ -diff -r -u a/tools/linguist/linguist/messagemodel.cpp b/tools/linguist/linguist/messagemodel.cpp ---- a/tools/linguist/linguist/messagemodel.cpp 2015-05-07 10:14:39.000000000 -0400 -+++ b/tools/linguist/linguist/messagemodel.cpp 2019-03-20 09:30:21.000000000 -0400 -@@ -183,7 +183,7 @@ - if (ContextItem *c = one->findContext(oc->context())) { - for (int j = 0; j < oc->messageCount(); ++j) { - MessageItem *m = oc->messageItem(j); -- if (c->findMessage(m->text(), m->comment()) >= 0) -+ if (c->findMessage(m->text(), m->comment())) - ++inBoth; - } - } diff --git a/repos/backports/packages/qt/qt5-11-intel-overflow.patch b/repos/backports/packages/qt/qt5-11-intel-overflow.patch deleted file mode 100644 index 5bb0b1e0..00000000 --- a/repos/backports/packages/qt/qt5-11-intel-overflow.patch +++ /dev/null @@ -1,11 +0,0 @@ ---- a/qtbase/src/corelib/global/qnumeric_p.h 2018-11-25 06:51:11.000000000 -0600 -+++ b/qtbase/src/corelib/global/qnumeric_p.h 2020-01-07 14:13:12.103818264 -0600 -@@ -168,7 +168,7 @@ - // size_t. Implementations for 8- and 16-bit types will work but may not be as - // efficient. Implementations for 64-bit may be missing on 32-bit platforms. - --#if (defined(Q_CC_GNU) && (Q_CC_GNU >= 500) || (defined(Q_CC_INTEL) && !defined(Q_OS_WIN))) || QT_HAS_BUILTIN(__builtin_add_overflowx) -+#if (defined(Q_CC_GNU) && (Q_CC_GNU >= 500) && !defined(Q_CC_INTEL) || (defined(Q_CC_INTEL) && (Q_CC_INTEL >= 1800) && (Q_CC_GNU >= 500) && !defined(Q_OS_WIN))) || QT_HAS_BUILTIN(__builtin_add_overflowx) - // GCC 5, ICC 18, and Clang 3.8 have builtins to detect overflows - - template inline diff --git a/repos/backports/packages/qt/qt5-12-configure.patch b/repos/backports/packages/qt/qt5-12-configure.patch deleted file mode 100644 index 42681a16..00000000 --- a/repos/backports/packages/qt/qt5-12-configure.patch +++ /dev/null @@ -1,13 +0,0 @@ -diff --git a/qtbase/src/corelib/tools/qsimd_p.h b/qtbase/src/corelib/tools/qsimd_p.h -index 2130a1f..3a14715 100644 ---- a/qtbase/src/corelib/tools/qsimd_p.h -+++ b/qtbase/src/corelib/tools/qsimd_p.h -@@ -346,7 +346,7 @@ extern Q_CORE_EXPORT QBasicAtomicInteger qt_cpu_features[2]; - #endif - Q_CORE_EXPORT void qDetectCpuFeatures(); - --#if defined(Q_PROCESSOR_X86) && QT_COMPILER_SUPPORTS_HERE(RDRND) -+#if defined(Q_PROCESSOR_X86) && QT_COMPILER_SUPPORTS_HERE(RDRND) && !defined(QT_BOOTSTRAPPED) - Q_CORE_EXPORT qsizetype qRandomCpu(void *, qsizetype) Q_DECL_NOTHROW; - #else - static inline qsizetype qRandomCpu(void *, qsizetype) Q_DECL_NOTHROW diff --git a/repos/backports/packages/qt/qt5-12-intel-overflow.patch b/repos/backports/packages/qt/qt5-12-intel-overflow.patch deleted file mode 100644 index bfe5c8e4..00000000 --- a/repos/backports/packages/qt/qt5-12-intel-overflow.patch +++ /dev/null @@ -1,11 +0,0 @@ ---- a/qtbase/src/corelib/global/qnumeric_p.h 2019-08-31 03:29:31.000000000 -0500 -+++ b/qtbase/src/corelib/global/qnumeric_p.h 2020-01-06 14:23:40.719851927 -0600 -@@ -231,7 +231,7 @@ - // size_t. Implementations for 8- and 16-bit types will work but may not be as - // efficient. Implementations for 64-bit may be missing on 32-bit platforms. - --#if (defined(Q_CC_GNU) && (Q_CC_GNU >= 500) || (defined(Q_CC_INTEL) && !defined(Q_OS_WIN))) || QT_HAS_BUILTIN(__builtin_add_overflow) -+#if (defined(Q_CC_GNU) && (Q_CC_GNU >= 500) && !defined(Q_CC_INTEL) || (defined(Q_CC_INTEL) && (Q_CC_INTEL >= 1800) && (Q_CC_GNU >= 500) && !defined(Q_OS_WIN))) || QT_HAS_BUILTIN(__builtin_add_overflow) - // GCC 5, ICC 18, and Clang 3.8 have builtins to detect overflows - - template inline diff --git a/repos/backports/packages/qt/qt5-15-gcc-10.patch b/repos/backports/packages/qt/qt5-15-gcc-10.patch deleted file mode 100644 index 32fbfba1..00000000 --- a/repos/backports/packages/qt/qt5-15-gcc-10.patch +++ /dev/null @@ -1,39 +0,0 @@ -diff --git a/qtlocation/src/3rdparty/mapbox-gl-native/include/mbgl/util/convert.hpp b/qtlocation/src/3rdparty/mapbox-gl-native/include/mbgl/util/convert.hpp -index 02ec7fe..6c1284e 100644 ---- a/qtlocation/src/3rdparty/mapbox-gl-native/include/mbgl/util/convert.hpp -+++ b/qtlocation/src/3rdparty/mapbox-gl-native/include/mbgl/util/convert.hpp -@@ -1,6 +1,7 @@ - #include - - #include -+#include - #include - #include - -diff --git a/qtlocation/src/3rdparty/mapbox-gl-native/platform/default/bidi.cpp b/qtlocation/src/3rdparty/mapbox-gl-native/platform/default/bidi.cpp -index d475c38..6947f0b 100644 ---- a/qtlocation/src/3rdparty/mapbox-gl-native/platform/default/bidi.cpp -+++ b/qtlocation/src/3rdparty/mapbox-gl-native/platform/default/bidi.cpp -@@ -4,6 +4,7 @@ - #include - #include - -+#include - #include - - namespace mbgl { -diff --git a/qtlocation/src/3rdparty/mapbox-gl-native/src/mbgl/renderer/sources/render_vector_source.cpp b/qtlocation/src/3rdparty/mapbox-gl-native/src/mbgl/renderer/sources/render_vector_source.cpp -index 4de4f01..afb639d 100644 ---- a/qtlocation/src/3rdparty/mapbox-gl-native/src/mbgl/renderer/sources/render_vector_source.cpp -+++ b/qtlocation/src/3rdparty/mapbox-gl-native/src/mbgl/renderer/sources/render_vector_source.cpp -@@ -2,6 +2,7 @@ - #include - #include - #include -+#include - - #include - #include --- -2.26.0 - diff --git a/repos/backports/packages/qt/qt5-8-framework.patch b/repos/backports/packages/qt/qt5-8-framework.patch deleted file mode 100644 index b1ba47fa..00000000 --- a/repos/backports/packages/qt/qt5-8-framework.patch +++ /dev/null @@ -1,17 +0,0 @@ -diff --git a/mkspecs/features/qt_module.prf b/mkspecs/features/qt_module.prf -index f6cbf99..ec31e45 100644 ---- a/qtbase/mkspecs/features/qt_module.prf -+++ b/qtbase/mkspecs/features/qt_module.prf -@@ -68,9 +68,9 @@ load(qt_build_paths) - - header_module { - TEMPLATE = aux -- CONFIG += \ -- force_qt \ # Needed for the headers_clean tests. -- qt_no_install_library -+ CONFIG += force_qt # Needed for the headers_clean tests. -+ !lib_bundle: \ -+ CONFIG += qt_no_install_library - } else { - TEMPLATE = lib - } diff --git a/repos/backports/packages/qt/qt5-8-freetype.patch b/repos/backports/packages/qt/qt5-8-freetype.patch deleted file mode 100644 index c8d71105..00000000 --- a/repos/backports/packages/qt/qt5-8-freetype.patch +++ /dev/null @@ -1,12 +0,0 @@ -diff --git a/qtbase/src/3rdparty/freetype/freetype.pro b/qtbase/src/3rdparty/freetype/freetype.pro -index 5b1eb92..390a6da 100644 ---- a/qtbase/src/3rdparty/freetype/freetype.pro -+++ b/qtbase/src/3rdparty/freetype/freetype.pro -@@ -69,6 +69,7 @@ DEFINES += FT_CONFIG_OPTION_SYSTEM_ZLIB - include(../zlib_dependency.pri) - - DEFINES += FT_CONFIG_OPTION_USE_PNG -+include($$OUT_PWD/../../gui/qtgui-config.pri) - QMAKE_USE_PRIVATE += libpng - - DEFINES += TT_CONFIG_OPTION_SUBPIXEL_HINTING diff --git a/repos/backports/packages/qt/qt5-asm-volatile.patch b/repos/backports/packages/qt/qt5-asm-volatile.patch deleted file mode 100644 index c49fe3f3..00000000 --- a/repos/backports/packages/qt/qt5-asm-volatile.patch +++ /dev/null @@ -1,235 +0,0 @@ -From 97ec1d1882a83c23c91f0f7daea48e05858d8c32 Mon Sep 17 00:00:00 2001 -From: Thiago Macieira -Date: Mon, 28 Jan 2019 14:33:12 -0800 -Subject: [PATCH] Fix build with GCC 8.3 - -Qualifiers in the asm statement are not allowed in the global scope. I -thought they were necessary for LTO, but I the commit to this file that -added them predates my work on setting up LTO for GCC. - -Change-Id: Id98140e1c2f0426cabbefffd157e23e5ece67a49 -Reviewed-by: Allan Sandfeld Jensen ---- - .../JavaScriptCore/jit/JITStubs.cpp | 48 +++++++++---------- - 1 file changed, 24 insertions(+), 24 deletions(-) - -diff --git a/qtscript/src/3rdparty/javascriptcore/JavaScriptCore/jit/JITStubs.cpp b/qtscript/src/3rdparty/javascriptcore/JavaScriptCore/jit/JITStubs.cpp -index 1abdf8b..9f60761 100644 ---- a/qtscript/src/3rdparty/javascriptcore/JavaScriptCore/jit/JITStubs.cpp -+++ b/qtscript/src/3rdparty/javascriptcore/JavaScriptCore/jit/JITStubs.cpp -@@ -116,7 +116,7 @@ COMPILE_ASSERT(offsetof(struct JITStackFrame, savedEBX) == 0x3c, JITStackFrame_s - COMPILE_ASSERT(offsetof(struct JITStackFrame, callFrame) == 0x58, JITStackFrame_callFrame_offset_matches_ctiTrampoline); - COMPILE_ASSERT(offsetof(struct JITStackFrame, code) == 0x50, JITStackFrame_code_offset_matches_ctiTrampoline); - --asm volatile ( -+asm ( - ".text\n" - ".globl " SYMBOL_STRING(ctiTrampoline) "\n" - HIDE_SYMBOL(ctiTrampoline) "\n" -@@ -138,7 +138,7 @@ SYMBOL_STRING(ctiTrampoline) ":" "\n" - "ret" "\n" - ); - --asm volatile ( -+asm ( - ".globl " SYMBOL_STRING(ctiVMThrowTrampoline) "\n" - HIDE_SYMBOL(ctiVMThrowTrampoline) "\n" - SYMBOL_STRING(ctiVMThrowTrampoline) ":" "\n" -@@ -154,7 +154,7 @@ SYMBOL_STRING(ctiVMThrowTrampoline) ":" "\n" - "ret" "\n" - ); - --asm volatile ( -+asm ( - ".globl " SYMBOL_STRING(ctiOpThrowNotCaught) "\n" - HIDE_SYMBOL(ctiOpThrowNotCaught) "\n" - SYMBOL_STRING(ctiOpThrowNotCaught) ":" "\n" -@@ -179,7 +179,7 @@ COMPILE_ASSERT(offsetof(struct JITStackFrame, savedRBX) == 0x48, JITStackFrame_s - COMPILE_ASSERT(offsetof(struct JITStackFrame, callFrame) == 0x90, JITStackFrame_callFrame_offset_matches_ctiTrampoline); - COMPILE_ASSERT(offsetof(struct JITStackFrame, code) == 0x80, JITStackFrame_code_offset_matches_ctiTrampoline); - --asm volatile ( -+asm ( - ".globl " SYMBOL_STRING(ctiTrampoline) "\n" - HIDE_SYMBOL(ctiTrampoline) "\n" - SYMBOL_STRING(ctiTrampoline) ":" "\n" -@@ -206,7 +206,7 @@ SYMBOL_STRING(ctiTrampoline) ":" "\n" - "ret" "\n" - ); - --asm volatile ( -+asm ( - ".globl " SYMBOL_STRING(ctiVMThrowTrampoline) "\n" - HIDE_SYMBOL(ctiVMThrowTrampoline) "\n" - SYMBOL_STRING(ctiVMThrowTrampoline) ":" "\n" -@@ -222,7 +222,7 @@ SYMBOL_STRING(ctiVMThrowTrampoline) ":" "\n" - "ret" "\n" - ); - --asm volatile ( -+asm ( - ".globl " SYMBOL_STRING(ctiOpThrowNotCaught) "\n" - HIDE_SYMBOL(ctiOpThrowNotCaught) "\n" - SYMBOL_STRING(ctiOpThrowNotCaught) ":" "\n" -@@ -242,7 +242,7 @@ SYMBOL_STRING(ctiOpThrowNotCaught) ":" "\n" - #error "JIT_STUB_ARGUMENT_VA_LIST not supported on ARMv7." - #endif - --asm volatile ( -+asm ( - ".text" "\n" - ".align 2" "\n" - ".globl " SYMBOL_STRING(ctiTrampoline) "\n" -@@ -269,7 +269,7 @@ SYMBOL_STRING(ctiTrampoline) ":" "\n" - "bx lr" "\n" - ); - --asm volatile ( -+asm ( - ".text" "\n" - ".align 2" "\n" - ".globl " SYMBOL_STRING(ctiVMThrowTrampoline) "\n" -@@ -287,7 +287,7 @@ SYMBOL_STRING(ctiVMThrowTrampoline) ":" "\n" - "bx lr" "\n" - ); - --asm volatile ( -+asm ( - ".text" "\n" - ".align 2" "\n" - ".globl " SYMBOL_STRING(ctiOpThrowNotCaught) "\n" -@@ -305,7 +305,7 @@ SYMBOL_STRING(ctiOpThrowNotCaught) ":" "\n" - - #elif COMPILER(GCC) && CPU(ARM_TRADITIONAL) - --asm volatile ( -+asm ( - ".globl " SYMBOL_STRING(ctiTrampoline) "\n" - HIDE_SYMBOL(ctiTrampoline) "\n" - SYMBOL_STRING(ctiTrampoline) ":" "\n" -@@ -323,7 +323,7 @@ SYMBOL_STRING(ctiTrampoline) ":" "\n" - "mov pc, lr" "\n" - ); - --asm volatile ( -+asm ( - ".globl " SYMBOL_STRING(ctiVMThrowTrampoline) "\n" - HIDE_SYMBOL(ctiVMThrowTrampoline) "\n" - SYMBOL_STRING(ctiVMThrowTrampoline) ":" "\n" -@@ -418,7 +418,7 @@ COMPILE_ASSERT(offsetof(struct JITStackFrame, callFrame) == 0x38, JITStackFrame_ - COMPILE_ASSERT(offsetof(struct JITStackFrame, code) == 0x30, JITStackFrame_code_offset_matches_ctiTrampoline); - COMPILE_ASSERT(offsetof(struct JITStackFrame, savedEBX) == 0x1c, JITStackFrame_stub_argument_space_matches_ctiTrampoline); - --asm volatile ( -+asm ( - ".text\n" - ".globl " SYMBOL_STRING(ctiTrampoline) "\n" - HIDE_SYMBOL(ctiTrampoline) "\n" -@@ -440,7 +440,7 @@ SYMBOL_STRING(ctiTrampoline) ":" "\n" - "ret" "\n" - ); - --asm volatile ( -+asm ( - ".globl " SYMBOL_STRING(ctiVMThrowTrampoline) "\n" - HIDE_SYMBOL(ctiVMThrowTrampoline) "\n" - SYMBOL_STRING(ctiVMThrowTrampoline) ":" "\n" -@@ -456,7 +456,7 @@ SYMBOL_STRING(ctiVMThrowTrampoline) ":" "\n" - "ret" "\n" - ); - --asm volatile ( -+asm ( - ".globl " SYMBOL_STRING(ctiOpThrowNotCaught) "\n" - HIDE_SYMBOL(ctiOpThrowNotCaught) "\n" - SYMBOL_STRING(ctiOpThrowNotCaught) ":" "\n" -@@ -480,7 +480,7 @@ COMPILE_ASSERT(offsetof(struct JITStackFrame, callFrame) == 0x58, JITStackFrame_ - COMPILE_ASSERT(offsetof(struct JITStackFrame, code) == 0x48, JITStackFrame_code_offset_matches_ctiTrampoline); - COMPILE_ASSERT(offsetof(struct JITStackFrame, savedRBX) == 0x78, JITStackFrame_stub_argument_space_matches_ctiTrampoline); - --asm volatile ( -+asm ( - ".text\n" - ".globl " SYMBOL_STRING(ctiTrampoline) "\n" - HIDE_SYMBOL(ctiTrampoline) "\n" -@@ -515,7 +515,7 @@ SYMBOL_STRING(ctiTrampoline) ":" "\n" - "ret" "\n" - ); - --asm volatile ( -+asm ( - ".globl " SYMBOL_STRING(ctiVMThrowTrampoline) "\n" - HIDE_SYMBOL(ctiVMThrowTrampoline) "\n" - SYMBOL_STRING(ctiVMThrowTrampoline) ":" "\n" -@@ -531,7 +531,7 @@ SYMBOL_STRING(ctiVMThrowTrampoline) ":" "\n" - "ret" "\n" - ); - --asm volatile ( -+asm ( - ".globl " SYMBOL_STRING(ctiOpThrowNotCaught) "\n" - HIDE_SYMBOL(ctiOpThrowNotCaught) "\n" - SYMBOL_STRING(ctiOpThrowNotCaught) ":" "\n" -@@ -551,7 +551,7 @@ SYMBOL_STRING(ctiOpThrowNotCaught) ":" "\n" - #error "JIT_STUB_ARGUMENT_VA_LIST not supported on ARMv7." - #endif - --asm volatile ( -+asm ( - ".text" "\n" - ".align 2" "\n" - ".globl " SYMBOL_STRING(ctiTrampoline) "\n" -@@ -578,7 +578,7 @@ SYMBOL_STRING(ctiTrampoline) ":" "\n" - "bx lr" "\n" - ); - --asm volatile ( -+asm ( - ".text" "\n" - ".align 2" "\n" - ".globl " SYMBOL_STRING(ctiVMThrowTrampoline) "\n" -@@ -596,7 +596,7 @@ SYMBOL_STRING(ctiVMThrowTrampoline) ":" "\n" - "bx lr" "\n" - ); - --asm volatile ( -+asm ( - ".text" "\n" - ".align 2" "\n" - ".globl " SYMBOL_STRING(ctiOpThrowNotCaught) "\n" -@@ -614,7 +614,7 @@ SYMBOL_STRING(ctiOpThrowNotCaught) ":" "\n" - - #elif COMPILER(GCC) && CPU(ARM_TRADITIONAL) - --asm volatile ( -+asm ( - ".text\n" - ".globl " SYMBOL_STRING(ctiTrampoline) "\n" - HIDE_SYMBOL(ctiTrampoline) "\n" -@@ -632,7 +632,7 @@ SYMBOL_STRING(ctiTrampoline) ":" "\n" - "mov pc, lr" "\n" - ); - --asm volatile ( -+asm ( - ".globl " SYMBOL_STRING(ctiVMThrowTrampoline) "\n" - HIDE_SYMBOL(ctiVMThrowTrampoline) "\n" - SYMBOL_STRING(ctiVMThrowTrampoline) ":" "\n" -@@ -1024,7 +1024,7 @@ static NEVER_INLINE void throwStackOverflowError(CallFrame* callFrame, JSGlobalD - extern "C" { \ - rtype JITStubThunked_##op(STUB_ARGS_DECLARATION); \ - }; \ -- asm volatile ( \ -+ asm ( \ - ".text" "\n" \ - ".align 2" "\n" \ - ".globl " SYMBOL_STRING(cti_##op) "\n" \ -@@ -1053,7 +1053,7 @@ COMPILE_ASSERT(offsetof(struct JITStackFrame, thunkReturnAddress) == THUNK_RETUR - extern "C" { \ - rtype JITStubThunked_##op(STUB_ARGS_DECLARATION); \ - }; \ -- asm volatile ( \ -+ asm ( \ - ".globl " SYMBOL_STRING(cti_##op) "\n" \ - HIDE_SYMBOL(cti_##op) "\n" \ - SYMBOL_STRING(cti_##op) ":" "\n" \ diff --git a/repos/backports/packages/qt/qt5-btn_trigger_happy.patch b/repos/backports/packages/qt/qt5-btn_trigger_happy.patch deleted file mode 100644 index e6a27d5f..00000000 --- a/repos/backports/packages/qt/qt5-btn_trigger_happy.patch +++ /dev/null @@ -1,17 +0,0 @@ ---- a/qtgamepad/src/plugins/gamepads/evdev/qevdevgamepadbackend.cpp 2016-08-08 11:34:44.517184658 -0500 -+++ b/qtgamepad/src/plugins/gamepads/evdev/qevdevgamepadbackend.cpp 2016-08-08 11:36:42.371995567 -0500 -@@ -262,10 +262,10 @@ - m_buttonsMap[BTN_TR2] = QGamepadManager::ButtonR2; - m_buttonsMap[BTN_THUMB] = m_buttonsMap[BTN_THUMBL] = QGamepadManager::ButtonL3; - m_buttonsMap[BTN_THUMBR] = QGamepadManager::ButtonR3; -- m_buttonsMap[BTN_TRIGGER_HAPPY1] = QGamepadManager::ButtonLeft; -- m_buttonsMap[BTN_TRIGGER_HAPPY2] = QGamepadManager::ButtonRight; -- m_buttonsMap[BTN_TRIGGER_HAPPY3] = QGamepadManager::ButtonUp; -- m_buttonsMap[BTN_TRIGGER_HAPPY4] = QGamepadManager::ButtonDown; -+ m_buttonsMap[0x2c0] = QGamepadManager::ButtonLeft; -+ m_buttonsMap[0x2c1] = QGamepadManager::ButtonRight; -+ m_buttonsMap[0x2c2] = QGamepadManager::ButtonUp; -+ m_buttonsMap[0x2c3] = QGamepadManager::ButtonDown; - - if (m_productId) - m_backend->saveSettings(m_productId, QVariant()); diff --git a/repos/backports/packages/qt/qt5-macos12.patch b/repos/backports/packages/qt/qt5-macos12.patch deleted file mode 100644 index 242c38c8..00000000 --- a/repos/backports/packages/qt/qt5-macos12.patch +++ /dev/null @@ -1,12 +0,0 @@ -diff --git a/src/plugins/platforms/cocoa/qiosurfacegraphicsbuffer.h b/src/plugins/platforms/cocoa/qiosurfacegraphicsbuffer.h -index e070ba97..07c75b04 100644 ---- a/src/plugins/platforms/cocoa/qiosurfacegraphicsbuffer.h -+++ b/src/plugins/platforms/cocoa/qiosurfacegraphicsbuffer.h -@@ -40,6 +40,7 @@ - #ifndef QIOSURFACEGRAPHICSBUFFER_H - #define QIOSURFACEGRAPHICSBUFFER_H - -+#include - #include - #include - diff --git a/repos/backports/packages/qt/qt5-pcre.patch b/repos/backports/packages/qt/qt5-pcre.patch deleted file mode 100644 index 8fdf2566..00000000 --- a/repos/backports/packages/qt/qt5-pcre.patch +++ /dev/null @@ -1,33 +0,0 @@ ---- a/qtscript/src/3rdparty/javascriptcore/JavaScriptCore/runtime/RegExp.cpp 2016-09-17 20:55:14.000000000 +0000 -+++ b/qtscript/src/3rdparty/javascriptcore/JavaScriptCore/runtime/RegExp.cpp 2017-05-17 01:55:10.000000000 +0000 -@@ -44,7 +44,7 @@ - #include "JIT.h" - #include "WRECGenerator.h" - #endif --#include -+#include "../pcre/pcre.h" - - #endif - ---- a/qtscript/src/3rdparty/javascriptcore/JavaScriptCore/yarr/RegexJIT.cpp 2016-09-17 20:55:14.000000000 +0000 -+++ b/qtscript/src/3rdparty/javascriptcore/JavaScriptCore/yarr/RegexJIT.cpp 2017-05-17 01:55:51.000000000 +0000 -@@ -32,7 +32,7 @@ - #include "MacroAssembler.h" - #include "RegexCompiler.h" - --#include "pcre.h" // temporary, remove when fallback is removed. -+#include "../pcre/pcre.h" // temporary, remove when fallback is removed. - - #if ENABLE(YARR_JIT) - ---- a/qtscript/src/3rdparty/javascriptcore/JavaScriptCore/yarr/RegexJIT.h 2016-09-17 20:55:14.000000000 +0000 -+++ b/qtscript/src/3rdparty/javascriptcore/JavaScriptCore/yarr/RegexJIT.h 2017-05-17 01:55:36.000000000 +0000 -@@ -34,7 +34,7 @@ - #include "RegexPattern.h" - #include - --#include -+#include "../pcre/pcre.h" - struct JSRegExp; // temporary, remove when fallback is removed. - - #if CPU(X86) && !COMPILER(MSVC) diff --git a/repos/backports/packages/qt/qt5-restore-pc-files.patch b/repos/backports/packages/qt/qt5-restore-pc-files.patch deleted file mode 100644 index 35fbaddd..00000000 --- a/repos/backports/packages/qt/qt5-restore-pc-files.patch +++ /dev/null @@ -1,15 +0,0 @@ -Partially reverts . - -diff --git i/qtbase/mkspecs/features/qt_module.prf w/qtbase/mkspecs/features/qt_module.prf -index bb28af97..36bb6483 100644 ---- i/qtbase/mkspecs/features/qt_module.prf -+++ w/qtbase/mkspecs/features/qt_module.prf -@@ -245,7 +245,7 @@ load(qt_installs) - load(qt_targets) - - # this builds on top of qt_common --!internal_module:!lib_bundle:if(unix|mingw) { -+!internal_module:if(unix|mingw) { - CONFIG += create_pc - QMAKE_PKGCONFIG_DESTDIR = pkgconfig - host_build: \ diff --git a/repos/backports/packages/qt/qt514-isystem.patch b/repos/backports/packages/qt/qt514-isystem.patch deleted file mode 100644 index b7271795..00000000 --- a/repos/backports/packages/qt/qt514-isystem.patch +++ /dev/null @@ -1,107 +0,0 @@ -diff --git a/qtbase/mkspecs/common/clang.conf b/qtbase/mkspecs/common/clang.conf -index 2499c8b6d88..dad15a22a88 100644 ---- a/qtbase/mkspecs/common/clang.conf -+++ b/qtbase/mkspecs/common/clang.conf -@@ -18,7 +18,6 @@ QMAKE_PCH_OUTPUT_EXT = .pch - - QMAKE_CFLAGS_OPTIMIZE_SIZE = -Oz - --QMAKE_CFLAGS_ISYSTEM = -isystem - QMAKE_CFLAGS_PRECOMPILE = -x c-header -c ${QMAKE_PCH_INPUT} -o ${QMAKE_PCH_OUTPUT} - QMAKE_CFLAGS_USE_PRECOMPILE = -Xclang -include-pch -Xclang ${QMAKE_PCH_OUTPUT} - QMAKE_CFLAGS_LTCG = -flto=thin -diff --git a/qtbase/mkspecs/common/gcc-base.conf b/qtbase/mkspecs/common/gcc-base.conf -index 3c2d5fdd533..99d77156fd7 100644 ---- a/qtbase/mkspecs/common/gcc-base.conf -+++ b/qtbase/mkspecs/common/gcc-base.conf -@@ -46,7 +46,6 @@ QMAKE_CFLAGS_DEBUG += -g - QMAKE_CFLAGS_SHLIB += $$QMAKE_CFLAGS_PIC - QMAKE_CFLAGS_STATIC_LIB += $$QMAKE_CFLAGS_PIC - QMAKE_CFLAGS_APP += $$QMAKE_CFLAGS_PIC --QMAKE_CFLAGS_ISYSTEM = -isystem - QMAKE_CFLAGS_YACC += -Wno-unused -Wno-parentheses - QMAKE_CFLAGS_HIDESYMS += -fvisibility=hidden - QMAKE_CFLAGS_EXCEPTIONS_OFF += -fno-exceptions -diff --git a/qtbase/mkspecs/linux-icc/qmake.conf b/qtbase/mkspecs/linux-icc/qmake.conf -index 75a601b1f1b..09f897d0934 100644 ---- a/qtbase/mkspecs/linux-icc/qmake.conf -+++ b/qtbase/mkspecs/linux-icc/qmake.conf -@@ -9,7 +9,6 @@ include(../common/icc-base-unix.conf) - # modifications to icc-base-unix.conf - - QMAKE_CFLAGS_YACC = --QMAKE_CFLAGS_ISYSTEM = -isystem - QMAKE_CFLAGS_THREAD = -D_REENTRANT - - QMAKE_CXXFLAGS_YACC = $$QMAKE_CFLAGS_YACC -diff --git a/qtbase/qmake/generators/unix/unixmake2.cpp b/qtbase/qmake/generators/unix/unixmake2.cpp -index 0412b528134..ad6a0e94f2b 100644 ---- a/qtbase/qmake/generators/unix/unixmake2.cpp -+++ b/qtbase/qmake/generators/unix/unixmake2.cpp -@@ -198,18 +198,13 @@ UnixMakefileGenerator::writeMakeParts(QTextStream &t) - t << "CXXFLAGS = " << var("QMAKE_CXXFLAGS") << " $(DEFINES)\n"; - t << "INCPATH ="; - { -- QString isystem = var("QMAKE_CFLAGS_ISYSTEM"); - const ProStringList &incs = project->values("INCLUDEPATH"); - for(int i = 0; i < incs.size(); ++i) { - const ProString &inc = incs.at(i); - if (inc.isEmpty()) - continue; - -- if (!isystem.isEmpty() && isSystemInclude(inc.toQString())) -- t << ' ' << isystem << ' '; -- else -- t << " -I"; -- t << escapeFilePath(inc); -+ t << " -I" << escapeFilePath(inc); - } - } - if(!project->isEmpty("QMAKE_FRAMEWORKPATH_FLAGS")) -@@ -1393,8 +1388,7 @@ void UnixMakefileGenerator::init2() - } - - if (include_deps && project->isActiveConfig("gcc_MD_depends")) { -- // use -MMD if we know about -isystem too -- ProString MD_flag(project->values("QMAKE_CFLAGS_ISYSTEM").isEmpty() ? "-MD" : "-MMD"); -+ ProString MD_flag("-MD"); - project->values("QMAKE_CFLAGS") += MD_flag; - project->values("QMAKE_CXXFLAGS") += MD_flag; - } -diff --git a/qtbase/qmake/generators/win32/mingw_make.cpp b/qtbase/qmake/generators/win32/mingw_make.cpp -index d778790f8ac..ee9a41838bc 100644 ---- a/qtbase/qmake/generators/win32/mingw_make.cpp -+++ b/qtbase/qmake/generators/win32/mingw_make.cpp -@@ -200,17 +200,12 @@ void MingwMakefileGenerator::writeIncPart(QTextStream &t) - { - t << "INCPATH = "; - -- QString isystem = var("QMAKE_CFLAGS_ISYSTEM"); - const ProStringList &incs = project->values("INCLUDEPATH"); - for (ProStringList::ConstIterator incit = incs.begin(); incit != incs.end(); ++incit) { - QString inc = (*incit).toQString(); - inc.replace(QRegExp("\\\\$"), ""); - -- if (!isystem.isEmpty() && isSystemInclude(inc)) -- t << isystem << ' '; -- else -- t << "-I"; -- t << escapeFilePath(inc) << ' '; -+ t << "-I" << escapeFilePath(inc) << ' '; - } - t << Qt::endl; - } -diff --git a/qtbase/src/plugins/platformthemes/gtk3/gtk3.pro b/qtbase/src/plugins/platformthemes/gtk3/gtk3.pro -index cac6f7054d3..8d217396d34 100644 ---- a/qtbase/src/plugins/platformthemes/gtk3/gtk3.pro -+++ b/qtbase/src/plugins/platformthemes/gtk3/gtk3.pro -@@ -10,6 +10,8 @@ QT += core-private gui-private theme_support-private - CONFIG += X11 - QMAKE_USE += gtk3 - DEFINES += GDK_VERSION_MIN_REQUIRED=GDK_VERSION_3_6 -+# Needed for GTK < 3.23 -+QMAKE_CXXFLAGS_WARN_ON += -Wno-error=parentheses - - HEADERS += \ - qgtk3dialoghelpers.h \ - diff --git a/repos/backports/packages/qt/qt514.patch b/repos/backports/packages/qt/qt514.patch deleted file mode 100644 index d752a52b..00000000 --- a/repos/backports/packages/qt/qt514.patch +++ /dev/null @@ -1,9 +0,0 @@ -diff -ruN qt-everywhere-src-5.14.2.orig/qtimageformats/src/plugins/imageformats/jp2/qjp2handler.cpp qt-everywhere-src-5.14.2/qtimageformats/src/plugins/imageformats/jp2/qjp2handler.cpp ---- qt-everywhere-src-5.14.2.orig/qtimageformats/src/plugins/imageformats/jp2/qjp2handler.cpp 2020-03-03 13:10:30.000000000 +0000 -+++ qt-everywhere-src-5.14.2/qtimageformats/src/plugins/imageformats/jp2/qjp2handler.cpp 2020-11-16 19:57:56.792619032 +0000 -@@ -38,4 +38,5 @@ - ** - ****************************************************************************/ - -+#include - #include "qjp2handler_p.h" diff --git a/repos/backports/packages/qt/qt515-quick3d-assimp.patch b/repos/backports/packages/qt/qt515-quick3d-assimp.patch deleted file mode 100644 index 68f4e14c..00000000 --- a/repos/backports/packages/qt/qt515-quick3d-assimp.patch +++ /dev/null @@ -1,13 +0,0 @@ -diff --git a/qtquick3d/src/plugins/assetimporters/assimp/assimp.pro b/qtquick3d/src/plugins/assetimporters/assimp/assimp.pro -index ca5c499e..174a075b 100644 ---- a/qtquick3d/src/plugins/assetimporters/assimp/assimp.pro -+++ b/qtquick3d/src/plugins/assetimporters/assimp/assimp.pro -@@ -10,7 +10,7 @@ QT_FOR_CONFIG += assetimporters-private - include($$OUT_PWD/../qtassetimporters-config.pri) - - qtConfig(system-assimp):!if(cross_compile:host_build) { -- QMAKE_USE_PRIVATE += assimp -+ QMAKE_USE_PRIVATE += quick3d-assimp - } else { - include(../../../3rdparty/assimp/assimp.pri) - } diff --git a/repos/backports/packages/qt/qt59-qtbase-qtconfig256.patch b/repos/backports/packages/qt/qt59-qtbase-qtconfig256.patch deleted file mode 100644 index 1341a568..00000000 --- a/repos/backports/packages/qt/qt59-qtbase-qtconfig256.patch +++ /dev/null @@ -1,18 +0,0 @@ -diff --git a/configure.pri b/configure.pri -index be1b166080..13fdf0b91e 100644 ---- a/configure.pri -+++ b/configure.pri -@@ -796,10 +796,10 @@ defineTest(qtConfOutput_preparePaths) { - "static const char qt_configure_installation [12+11] = \"qt_instdate=2012-12-20\";" \ - "" \ - "/* Installation Info */" \ -- "static const char qt_configure_prefix_path_str [12+256] = \"qt_prfxpath=$$config.input.prefix\";" \ -+ "static const char qt_configure_prefix_path_str [12+1024] = \"qt_prfxpath=$$config.input.prefix\";" \ - "$${LITERAL_HASH}ifdef QT_BUILD_QMAKE" \ -- "static const char qt_configure_ext_prefix_path_str [12+256] = \"qt_epfxpath=$$config.input.extprefix\";" \ -- "static const char qt_configure_host_prefix_path_str [12+256] = \"qt_hpfxpath=$$config.input.hostprefix\";" \ -+ "static const char qt_configure_ext_prefix_path_str [12+1024] = \"qt_epfxpath=$$config.input.extprefix\";" \ -+ "static const char qt_configure_host_prefix_path_str [12+1024] = \"qt_hpfxpath=$$config.input.hostprefix\";" \ - "$${LITERAL_HASH}endif" \ - "" \ - "static const short qt_configure_str_offsets[] = {" \ diff --git a/repos/backports/packages/wxwidgets/math_include.patch b/repos/backports/packages/wxwidgets/math_include.patch deleted file mode 100644 index 152f095d..00000000 --- a/repos/backports/packages/wxwidgets/math_include.patch +++ /dev/null @@ -1,12 +0,0 @@ -diff --git a/src/stc/scintilla/src/Editor.cxx b/src/stc/scintilla/src/Editor.cxx -index cd72953ae7..8c19154313 100644 ---- a/src/stc/scintilla/src/Editor.cxx -+++ b/src/stc/scintilla/src/Editor.cxx -@@ -10,6 +10,7 @@ - #include - #include - #include -+#include - - #include - #include diff --git a/repos/backports/packages/wxwidgets/package.py b/repos/backports/packages/wxwidgets/package.py deleted file mode 100644 index ae4abbf1..00000000 --- a/repos/backports/packages/wxwidgets/package.py +++ /dev/null @@ -1,47 +0,0 @@ -# Copyright 2013-2023 Lawrence Livermore National Security, LLC and other -# Spack Project Developers. See the top-level COPYRIGHT file for details. -# -# SPDX-License-Identifier: (Apache-2.0 OR MIT) - -import sys - -from spack.package import * - - -class Wxwidgets(AutotoolsPackage): - """wxWidgets is a C++ library that lets developers create - applications for Windows, Mac OS X, Linux and other platforms - with a single code base. It has popular language bindings for - Python, Perl, Ruby and many other languages, and unlike other - cross-platform toolkits, wxWidgets gives applications a truly - native look and feel because it uses the platform's native API - rather than emulating the GUI. It's also extensive, free, - open-source and mature.""" - - homepage = "https://www.wxwidgets.org/" - url = "https://github.com/wxWidgets/wxWidgets/releases/download/v3.1.0/wxWidgets-3.1.0.tar.bz2" - git = "https://github.com/wxWidgets/wxWidgets.git" - - version("develop", branch="master") - version("3.1.0", sha256="e082460fb6bf14b7dd6e8ac142598d1d3d0b08a7b5ba402fdbf8711da7e66da8") - version("3.0.2", sha256="346879dc554f3ab8d6da2704f651ecb504a22e9d31c17ef5449b129ed711585d") - version("3.0.1", sha256="bd671b79ec56af8fb3844e11cafceac1a4276fb02c79404d06b91b6c19d2c5f5") - - patch("math_include.patch", when="@3.0.1:3.0.2") - - depends_on("pkgconfig", type="build") - depends_on("gtkplus") - - @when("@:3.0.2") - def build(self, spec, prefix): - make(parallel=False) - - def configure_args(self): - spec = self.spec - options = ["--enable-unicode", "--disable-precomp-headers"] - - # see https://trac.wxwidgets.org/ticket/17639 - if spec.satisfies("@:3.1.0") and sys.platform == "darwin": - options.extend(["--disable-qtkit", "--disable-mediactrl"]) - - return options diff --git a/repos/backports/packages/zlib-ng/package.py b/repos/backports/packages/zlib-ng/package.py deleted file mode 100644 index be65451f..00000000 --- a/repos/backports/packages/zlib-ng/package.py +++ /dev/null @@ -1,65 +0,0 @@ -# Copyright 2013-2023 Lawrence Livermore National Security, LLC and other -# Spack Project Developers. See the top-level COPYRIGHT file for details. -# -# SPDX-License-Identifier: (Apache-2.0 OR MIT) - -from spack.build_systems import autotools, cmake -from spack.package import * - - -class ZlibNg(AutotoolsPackage, CMakePackage): - """zlib replacement with optimizations for next generation systems.""" - - homepage = "https://github.com/zlib-ng/zlib-ng" - url = "https://github.com/zlib-ng/zlib-ng/archive/2.0.0.tar.gz" - git = "https://github.com/zlib-ng/zlib-ng.git" - - maintainers = ["haampie"] - - version("2.1.3", sha256="d20e55f89d71991c59f1c5ad1ef944815e5850526c0d9cd8e504eaed5b24491a") - version("2.1.2", sha256="383560d6b00697c04e8878e26c0187b480971a8bce90ffd26a5a7b0f7ecf1a33") - version("2.0.7", sha256="6c0853bb27738b811f2b4d4af095323c3d5ce36ceed6b50e5f773204fb8f7200") - version("2.0.0", sha256="86993903527d9b12fc543335c19c1d33a93797b3d4d37648b5addae83679ecd8") - - variant("compat", default=True, description="Enable compatibility API") - variant("opt", default=True, description="Enable optimizations") - - provides("zlib-api", when="+compat") - - # Default to autotools, since cmake would result in circular dependencies if it's not - # reused. - build_system("autotools", "cmake", default="autotools") - - # rpath shenanigans, see https://github.com/zlib-ng/zlib-ng/pull/1546 - with when("@2.1.3"): - patch("pr-1546.patch", when="platform=darwin") - patch("pr-1542.patch") # fix sse4.2 detection - patch("pr-1561.patch", when="build_system=autotools") # drop bash dependency - patch("pr-1562.patch") # improve intrinsics detection - - with when("build_system=cmake"): - depends_on("cmake@3.5.1:", type="build") - depends_on("cmake@3.14.0:", type="build", when="@2.1.0:") - - @property - def libs(self): - name = "libz" if self.spec.satisfies("+compat") else "libz-ng" - return find_libraries(name, root=self.prefix, recursive=True, shared=True) - - -class AutotoolsBuilder(autotools.AutotoolsBuilder): - def configure_args(self): - args = [] - if self.spec.satisfies("+compat"): - args.append("--zlib-compat") - if self.spec.satisfies("~opt"): - args.append("--without-optimizations") - return args - - -class CMakeBuilder(cmake.CMakeBuilder): - def cmake_args(self): - return [ - self.define_from_variant("ZLIB_COMPAT", "compat"), - self.define_from_variant("WITH_OPTIM", "opt"), - ] diff --git a/repos/backports/packages/zlib-ng/pr-1542.patch b/repos/backports/packages/zlib-ng/pr-1542.patch deleted file mode 100644 index 675c2c1a..00000000 --- a/repos/backports/packages/zlib-ng/pr-1542.patch +++ /dev/null @@ -1,224 +0,0 @@ -From 8c5d5eca51d9e4cd9aa046dba8f939b3f4012256 Mon Sep 17 00:00:00 2001 -From: Hans Kristian Rosbach -Date: Fri, 21 Jul 2023 13:43:15 +0200 -Subject: [PATCH 1/3] Clean up SSE4.2 support, and no longer use asm fallback - or gcc builtin. - -Defines changing meaning: -X86_SSE42 used to mean the compiler supports crc asm fallback. -X86_SSE42_CRC_INTRIN used to mean compiler supports SSE4.2 intrinsics. - -X86_SSE42 now means compiler supports SSE4.2 intrinsics. - -This therefore also fixes the adler32_sse42 checks, since those were depending -on SSE4.2 intrinsics but was mistakenly checking the X86_SSE42 define. -Now the X86_SSE42 define actually means what it appears to. ---- - CMakeLists.txt | 5 +---- - arch/x86/insert_string_sse42.c | 36 +++++---------------------------- - cmake/detect-intrinsics.cmake | 23 +++------------------ - configure | 37 ++++++++-------------------------- - win32/Makefile.msc | 1 - - 5 files changed, 17 insertions(+), 85 deletions(-) - -diff --git a/CMakeLists.txt b/CMakeLists.txt -index 420a5c78..1e42239a 100644 ---- a/CMakeLists.txt -+++ b/CMakeLists.txt -@@ -827,15 +827,12 @@ if(WITH_OPTIM) - endif() - if(WITH_SSE42) - check_sse42_intrinsics() -- if(HAVE_SSE42CRC_INLINE_ASM OR HAVE_SSE42CRC_INTRIN) -+ if(HAVE_SSE42_INTRIN) - add_definitions(-DX86_SSE42) - set(SSE42_SRCS ${ARCHDIR}/adler32_sse42.c ${ARCHDIR}/insert_string_sse42.c) - add_feature_info(SSE42_CRC 1 "Support SSE4.2 optimized CRC hash generation, using \"${SSE42FLAG}\"") - list(APPEND ZLIB_ARCH_SRCS ${SSE42_SRCS}) - set_property(SOURCE ${SSE42_SRCS} PROPERTY COMPILE_FLAGS "${SSE42FLAG} ${NOLTOFLAG}") -- if(HAVE_SSE42CRC_INTRIN) -- add_definitions(-DX86_SSE42_CRC_INTRIN) -- endif() - else() - set(WITH_SSE42 OFF) - endif() -diff --git a/arch/x86/insert_string_sse42.c b/arch/x86/insert_string_sse42.c -index 565d92f9..ae092a7e 100644 ---- a/arch/x86/insert_string_sse42.c -+++ b/arch/x86/insert_string_sse42.c -@@ -5,38 +5,13 @@ - * - */ - -+#ifdef X86_SSE42 - #include "../../zbuild.h" --#include --#ifdef _MSC_VER --# include --#endif -+#include - #include "../../deflate.h" - --#ifdef X86_SSE42_CRC_INTRIN --# ifdef _MSC_VER --# define HASH_CALC(s, h, val)\ -- h = _mm_crc32_u32(h, val) --# else --# define HASH_CALC(s, h, val)\ -- h = __builtin_ia32_crc32si(h, val) --# endif --#else --# ifdef _MSC_VER --# define HASH_CALC(s, h, val) {\ -- __asm mov edx, h\ -- __asm mov eax, val\ -- __asm crc32 eax, edx\ -- __asm mov h, eax\ -- } --# else --# define HASH_CALC(s, h, val) \ -- __asm__ __volatile__ (\ -- "crc32 %1,%0\n\t"\ -- : "+r" (h)\ -- : "r" (val)\ -- ); --# endif --#endif -+#define HASH_CALC(s, h, val)\ -+ h = _mm_crc32_u32(h, val) - - #define HASH_CALC_VAR h - #define HASH_CALC_VAR_INIT uint32_t h = 0 -@@ -45,6 +20,5 @@ - #define INSERT_STRING insert_string_sse42 - #define QUICK_INSERT_STRING quick_insert_string_sse42 - --#ifdef X86_SSE42 --# include "../../insert_string_tpl.h" -+#include "../../insert_string_tpl.h" - #endif -diff --git a/cmake/detect-intrinsics.cmake b/cmake/detect-intrinsics.cmake -index 9cbc5908..52c54dc8 100644 ---- a/cmake/detect-intrinsics.cmake -+++ b/cmake/detect-intrinsics.cmake -@@ -481,35 +481,18 @@ macro(check_sse42_intrinsics) - set(SSE42FLAG "-msse4.2") - endif() - endif() -- # Check whether compiler supports SSE4.2 CRC inline asm -+ # Check whether compiler supports SSE4.2 intrinsics - set(CMAKE_REQUIRED_FLAGS "${SSE42FLAG} ${NATIVEFLAG}") - check_c_source_compile_or_run( -- "int main(void) { -- unsigned val = 0, h = 0; -- #if defined(_MSC_VER) -- { __asm mov edx, h __asm mov eax, val __asm crc32 eax, edx __asm mov h, eax } -- #else -- __asm__ __volatile__ ( \"crc32 %1,%0\" : \"+r\" (h) : \"r\" (val) ); -- #endif -- return (int)h; -- }" -- HAVE_SSE42CRC_INLINE_ASM -- ) -- # Check whether compiler supports SSE4.2 CRC intrinsics -- check_c_source_compile_or_run( -- "#include -+ "#include - int main(void) { - unsigned crc = 0; - char c = 'c'; -- #if defined(_MSC_VER) - crc = _mm_crc32_u32(crc, c); -- #else -- crc = __builtin_ia32_crc32qi(crc, c); -- #endif - (void)crc; - return 0; - }" -- HAVE_SSE42CRC_INTRIN -+ HAVE_SSE42_INTRIN - ) - set(CMAKE_REQUIRED_FLAGS) - endmacro() -diff --git a/configure b/configure -index 8714590e..6b4e7fff 100755 ---- a/configure -+++ b/configure -@@ -1431,38 +1431,23 @@ EOF - } - - check_sse42_intrinsics() { -- # Check whether compiler supports SSE4.2 CRC inline asm -- cat > $test.c << EOF --int main(void) { -- unsigned val = 0, h = 0; -- __asm__ __volatile__ ( "crc32 %1,%0" : "+r" (h) : "r" (val) ); -- return (int) h; --} --EOF -- if try ${CC} ${CFLAGS} ${sse42flag} $test.c; then -- echo "Checking for SSE4.2 CRC inline assembly ... Yes." | tee -a configure.log -- HAVE_SSE42CRC_INLINE_ASM=1 -- else -- echo "Checking for SSE4.2 CRC inline assembly ... No." | tee -a configure.log -- HAVE_SSE42CRC_INLINE_ASM=0 -- fi -- -- # Check whether compiler supports SSE4.2 CRC intrinsics -+ # Check whether compiler supports SSE4.2 intrinsics - cat > $test.c << EOF -+#include - int main(void) { - unsigned crc = 0; - char c = 'c'; -- crc = __builtin_ia32_crc32qi(crc, c); -+ crc = _mm_crc32_u32(crc, c); - (void)crc; - return 0; - } - EOF - if try ${CC} ${CFLAGS} ${sse42flag} $test.c; then -- echo "Checking for SSE4.2 CRC intrinsics ... Yes." | tee -a configure.log -- HAVE_SSE42CRC_INTRIN=1 -+ echo "Checking for SSE4.2 intrinsics ... Yes." | tee -a configure.log -+ HAVE_SSE42_INTRIN=1 - else -- echo "Checking for SSE4.2 CRC intrinsics ... No." | tee -a configure.log -- HAVE_SSE42CRC_INTRIN=0 -+ echo "Checking for SSE4.2 intrinsics ... No." | tee -a configure.log -+ HAVE_SSE42_INTRIN=0 - fi - } - -@@ -1606,15 +1591,9 @@ case "${ARCH}" in - - check_sse42_intrinsics - -- if test ${HAVE_SSE42CRC_INTRIN} -eq 1 || test ${HAVE_SSE42CRC_INLINE_ASM} -eq 1; then -+ if test ${HAVE_SSE42_INTRIN} -eq 1; then - CFLAGS="${CFLAGS} -DX86_SSE42" - SFLAGS="${SFLAGS} -DX86_SSE42" -- -- if test ${HAVE_SSE42CRC_INTRIN} -eq 1; then -- CFLAGS="${CFLAGS} -DX86_SSE42_CRC_INTRIN" -- SFLAGS="${SFLAGS} -DX86_SSE42_CRC_INTRIN" -- fi -- - ARCH_STATIC_OBJS="${ARCH_STATIC_OBJS} adler32_sse42.o insert_string_sse42.o" - ARCH_SHARED_OBJS="${ARCH_SHARED_OBJS} adler32_sse42.lo insert_string_sse42.lo" - fi -diff --git a/win32/Makefile.msc b/win32/Makefile.msc -index 9ed26f28..3035072b 100644 ---- a/win32/Makefile.msc -+++ b/win32/Makefile.msc -@@ -31,7 +31,6 @@ WFLAGS = \ - -DX86_PCLMULQDQ_CRC \ - -DX86_SSE2 \ - -DX86_SSE42 \ -- -DX86_SSE42_CRC_INTRIN \ - -DX86_SSSE3 \ - -DX86_AVX2 - --- -2.39.2 - diff --git a/repos/backports/packages/zlib-ng/pr-1546.patch b/repos/backports/packages/zlib-ng/pr-1546.patch deleted file mode 100644 index 8966cdd3..00000000 --- a/repos/backports/packages/zlib-ng/pr-1546.patch +++ /dev/null @@ -1,182 +0,0 @@ -From 101bc10dcef8d2cb45a51534180c7134001b07a9 Mon Sep 17 00:00:00 2001 -From: Harmen Stoppels -Date: Mon, 24 Jul 2023 09:37:57 +0200 -Subject: [PATCH 1/3] Relative paths CMAKE_INSTALL_*, absolute paths - CMAKE_INSTALL_FULL_*; use @rpath/libname as install name on macOS - ---- - CMakeLists.txt | 46 ++-------------------------------------------- - configure | 7 +------ - test/pkgcheck.sh | 2 +- - 3 files changed, 4 insertions(+), 51 deletions(-) - -diff --git a/CMakeLists.txt b/CMakeLists.txt -index 003e66db7..46b85bc48 100644 ---- a/CMakeLists.txt -+++ b/CMakeLists.txt -@@ -951,36 +951,8 @@ if(NOT CMAKE_CURRENT_SOURCE_DIR STREQUAL CMAKE_CURRENT_BINARY_DIR) - endif() - endif() - --# Refer to prefix symbolically to ease relocation by end user, --# as Makefile-generated .pc file does. --string(FIND "${CMAKE_INSTALL_INCLUDEDIR}" "${CMAKE_INSTALL_PREFIX}/" INCLUDEDIR_POS) --string(FIND "${CMAKE_INSTALL_LIBDIR}" "${CMAKE_INSTALL_PREFIX}/" LIBDIR_POS) --string(LENGTH "${CMAKE_INSTALL_PREFIX}/" INSTALL_PREFIX_LEN) -- --if(NOT IS_ABSOLUTE "${CMAKE_INSTALL_INCLUDEDIR}") -- set(PC_INC_INSTALL_DIR "\${prefix}/${CMAKE_INSTALL_INCLUDEDIR}") --elseif(INCLUDEDIR_POS EQUAL 0) -- string(SUBSTRING "${CMAKE_INSTALL_INCLUDEDIR}" "${INSTALL_PREFIX_LEN}" "-1" INCLUDEDIR_RELATIVE) -- set(PC_INC_INSTALL_DIR "\${prefix}/${INCLUDEDIR_RELATIVE}") --else() -- set(PC_INC_INSTALL_DIR "${CMAKE_INSTALL_INCLUDEDIR}") --endif() -- --if(APPLE) -- option(WITH_RPATH "Enable RPATH for shared library" OFF) --endif() --if(NOT IS_ABSOLUTE "${CMAKE_INSTALL_LIBDIR}") -- if(APPLE AND WITH_RPATH) -- set(PC_LIB_INSTALL_DIR "${CMAKE_INSTALL_LIBDIR}") -- else() -- set(PC_LIB_INSTALL_DIR "\${exec_prefix}/${CMAKE_INSTALL_LIBDIR}") -- endif() --elseif(LIBDIR_POS EQUAL 0) -- string(SUBSTRING "${CMAKE_INSTALL_LIBDIR}" "${INSTALL_PREFIX_LEN}" "-1" LIBDIR_RELATIVE) -- set(PC_LIB_INSTALL_DIR "\${exec_prefix}/${LIBDIR_RELATIVE}") --else() -- set(PC_LIB_INSTALL_DIR "${CMAKE_INSTALL_LIBDIR}") --endif() -+set(PC_INC_INSTALL_DIR "${CMAKE_INSTALL_FULL_INCLUDEDIR}") -+set(PC_LIB_INSTALL_DIR "${CMAKE_INSTALL_FULL_LIBDIR}") - - #============================================================================ - # zlib -@@ -1142,11 +1114,6 @@ if(NOT DEFINED BUILD_SHARED_LIBS OR BUILD_SHARED_LIBS) - if(NOT APPLE) - set_target_properties(zlib PROPERTIES LINK_FLAGS - "-Wl,--version-script,\"${CMAKE_CURRENT_SOURCE_DIR}/zlib${SUFFIX}.map\"") -- elseif(IS_ABSOLUTE "${CMAKE_INSTALL_LIBDIR}" OR NOT WITH_RPATH) -- # Match configure/make's behavior (i.e. don't use @rpath on mac when using absolute path). -- set_target_properties(zlib PROPERTIES INSTALL_NAME_DIR "@rpath/${CMAKE_INSTALL_FULL_LIBDIR}") -- else() -- set_target_properties(zlib PROPERTIES INSTALL_NAME_DIR "@rpath/${CMAKE_INSTALL_LIBDIR}") - endif() - endif() - if(MSYS) -@@ -1183,11 +1150,6 @@ configure_file(${CMAKE_CURRENT_SOURCE_DIR}/zlib${SUFFIX}.h.in - configure_file(${CMAKE_CURRENT_SOURCE_DIR}/gzread.c.in - ${CMAKE_CURRENT_BINARY_DIR}/gzread.c @ONLY) - --# Fix install directory after generating zlib.pc/zlib-ng.pc --if (NOT IS_ABSOLUTE CMAKE_INSTALL_LIBDIR AND WITH_RPATH) -- set(CMAKE_INSTALL_LIBDIR "/${CMAKE_INSTALL_LIBDIR}") --endif() -- - if (NOT ZLIB_SYMBOL_PREFIX STREQUAL "") - add_feature_info(ZLIB_SYMBOL_PREFIX ON "Publicly exported symbols have a custom prefix") - configure_file(${CMAKE_CURRENT_SOURCE_DIR}/zlib_name_mangling${SUFFIX}.h.in -@@ -1286,8 +1248,4 @@ endif() - - add_feature_info(INSTALL_UTILS INSTALL_UTILS "Copy minigzip and minideflate during install") - --if(APPLE) -- add_feature_info(WITH_RPATH WITH_RPATH "Enable RPATH for shared library") --endif() -- - FEATURE_SUMMARY(WHAT ALL INCLUDE_QUIET_PACKAGES) -diff --git a/configure b/configure -index 29a64badf..6881f7af5 100755 ---- a/configure -+++ b/configure -@@ -513,12 +513,7 @@ if test "$gcc" -eq 1 && ($cc $CFLAGS -c $test.c) >> configure.log 2>&1; then - SHAREDLIBM=${LIBNAME}.$VER1$shared_ext - SHAREDTARGET=$SHAREDLIBV - LDSHARED=${LDSHARED-"$cc"} -- case ${libdir} in -- /*) -- LDSHAREDFLAGS="-dynamiclib -install_name ${libdir}/${SHAREDLIBM} -compatibility_version ${VER1} -current_version ${VER3}" ;; -- *) -- LDSHAREDFLAGS="-dynamiclib -install_name @rpath/${libdir}/${SHAREDLIBM} -compatibility_version ${VER1} -current_version ${VER3}" ;; -- esac -+ LDSHAREDFLAGS="-dynamiclib -install_name @rpath/${SHAREDLIBM} -compatibility_version ${VER1} -current_version ${VER3}" - if libtool -V 2>&1 | grep Apple > /dev/null; then - AR="libtool" - else -diff --git a/test/pkgcheck.sh b/test/pkgcheck.sh -index 629f98ade..6641b300a 100644 ---- a/test/pkgcheck.sh -+++ b/test/pkgcheck.sh -@@ -81,7 +81,7 @@ Darwin) - sysctl -n machdep.cpu.features - sysctl -n machdep.cpu.leaf7_features - sysctl -n machdep.cpu.extfeatures -- CMAKE_ARGS="-DCMAKE_INSTALL_LIBDIR=lib -DPKGCONFIG_INSTALL_DIR=/lib/pkgconfig -DWITH_RPATH=on ${CMAKE_ARGS}" -+ CMAKE_ARGS="-DCMAKE_INSTALL_LIBDIR=lib ${CMAKE_ARGS}" - CONFIGURE_ARGS="--libdir=lib ${CONFIGURE_ARGS}" - ;; - *) - -From c6fbd1459eda454402c3450c670b7e538233b8d4 Mon Sep 17 00:00:00 2001 -From: Harmen Stoppels -Date: Mon, 24 Jul 2023 11:37:31 +0200 -Subject: [PATCH 2/3] relocatable pc files by default, while allowing - discouraged absolute paths for CMAKE_INSTALL_[LIB|INCLUDE]DIR - ---- - CMakeLists.txt | 15 +++++++++++++-- - 1 file changed, 13 insertions(+), 2 deletions(-) - -diff --git a/CMakeLists.txt b/CMakeLists.txt -index 46b85bc48..1894d10d5 100644 ---- a/CMakeLists.txt -+++ b/CMakeLists.txt -@@ -951,8 +951,19 @@ if(NOT CMAKE_CURRENT_SOURCE_DIR STREQUAL CMAKE_CURRENT_BINARY_DIR) - endif() - endif() - --set(PC_INC_INSTALL_DIR "${CMAKE_INSTALL_FULL_INCLUDEDIR}") --set(PC_LIB_INSTALL_DIR "${CMAKE_INSTALL_FULL_LIBDIR}") -+# The user is allowed (but discouraged) to set absolute CMAKE_INSTALL_*DIR paths. -+# If they do, we copy these non-relocatable paths into the pkg-config file. -+if(IS_ABSOLUTE "${CMAKE_INSTALL_INCLUDEDIR}") -+ set(PC_INC_INSTALL_DIR "${CMAKE_INSTALL_INCLUDEDIR}") -+else() -+ set(PC_INC_INSTALL_DIR "\${prefix}/${CMAKE_INSTALL_INCLUDEDIR}") -+endif() -+ -+if(IS_ABSOLUTE "${CMAKE_INSTALL_LIBDIR}") -+ set(PC_LIB_INSTALL_DIR "${CMAKE_INSTALL_LIBDIR}") -+else() -+ set(PC_LIB_INSTALL_DIR "\${exec_prefix}/${CMAKE_INSTALL_LIBDIR}") -+endif() - - #============================================================================ - # zlib - -From 0bae8f7d8379e5863b7c9328f0d71a87a33ca02f Mon Sep 17 00:00:00 2001 -From: Harmen Stoppels -Date: Mon, 24 Jul 2023 10:20:32 +0200 -Subject: [PATCH 3/3] Remove relative configure --lib - ---- - test/pkgcheck.sh | 5 ----- - 1 file changed, 5 deletions(-) - -diff --git a/test/pkgcheck.sh b/test/pkgcheck.sh -index 6641b300a..94a67a191 100644 ---- a/test/pkgcheck.sh -+++ b/test/pkgcheck.sh -@@ -81,11 +81,6 @@ Darwin) - sysctl -n machdep.cpu.features - sysctl -n machdep.cpu.leaf7_features - sysctl -n machdep.cpu.extfeatures -- CMAKE_ARGS="-DCMAKE_INSTALL_LIBDIR=lib ${CMAKE_ARGS}" -- CONFIGURE_ARGS="--libdir=lib ${CONFIGURE_ARGS}" -- ;; --*) -- CMAKE_ARGS="-DCMAKE_INSTALL_LIBDIR=lib ${CMAKE_ARGS}" - ;; - esac - diff --git a/repos/backports/packages/zlib-ng/pr-1561.patch b/repos/backports/packages/zlib-ng/pr-1561.patch deleted file mode 100644 index f87aea68..00000000 --- a/repos/backports/packages/zlib-ng/pr-1561.patch +++ /dev/null @@ -1,210 +0,0 @@ -From f6fb1d350a7b8210cc9c45ed502b3cc34e4dac32 Mon Sep 17 00:00:00 2001 -From: Harmen Stoppels -Date: Mon, 21 Aug 2023 10:13:10 +0200 -Subject: [PATCH 2/3] PR #1561 - ---- - configure | 50 +++++++++++++++++++++++++------------------------- - 1 file changed, 25 insertions(+), 25 deletions(-) - -diff --git a/configure b/configure -index 6b4e7fff..fc78a135 100755 ---- a/configure -+++ b/configure -@@ -1,4 +1,4 @@ --#!/usr/bin/env bash -+#!/bin/sh - # configure script for zlib. - # - # Normally configure builds both a static and a shared library. -@@ -230,13 +230,13 @@ test=ztest$$ - # put arguments in log, also put test file in log if used in arguments - show() - { -- case "$*" in -+ case "$@" in - *$test.c*) - echo "=== $test.c ===" >> configure.log - cat $test.c >> configure.log - echo "===" >> configure.log;; - esac -- echo $* >> configure.log -+ echo "$@" >> configure.log - } - - # check for gcc vs. cc and set compile and link flags based on the system identified by uname -@@ -246,7 +246,7 @@ int main() {return getchar();} - EOF - - cc=${CC-${CROSS_PREFIX}gcc} --echo -n "Checking for compiler... " | tee -a configure.log -+printf "Checking for compiler... " | tee -a configure.log - case "$cc" in - *gcc*) gcc=1 ;; - *clang*) gcc=1 ;; -@@ -401,7 +401,7 @@ if test "$gcc" -eq 1 && ($cc $CFLAGS -c $test.c) >> configure.log 2>&1; then - SFLAGS="${SFLAGS} -DNDEBUG" - fi - if test -z "$uname"; then -- uname=$((uname -s || echo unknown) 2>/dev/null) -+ uname=$( (uname -s || echo unknown) 2>/dev/null) - fi - case "$uname" in - Linux* | linux* | GNU | GNU/* | solaris*) -@@ -483,7 +483,7 @@ if test "$gcc" -eq 1 && ($cc $CFLAGS -c $test.c) >> configure.log 2>&1; then - fi - RC="${CROSS_PREFIX}windres" - RCFLAGS="-I ${BUILDDIR}" -- if [ "$CC" == "mingw32-gcc" ]; then -+ if [ "$CC" = "mingw32-gcc" ]; then - case $ARCH in - i386 | i486 | i586 | i686) RCFLAGS="${RCFLAGS} -F pe-i386";; - esac; -@@ -498,7 +498,7 @@ if test "$gcc" -eq 1 && ($cc $CFLAGS -c $test.c) >> configure.log 2>&1; then - HP-UX*) - LDSHARED=${LDSHARED-"$cc"} - LDSHAREDFLAGS="-shared" -- case $((uname -m || echo unknown) 2>/dev/null) in -+ case $( (uname -m || echo unknown) 2>/dev/null) in - ia64) - shared_ext='.so' - SHAREDLIB='${LIBNAME}.so' ;; -@@ -539,14 +539,14 @@ else - gcc=0 - echo "$CC" | tee -a configure.log - if test -z "$uname"; then -- uname=$((uname -sr || echo unknown) 2>/dev/null) -+ uname=$( (uname -sr || echo unknown) 2>/dev/null) - fi - case "$uname" in - HP-UX*) SFLAGS=${CFLAGS-"-O +z"} - CFLAGS=${CFLAGS-"-O"} - LDSHARED=${LDSHARED-"ld"} - LDSHAREDFLAGS="-b" -- case $((uname -m || echo unknown) 2>/dev/null) in -+ case $( (uname -m || echo unknown) 2>/dev/null) in - ia64) - shared_ext='.so' - SHAREDLIB='${LIBNAME}.so' ;; -@@ -591,15 +591,15 @@ EOF - if ($CC -c $CFLAGS $test.c) 2>/dev/null; then - try() - { -- show $* -- test "$(\( $* \) 2>&1 | tee -a configure.log)" = "" -+ show "$@" -+ test "$( ("$@") 2>&1 | tee -a configure.log)" = "" - } - echo - using any output from compiler to indicate an error >> configure.log - else - try() - { -- show $* -- ( $* ) >> configure.log 2>&1 -+ show "$@" -+ ( "$@" ) >> configure.log 2>&1 - ret=$? - if test $ret -ne 0; then - echo "(exit code $ret)" >> configure.log -@@ -627,7 +627,7 @@ extern int getchar(); - int hello() {return getchar();} - EOF - if test $shared -eq 1; then -- echo -n "Checking for shared library support... " | tee -a configure.log -+ printf "Checking for shared library support... " | tee -a configure.log - # we must test in two steps (cc then ld), required at least on SunOS 4.x - if try $CC -w -c $SFLAGS $test.c && - try $LDSHARED $LDSHAREDFLAGS $LDFLAGS -o $test$shared_ext $test.o $LDSHAREDLIBC; then -@@ -784,7 +784,7 @@ fi - # Rename @ZLIB_SYMBOL_PREFIX@ to $symbol_prefix in gzread.c, zlib.h and zlib_name_mangling.h - sed < $SRCDIR/gzread.c.in "s/@ZLIB_SYMBOL_PREFIX@/$symbol_prefix/g" > gzread.c - sed < $SRCDIR/zlib${SUFFIX}.h.in "s/@ZLIB_SYMBOL_PREFIX@/$symbol_prefix/g" > zlib${SUFFIX}.h --if [[ ! -z $symbol_prefix ]]; then -+if [ ! -z "$symbol_prefix" ]; then - sed < $SRCDIR/zlib_name_mangling${SUFFIX}.h.in "s/@ZLIB_SYMBOL_PREFIX@/$symbol_prefix/g" > zlib_name_mangling${SUFFIX}.h - else - # symbol_prefix is not set, copy the empty mangling header -@@ -814,7 +814,7 @@ fi - echo >> configure.log - - # check for ptrdiff_t and save result in zconf.h --echo -n "Checking for ptrdiff_t... " | tee -a configure.log -+printf "Checking for ptrdiff_t... " | tee -a configure.log - cat > $test.c < - int fun(ptrdiff_t *a) { (void)a; return 0; } -@@ -826,7 +826,7 @@ else - sed < zconf${SUFFIX}.h "/^#ifdef NEED_PTRDIFF_T.* may be/s/def NEED_PTRDIFF_T\(.*\) may be/ 1\1 was/" > zconf${SUFFIX}.temp.h - mv zconf${SUFFIX}.temp.h zconf${SUFFIX}.h - -- echo -n "Checking for sizeof(void *)... " | tee -a configure.log -+ printf "Checking for sizeof(void *)... " | tee -a configure.log - cat > $test.c < - #define COMPILE_TIME_ASSERT(pred) struct s { int x: (pred) ? 1 : -1; } -@@ -864,7 +864,7 @@ if test $compat -eq 1; then - esac - fi - --if [[ ! -z $DEFFILE ]]; then -+if [ ! -z "$DEFFILE" ]; then - mkdir -p win32 - sed < $SRCDIR/$DEFFILE.in "s/@ZLIB_SYMBOL_PREFIX@/$symbol_prefix/g" > $DEFFILE - fi -@@ -1476,14 +1476,14 @@ EOF - - check_vgfma_intrinsics() { - # Check whether "VECTOR GALOIS FIELD MULTIPLY SUM AND ACCUMULATE" intrinsic is available -- echo -n "Checking for -mzarch... " | tee -a configure.log -+ printf "Checking for -mzarch... " | tee -a configure.log - if try $CC -x c -c /dev/null -o /dev/null -mzarch; then - echo Yes. | tee -a configure.log - vgfmaflag="${vgfmaflag} -mzarch" - else - echo No. | tee -a configure.log - fi -- echo -n "Checking for -fzvector... " | tee -a configure.log -+ printf "Checking for -fzvector... " | tee -a configure.log - if try $CC -x c -c /dev/null -o /dev/null -fzvector; then - echo Yes. | tee -a configure.log - vgfmaflag="${vgfmaflag} -fzvector" -@@ -1500,7 +1500,7 @@ int main(void) { - return c[0]; - } - EOF -- echo -n "Checking for VGFMA support... " | tee -a configure.log -+ printf "Checking for VGFMA support... " | tee -a configure.log - if try $CC -c $CFLAGS $vgfmaflag $test.c; then - HAVE_VGFMA_INTRIN=1 - echo "Yes." | tee -a configure.log -@@ -2156,11 +2156,11 @@ for file in $SRCDIR/*.c $SRCDIR/test/*.c $SRCDIR/test/fuzz/*.c $SRCDIR/$ARCHDIR/ - # Check that the include file exists in the current dir, - # otherwise it may be one of the system include header. - if test -e $SRCDIR/$i; then -- echo -n " \$(SRCDIR)/$i" -+ printf " \$(SRCDIR)/$i" - fi - # We also need to check whether the include file is in the ARCHDIR. - if test -e $SRCDIR/$ARCHDIR/$i; then -- echo -n " \$(SRCDIR)/$ARCHDIR/$i" -+ printf " \$(SRCDIR)/$ARCHDIR/$i" - fi - done) - obj=$(basename $(echo $file | sed -e 's/\.c/\.o/g' -e 's#^\./##g')) -@@ -2233,11 +2233,11 @@ for file in $SRCDIR/$ARCHDIR/*.c; do - # Check that the include file exists in the current dir, - # otherwise it may be one of the system include header. - if test -e $SRCDIR/$i; then -- echo -n " \$(SRCTOP)/$i" -+ printf " \$(SRCTOP)/$i" - fi - # We also need to check whether the include file is in the ARCHDIR. - if test -e $SRCDIR/$ARCHDIR/$i; then -- echo -n " \$(SRCDIR)/$i" -+ printf " \$(SRCDIR)/$i" - fi - done) - obj=$(basename $(echo $file | sed -e 's/\.c/\.o/g' -e 's#^\./##g')) --- -2.39.2 - diff --git a/repos/backports/packages/zlib-ng/pr-1562.patch b/repos/backports/packages/zlib-ng/pr-1562.patch deleted file mode 100644 index 70806e90..00000000 --- a/repos/backports/packages/zlib-ng/pr-1562.patch +++ /dev/null @@ -1,432 +0,0 @@ -From 13df84c54aaf06cc7aeb1813ef60b17591d29ea3 Mon Sep 17 00:00:00 2001 -From: Harmen Stoppels -Date: Mon, 21 Aug 2023 11:10:29 +0200 -Subject: [PATCH 3/3] PR #1562 - ---- - cmake/detect-intrinsics.cmake | 118 ++++++++++++---------------------- - configure | 115 ++++++++++----------------------- - 2 files changed, 73 insertions(+), 160 deletions(-) - -diff --git a/cmake/detect-intrinsics.cmake b/cmake/detect-intrinsics.cmake -index 52c54dc8..d476093f 100644 ---- a/cmake/detect-intrinsics.cmake -+++ b/cmake/detect-intrinsics.cmake -@@ -62,28 +62,19 @@ macro(check_avx512_intrinsics) - set(CMAKE_REQUIRED_FLAGS "${AVX512FLAG} ${NATIVEFLAG}") - check_c_source_compile_or_run( - "#include -- int main(void) { -- __m512i x = _mm512_set1_epi8(2); -- const __m512i y = _mm512_set_epi32(0x1020304, 0x5060708, 0x90a0b0c, 0xd0e0f10, -- 0x11121314, 0x15161718, 0x191a1b1c, 0x1d1e1f20, -- 0x21222324, 0x25262728, 0x292a2b2c, 0x2d2e2f30, -- 0x31323334, 0x35363738, 0x393a3b3c, 0x3d3e3f40); -- x = _mm512_sub_epi8(x, y); -- (void)x; -- return 0; -- }" -+ __m512i f(__m512i y) { -+ __m512i x = _mm512_set1_epi8(2); -+ return _mm512_sub_epi8(x, y); -+ } -+ int main(void) { return 0; }" - HAVE_AVX512_INTRIN - ) - - # Evidently both GCC and clang were late to implementing these - check_c_source_compile_or_run( - "#include -- int main(void) { -- __mmask16 a = 0xFF; -- a = _knot_mask16(a); -- (void)a; -- return 0; -- }" -+ __mmask16 f(__mmask16 x) { return _knot_mask16(x); } -+ int main(void) { return 0; }" - HAVE_MASK_INTRIN - ) - set(CMAKE_REQUIRED_FLAGS) -@@ -117,17 +108,11 @@ macro(check_avx512vnni_intrinsics) - set(CMAKE_REQUIRED_FLAGS "${AVX512VNNIFLAG} ${NATIVEFLAG}") - check_c_source_compile_or_run( - "#include -- int main(void) { -- __m512i x = _mm512_set1_epi8(2); -- const __m512i y = _mm512_set_epi8(1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, -- 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, -- 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, -- 56, 57, 58, 59, 60, 61, 62, 63, 64); -+ __m512i f(__m512i x, __m512i y) { - __m512i z = _mm512_setzero_epi32(); -- z = _mm512_dpbusd_epi32(z, x, y); -- (void)z; -- return 0; -- }" -+ return _mm512_dpbusd_epi32(z, x, y); -+ } -+ int main(void) { return 0; }" - HAVE_AVX512VNNI_INTRIN - ) - set(CMAKE_REQUIRED_FLAGS) -@@ -151,13 +136,11 @@ macro(check_avx2_intrinsics) - set(CMAKE_REQUIRED_FLAGS "${AVX2FLAG} ${NATIVEFLAG}") - check_c_source_compile_or_run( - "#include -- int main(void) { -- __m256i x = _mm256_set1_epi16(2); -+ __m256i f(__m256i x) { - const __m256i y = _mm256_set1_epi16(1); -- x = _mm256_subs_epu16(x, y); -- (void)x; -- return 0; -- }" -+ return _mm256_subs_epu16(x, y); -+ } -+ int main(void) { return 0; }" - HAVE_AVX2_INTRIN - ) - set(CMAKE_REQUIRED_FLAGS) -@@ -204,12 +187,8 @@ macro(check_neon_ld4_intrinsics) - #else - # include - #endif -- int main(void) { -- int stack_var[16]; -- int32x4x4_t v = vld1q_s32_x4(stack_var); -- (void)v; -- return 0; -- }" -+ int32x4x4_t f(int var[16]) { return vld1q_s32_x4(var); } -+ int main(void) { return 0; }" - NEON_HAS_LD4) - set(CMAKE_REQUIRED_FLAGS) - endmacro() -@@ -226,13 +205,9 @@ macro(check_pclmulqdq_intrinsics) - set(CMAKE_REQUIRED_FLAGS "${PCLMULFLAG} ${NATIVEFLAG}") - check_c_source_compile_or_run( - "#include -- int main(void) { -- __m128i a = _mm_setzero_si128(); -- __m128i b = _mm_setzero_si128(); -- __m128i c = _mm_clmulepi64_si128(a, b, 0x10); -- (void)c; -- return 0; -- }" -+ #include -+ __m128i f(__m128i a, __m128i b) { return _mm_clmulepi64_si128(a, b, 0x10); } -+ int main(void) { return 0; }" - HAVE_PCLMULQDQ_INTRIN - ) - set(CMAKE_REQUIRED_FLAGS) -@@ -252,13 +227,12 @@ macro(check_vpclmulqdq_intrinsics) - set(CMAKE_REQUIRED_FLAGS "${VPCLMULFLAG} ${NATIVEFLAG}") - check_c_source_compile_or_run( - "#include -- int main(void) { -- __m512i a = _mm512_setzero_si512(); -+ #include -+ __m512i f(__m512i a) { - __m512i b = _mm512_setzero_si512(); -- __m512i c = _mm512_clmulepi64_epi128(a, b, 0x10); -- (void)c; -- return 0; -- }" -+ return _mm512_clmulepi64_epi128(a, b, 0x10); -+ } -+ int main(void) { return 0; }" - HAVE_VPCLMULQDQ_INTRIN - ) - set(CMAKE_REQUIRED_FLAGS) -@@ -431,11 +405,8 @@ macro(check_sse2_intrinsics) - set(CMAKE_REQUIRED_FLAGS "${SSE2FLAG} ${NATIVEFLAG}") - check_c_source_compile_or_run( - "#include -- int main(void) { -- __m128i zero = _mm_setzero_si128(); -- (void)zero; -- return 0; -- }" -+ __m128i f(__m128i x, __m128i y) { return _mm_sad_epu8(x, y); } -+ int main(void) { return 0; }" - HAVE_SSE2_INTRIN - ) - set(CMAKE_REQUIRED_FLAGS) -@@ -457,14 +428,11 @@ macro(check_ssse3_intrinsics) - set(CMAKE_REQUIRED_FLAGS "${SSSE3FLAG} ${NATIVEFLAG}") - check_c_source_compile_or_run( - "#include -- int main(void) { -- __m128i u, v, w; -- u = _mm_set1_epi32(1); -- v = _mm_set1_epi32(2); -- w = _mm_hadd_epi32(u, v); -- (void)w; -- return 0; -- }" -+ __m128i f(__m128i u) { -+ __m128i v = _mm_set1_epi32(1); -+ return _mm_hadd_epi32(u, v); -+ } -+ int main(void) { return 0; }" - HAVE_SSSE3_INTRIN - ) - endmacro() -@@ -485,13 +453,8 @@ macro(check_sse42_intrinsics) - set(CMAKE_REQUIRED_FLAGS "${SSE42FLAG} ${NATIVEFLAG}") - check_c_source_compile_or_run( - "#include -- int main(void) { -- unsigned crc = 0; -- char c = 'c'; -- crc = _mm_crc32_u32(crc, c); -- (void)crc; -- return 0; -- }" -+ unsigned int f(unsigned int a, unsigned int b) { return _mm_crc32_u32(a, b); } -+ int main(void) { return 0; }" - HAVE_SSE42_INTRIN - ) - set(CMAKE_REQUIRED_FLAGS) -@@ -529,13 +492,12 @@ macro(check_xsave_intrinsics) - set(CMAKE_REQUIRED_FLAGS "${XSAVEFLAG} ${NATIVEFLAG}") - check_c_source_compiles( - "#ifdef _WIN32 -- # include -- #else -- # include -- #endif -- int main(void) { -- return _xgetbv(0); -- }" -+ # include -+ #else -+ # include -+ #endif -+ unsigned int f(unsigned int a) { return _xgetbv(a); } -+ int main(void) { return 0; }" - HAVE_XSAVE_INTRIN FAIL_REGEX "not supported") - set(CMAKE_REQUIRED_FLAGS) - endmacro() -diff --git a/configure b/configure -index fc78a135..e5a1965f 100755 ---- a/configure -+++ b/configure -@@ -1023,12 +1023,8 @@ fi - - # Check for __builtin_ctz() support in compiler - cat > $test.c << EOF --int main(void) { -- unsigned int zero = 0; -- long test = __builtin_ctz(zero); -- (void)test; -- return 0; --} -+long f(unsigned int x) { return __builtin_ctz(x); } -+int main(void) { return 0; } - EOF - if try ${CC} ${CFLAGS} $test.c $LDSHAREDLIBC; then - echo "Checking for __builtin_ctz ... Yes." | tee -a configure.log -@@ -1040,12 +1036,8 @@ fi - - # Check for __builtin_ctzll() support in compiler - cat > $test.c << EOF --int main(void) { -- unsigned long long zero = 0; -- long test = __builtin_ctzll(zero); -- (void)test; -- return 0; --} -+long f(unsigned long long x) { return __builtin_ctzll(x); } -+int main(void) { return 0; } - EOF - if try ${CC} ${CFLAGS} $test.c $LDSHAREDLIBC; then - echo "Checking for __builtin_ctzll ... Yes." | tee -a configure.log -@@ -1059,13 +1051,11 @@ check_avx2_intrinsics() { - # Check whether compiler supports AVX2 intrinsics - cat > $test.c << EOF - #include --int main(void) { -- __m256i x = _mm256_set1_epi16(2); -+__m256i f(__m256i x) { - const __m256i y = _mm256_set1_epi16(1); -- x = _mm256_subs_epu16(x, y); -- (void)x; -- return 0; -+ return _mm256_subs_epu16(x, y); - } -+int main(void) { return 0; } - EOF - if try ${CC} ${CFLAGS} ${avx2flag} $test.c; then - echo "Checking for AVX2 intrinsics ... Yes." | tee -a configure.log -@@ -1080,16 +1070,11 @@ check_avx512_intrinsics() { - # Check whether compiler supports AVX512 intrinsics - cat > $test.c << EOF - #include --int main(void) { -- __m512i x = _mm512_set1_epi8(2); -- const __m512i y = _mm512_set_epi32(0x1020304, 0x5060708, 0x90a0b0c, 0xd0e0f10, -- 0x11121314, 0x15161718, 0x191a1b1c, 0x1d1e1f20, -- 0x21222324, 0x25262728, 0x292a2b2c, 0x2d2e2f30, -- 0x31323334, 0x35363738, 0x393a3b3c, 0x3d3e3f40); -- x = _mm512_sub_epi8(x, y); -- (void)x; -- return 0; -+__m512i f(__m512i y) { -+ __m512i x = _mm512_set1_epi8(2); -+ return _mm512_sub_epi8(x, y); - } -+int main(void) { return 0; } - EOF - if try ${CC} ${CFLAGS} ${avx512flag} $test.c; then - echo "Checking for AVX512 intrinsics ... Yes." | tee -a configure.log -@@ -1133,17 +1118,11 @@ check_avx512vnni_intrinsics() { - # Check whether compiler supports AVX512-VNNI intrinsics - cat > $test.c << EOF - #include --int main(void) { -- __m512i x = _mm512_set1_epi8(2); -- const __m512i y = _mm512_set_epi8(1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, -- 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, -- 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, -- 56, 57, 58, 59, 60, 61, 62, 63, 64); -+__m512i f(__m512i x, __m512i y) { - __m512i z = _mm512_setzero_epi32(); -- z = _mm512_dpbusd_epi32(z, x, y); -- (void)z; -- return 0; -+ return _mm512_dpbusd_epi32(z, x, y); - } -+int main(void) { return 0; } - EOF - if try ${CC} ${CFLAGS} ${avx512vnniflag} $test.c; then - echo "Checking for AVX512VNNI intrinsics ... Yes." | tee -a configure.log -@@ -1158,12 +1137,8 @@ check_mask_intrinsics() { - # Check whether compiler supports AVX512 k-mask intrinsics - cat > $test.c << EOF - #include --int main(void) { -- __mmask16 a = 0xFF; -- a = _knot_mask16(a); -- (void)a; -- return 0; --} -+__mmask16 f(__mmask16 x) { return _knot_mask16(x); } -+int main(void) { return 0; } - EOF - if try ${CC} ${CFLAGS} ${avx512flag} $test.c; then - echo "Checking for AVX512 k-mask intrinsics ... Yes." | tee -a configure.log -@@ -1230,12 +1205,8 @@ check_neon_ld4_intrinsics() { - #else - # include - #endif --int main(void) { -- int stack_var[16]; -- int32x4x4_t v = vld1q_s32_x4(stack_var); -- (void)v; -- return 0; --} -+int32x4x4_t f(int var[16]) { return vld1q_s32_x4(var); } -+int main(void) { return 0; } - EOF - if try $CC -c $CFLAGS $neonflag $test.c; then - NEON_HAS_LD4=1 -@@ -1251,13 +1222,8 @@ check_pclmulqdq_intrinsics() { - cat > $test.c << EOF - #include - #include --int main(void) { -- __m128i a = _mm_setzero_si128(); -- __m128i b = _mm_setzero_si128(); -- __m128i c = _mm_clmulepi64_si128(a, b, 0x10); -- (void)c; -- return 0; --} -+__m128i f(__m128i a, __m128i b) { return _mm_clmulepi64_si128(a, b, 0x10); } -+int main(void) { return 0; } - EOF - if try ${CC} ${CFLAGS} ${pclmulflag} $test.c; then - echo "Checking for PCLMULQDQ intrinsics ... Yes." | tee -a configure.log -@@ -1273,13 +1239,11 @@ check_vpclmulqdq_intrinsics() { - cat > $test.c << EOF - #include - #include --int main(void) { -- __m512i a = _mm512_setzero_si512(); -+__m512i f(__m512i a) { - __m512i b = _mm512_setzero_si512(); -- __m512i c = _mm512_clmulepi64_epi128(a, b, 0x10); -- (void)c; -- return 0; -+ return _mm512_clmulepi64_epi128(a, b, 0x10); - } -+int main(void) { return 0; } - EOF - if try ${CC} ${CFLAGS} ${vpclmulflag} $test.c; then - echo "Checking for VPCLMULQDQ intrinsics ... Yes." | tee -a configure.log -@@ -1298,9 +1262,8 @@ check_xsave_intrinsics() { - #else - # include - #endif --int main(void) { -- return _xgetbv(0); --} -+unsigned int f(unsigned int a) { return _xgetbv(a); } -+int main(void) { return 0; } - EOF - if try ${CC} ${CFLAGS} ${xsaveflag} $test.c; then - echo "Checking for XSAVE intrinsics ... Yes." | tee -a configure.log -@@ -1415,11 +1378,8 @@ check_sse2_intrinsics() { - # Check whether compiler supports SSE2 intrinsics - cat > $test.c << EOF - #include --int main(void) { -- __m128i zero = _mm_setzero_si128(); -- (void)zero; -- return 0; --} -+__m128i f(__m128i x, __m128i y) { return _mm_sad_epu8(x, y); } -+int main(void) { return 0; } - EOF - if try ${CC} ${CFLAGS} ${sse2flag} $test.c; then - echo "Checking for SSE2 intrinsics ... Yes." | tee -a configure.log -@@ -1434,13 +1394,8 @@ check_sse42_intrinsics() { - # Check whether compiler supports SSE4.2 intrinsics - cat > $test.c << EOF - #include --int main(void) { -- unsigned crc = 0; -- char c = 'c'; -- crc = _mm_crc32_u32(crc, c); -- (void)crc; -- return 0; --} -+unsigned int f(unsigned int a, unsigned int b) { return _mm_crc32_u32(a, b); } -+int main(void) { return 0; } - EOF - if try ${CC} ${CFLAGS} ${sse42flag} $test.c; then - echo "Checking for SSE4.2 intrinsics ... Yes." | tee -a configure.log -@@ -1455,15 +1410,11 @@ check_ssse3_intrinsics() { - # Check whether compiler supports SSSE3 intrinsics - cat > $test.c << EOF - #include --int main(void) --{ -- __m128i u, v, w; -- u = _mm_set1_epi32(1); -- v = _mm_set1_epi32(2); -- w = _mm_hadd_epi32(u, v); -- (void)w; -- return 0; -+__m128i f(__m128i u) { -+ __m128i v = _mm_set1_epi32(1); -+ return _mm_hadd_epi32(u, v); - } -+int main(void) { return 0; } - EOF - if try ${CC} ${CFLAGS} ${ssse3flag} $test.c; then - echo "Checking for SSSE3 intrinsics ... Yes." | tee -a configure.log --- -2.39.2 - diff --git a/repos/backports/packages/zlib/configure-cc.patch b/repos/backports/packages/zlib/configure-cc.patch deleted file mode 100644 index 0136071e..00000000 --- a/repos/backports/packages/zlib/configure-cc.patch +++ /dev/null @@ -1,24 +0,0 @@ -From 05796d3d8d5546cf1b4dfe2cd72ab746afae505d Mon Sep 17 00:00:00 2001 -From: Mark Adler -Date: Mon, 28 Mar 2022 18:34:10 -0700 -Subject: [PATCH] Fix configure issue that discarded provided CC definition. - ---- - configure | 3 +++ - 1 file changed, 3 insertions(+) - -diff --git a/configure b/configure -index 52ff4a04e..3fa3e8618 100755 ---- a/configure -+++ b/configure -@@ -174,7 +174,10 @@ if test -z "$CC"; then - else - cc=${CROSS_PREFIX}cc - fi -+else -+ cc=${CC} - fi -+ - cflags=${CFLAGS-"-O3"} - # to force the asm version use: CFLAGS="-O3 -DASMV" ./configure - case "$cc" in diff --git a/repos/backports/packages/zlib/package.py b/repos/backports/packages/zlib/package.py deleted file mode 100644 index a4edbea4..00000000 --- a/repos/backports/packages/zlib/package.py +++ /dev/null @@ -1,145 +0,0 @@ -# Copyright 2013-2023 Lawrence Livermore National Security, LLC and other -# Spack Project Developers. See the top-level COPYRIGHT file for details. -# -# SPDX-License-Identifier: (Apache-2.0 OR MIT) - - -# Although zlib comes with a configure script, it does not use Autotools -# The AutotoolsPackage causes zlib to fail to build with PGI -import glob -import os - -import spack.build_systems.generic -import spack.build_systems.makefile -from spack.package import * - - -class Zlib(MakefilePackage, Package): - """A free, general-purpose, legally unencumbered lossless - data-compression library. - """ - - homepage = "https://zlib.net" - # URL must remain http:// so Spack can bootstrap curl - url = "http://zlib.net/fossils/zlib-1.2.11.tar.gz" - git = "https://github.com/madler/zlib.git" - - version("1.3", sha256="ff0ba4c292013dbc27530b3a81e1f9a813cd39de01ca5e0f8bf355702efa593e") - version("1.2.13", sha256="b3a24de97a8fdbc835b9833169501030b8977031bcb54b3b3ac13740f846ab30") - version( - "1.2.12", - sha256="91844808532e5ce316b3c010929493c0244f3d37593afd6de04f71821d5136d9", - deprecated=True, - ) - version( - "1.2.11", - sha256="c3e5e9fdd5004dcb542feda5ee4f0ff0744628baf8ed2dd5d66f8ca1197cb1a1", - deprecated=True, - ) - version( - "1.2.8", - sha256="36658cb768a54c1d4dec43c3116c27ed893e88b02ecfcb44f2166f9c0b7f2a0d", - deprecated=True, - ) - version( - "1.2.3", - sha256="1795c7d067a43174113fdf03447532f373e1c6c57c08d61d9e4e9be5e244b05e", - deprecated=True, - ) - - build_system("makefile", conditional("generic", when="platform=windows"), default="makefile") - - variant("pic", default=True, description="Produce position-independent code (for shared libs)") - variant("shared", default=True, description="Enables the build of shared libraries.") - variant("optimize", default=True, description="Enable -O2 for a more optimized lib") - - conflicts("build_system=makefile", when="platform=windows") - - patch("w_patch.patch", when="@1.2.11%cce") - patch("configure-cc.patch", when="@1.2.12") - - provides("zlib-api") - - @property - def libs(self): - shared = "+shared" in self.spec - return find_libraries(["libz"], root=self.prefix, recursive=True, shared=shared) - - -class SetupEnvironment: - def setup_build_environment(self, env): - if "+pic" in self.spec: - env.append_flags("CFLAGS", self.pkg.compiler.cc_pic_flag) - if "+optimize" in self.spec: - env.append_flags("CFLAGS", "-O2") - - -class MakefileBuilder(spack.build_systems.makefile.MakefileBuilder, SetupEnvironment): - def edit(self, pkg, spec, prefix): - config_args = [] - if "~shared" in self.spec: - config_args.append("--static") - configure("--prefix={0}".format(prefix), *config_args) - - if "+shared" in self.spec: - # We need to fix the building of the shared libraries with compilers that are not - # recognized as gcc. Note that a compiler is recognized as gcc if it has "gcc" or - # "clang" substring either in its executable name (including the path) or in the output - # generated with the `-v` flag (i.e '$CC -v 2>&1'). The latter is the reason why, for - # example, %intel and %oneapi are often recognized as gcc: they almost always contain - # "gcc" in the verbose output. Another example is %pgi, which has "gcc" in the name of - # the C compiler (pgcc) and in the verbose output (e.g. "pgcc-Warning-No files to - # process"). Although we should not rely on the false positive results of the configure - # script but patch the makefile for all the aforementioned compilers, given the - # importance of the package, we try to be conservative for now and do the patching only - # for compilers that will not produce a correct shared library otherwise. - if self.spec.compiler.name in ["nvhpc"]: - if "~pic" in self.spec: - # In this case, we should build the static library without PIC, therefore we - # don't append the respective compiler flag to CFLAGS in the build environment. - # However, we need the flag for the objects of the shared library: - filter_file( - r"^(SFLAGS *=.*)$", - r"\1 {0}".format(self.pkg.compiler.cc_pic_flag), - "Makefile", - ) - if any(self.spec.satisfies("platform={0}".format(p)) for p in ["linux", "cray"]): - # Without the following, the shared library will not have a soname entry. - # Currently, we support linux and cray platforms only. - filter_file( - r"^(LDSHARED *= *).*$", - # Note that we should use '-Wl,` and not self.pkg.compiler.linker_arg - # because the former is understood by virtually every C compiler and the - # latter might be meant for the Fortran compiler only (e.g. NAG): - r"\1 {0} -shared " - r"-Wl,-soname,libz.{1}.{2},--version-script,zlib.map".format( - spack_cc, dso_suffix, self.spec.version.up_to(1) - ), - "Makefile", - ) - - -class GenericBuilder(spack.build_systems.generic.GenericBuilder, SetupEnvironment): - def install(self, pkg, spec, prefix): - nmake("-f" "win32\\Makefile.msc") - build_dir = pkg.stage.source_path - install_tree = { - "bin": glob.glob(os.path.join(build_dir, "*.dll")), - "lib": glob.glob(os.path.join(build_dir, "*.lib")), - } - compose_src_path = lambda x: os.path.join(build_dir, x) - install_tree["include"] = [compose_src_path("zlib.h"), compose_src_path("zconf.h")] - # Windows path seps are fine here as this method is Windows specific. - install_tree["share\\man\\man3"] = [compose_src_path("zlib.3")] - - def installtree(dst, tree): - for inst_dir in tree: - install_dst = getattr(dst, inst_dir) - try: - os.makedirs(install_dst) - except OSError: - pass - for file in tree[inst_dir]: - install(file, install_dst) - - installtree(prefix, install_tree) diff --git a/repos/backports/packages/zlib/w_patch.patch b/repos/backports/packages/zlib/w_patch.patch deleted file mode 100644 index 756cff6a..00000000 --- a/repos/backports/packages/zlib/w_patch.patch +++ /dev/null @@ -1,13 +0,0 @@ -diff --git a/configure b/configure -index e974d1f..ed26a63 100755 ---- a/configure -+++ b/configure -@@ -409,7 +409,7 @@ EOF - if test $shared -eq 1; then - echo Checking for shared library support... | tee -a configure.log - # we must test in two steps (cc then ld), required at least on SunOS 4.x -- if try $CC -w -c $SFLAGS $test.c && -+ if try $CC -c $SFLAGS $test.c && - try $LDSHARED $SFLAGS -o $test$shared_ext $test.o; then - echo Building shared library $SHAREDLIBV with $CC. | tee -a configure.log - elif test -z "$old_cc" -a -z "$old_cflags"; then diff --git a/repos/backports/packages/zstd/package.py b/repos/backports/packages/zstd/package.py deleted file mode 100644 index bef1e2ce..00000000 --- a/repos/backports/packages/zstd/package.py +++ /dev/null @@ -1,122 +0,0 @@ -# Copyright 2013-2023 Lawrence Livermore National Security, LLC and other -# Spack Project Developers. See the top-level COPYRIGHT file for details. -# -# SPDX-License-Identifier: (Apache-2.0 OR MIT) - -import os - -from spack.build_systems.cmake import CMakeBuilder -from spack.build_systems.makefile import MakefileBuilder -from spack.package import * - - -class Zstd(CMakePackage, MakefilePackage): - """Zstandard, or zstd as short version, is a fast lossless compression - algorithm, targeting real-time compression scenarios at zlib-level and - better compression ratios.""" - - homepage = "https://facebook.github.io/zstd/" - url = "https://github.com/facebook/zstd/archive/v1.4.3.tar.gz" - git = "https://github.com/facebook/zstd.git" - - maintainers = ["haampie"] - - version("develop", branch="dev") - version("1.5.5", sha256="98e9c3d949d1b924e28e01eccb7deed865eefebf25c2f21c702e5cd5b63b85e1") - version("1.5.4", sha256="35ad983197f8f8eb0c963877bf8be50490a0b3df54b4edeb8399ba8a8b2f60a4") - version("1.5.2", sha256="f7de13462f7a82c29ab865820149e778cbfe01087b3a55b5332707abf9db4a6e") - version("1.5.0", sha256="0d9ade222c64e912d6957b11c923e214e2e010a18f39bec102f572e693ba2867") - version("1.4.9", sha256="acf714d98e3db7b876e5b540cbf6dee298f60eb3c0723104f6d3f065cd60d6a8") - version("1.4.8", sha256="f176f0626cb797022fbf257c3c644d71c1c747bb74c32201f9203654da35e9fa") - version("1.4.7", sha256="085500c8d0b9c83afbc1dc0d8b4889336ad019eba930c5d6a9c6c86c20c769c8") - version("1.4.5", sha256="734d1f565c42f691f8420c8d06783ad818060fc390dee43ae0a89f86d0a4f8c2") - version("1.4.4", sha256="a364f5162c7d1a455cc915e8e3cf5f4bd8b75d09bc0f53965b0c9ca1383c52c8") - version("1.4.3", sha256="5eda3502ecc285c3c92ee0cc8cd002234dee39d539b3f692997a0e80de1d33de") - version("1.4.2", sha256="7a6e1dad34054b35e2e847eb3289be8820a5d378228802239852f913c6dcf6a7") - version("1.4.0", sha256="63be339137d2b683c6d19a9e34f4fb684790e864fee13c7dd40e197a64c705c1") - version("1.3.8", sha256="90d902a1282cc4e197a8023b6d6e8d331c1fd1dfe60f7f8e4ee9da40da886dc3") - version("1.3.0", sha256="0fdba643b438b7cbce700dcc0e7b3e3da6d829088c63757a5984930e2f70b348") - version("1.1.2", sha256="980b8febb0118e22f6ed70d23b5b3e600995dbf7489c1f6d6122c1411cdda8d8") - - variant("programs", default=False, description="Build executables") - variant( - "libs", - default="shared,static", - values=("shared", "static"), - multi=True, - description="Build shared libs, static libs or both", - ) - variant( - "compression", - when="+programs", - values=any_combination_of("zlib", "lz4", "lzma"), - description="Enable support for additional compression methods in programs", - ) - - depends_on("zlib", when="compression=zlib") - depends_on("lz4", when="compression=lz4") - depends_on("xz", when="compression=lzma") - - # +programs builds vendored xxhash, which uses unsupported builtins - # (last tested: nvhpc@22.3) - conflicts("+programs %nvhpc") - - build_system("cmake", "makefile", default="makefile") - - -class CMakeBuilder(CMakeBuilder): - @property - def root_cmakelists_dir(self): - return os.path.join(super().root_cmakelists_dir, "build", "cmake") - - def cmake_args(self): - spec = self.spec - args = [] - args.append(self.define_from_variant("ZSTD_BUILD_PROGRAMS", "programs")) - args.extend( - [ - self.define("ZSTD_BUILD_STATIC", self.spec.satisfies("libs=static")), - self.define("ZSTD_BUILD_SHARED", self.spec.satisfies("libs=shared")), - ] - ) - if "compression=zlib" in spec: - args.append(self.define("ZSTD_ZLIB_SUPPORT", True)) - if "compression=lzma" in spec: - args.append(self.define("ZSTD_LZMA_SUPPORT", True)) - if "compression=lz4" in spec: - args.append(self.define("ZSTD_LZ4_SUPPORT", True)) - return args - - -class MakefileBuilder(MakefileBuilder): - def build(self, pkg, spec, prefix): - pass - - def install(self, pkg, spec, prefix): - args = ["VERBOSE=1", "PREFIX=" + prefix] - - # Tested %nvhpc@22.3. No support for -MP - if "%nvhpc" in self.spec: - args.append("DEPFLAGS=-MT $@ -MMD -MF") - # library targets - lib_args = ["-C", "lib"] + args + ["install-pc", "install-includes"] - if "libs=shared" in spec: - lib_args.append("install-shared") - if "libs=static" in spec: - lib_args.append("install-static") - - # install the library - make(*lib_args) - # install the programs - if "+programs" in spec: - programs_args = ["-C", "programs"] + args - # additional compression programs have to be turned off, otherwise the - # makefile will detect them. - if "compression=zlib" not in spec: - programs_args.append("HAVE_ZLIB=0") - if "compression=lzma" not in spec: - programs_args.append("HAVE_LZMA=0") - if "compression=lz4" not in spec: - programs_args.append("HAVE_LZ4=0") - programs_args.append("install") - make(*programs_args) diff --git a/repos/backports/repo.yaml b/repos/backports/repo.yaml deleted file mode 100644 index b82bd2c3..00000000 --- a/repos/backports/repo.yaml +++ /dev/null @@ -1,2 +0,0 @@ -repo: - namespace: ucdavis.backports diff --git a/repos/hpccf/packages/dbus/package.py b/repos/forked/deprecated/dbus/package.py similarity index 100% rename from repos/hpccf/packages/dbus/package.py rename to repos/forked/deprecated/dbus/package.py diff --git a/repos/hpccf/packages/gatk/gatk.sh b/repos/forked/deprecated/gatk/gatk.sh similarity index 100% rename from repos/hpccf/packages/gatk/gatk.sh rename to repos/forked/deprecated/gatk/gatk.sh diff --git a/repos/hpccf/packages/gatk/package.py b/repos/forked/deprecated/gatk/package.py similarity index 100% rename from repos/hpccf/packages/gatk/package.py rename to repos/forked/deprecated/gatk/package.py diff --git a/repos/backports/packages/julia/armgcc.patch b/repos/forked/deprecated/julia/armgcc.patch similarity index 100% rename from repos/backports/packages/julia/armgcc.patch rename to repos/forked/deprecated/julia/armgcc.patch diff --git a/repos/backports/packages/julia/fix-gfortran.patch b/repos/forked/deprecated/julia/fix-gfortran.patch similarity index 100% rename from repos/backports/packages/julia/fix-gfortran.patch rename to repos/forked/deprecated/julia/fix-gfortran.patch diff --git a/repos/backports/packages/julia/gcc-ifdef.patch b/repos/forked/deprecated/julia/gcc-ifdef.patch similarity index 100% rename from repos/backports/packages/julia/gcc-ifdef.patch rename to repos/forked/deprecated/julia/gcc-ifdef.patch diff --git a/repos/backports/packages/julia/julia-1.6-system-libwhich-and-p7zip-symlink.patch b/repos/forked/deprecated/julia/julia-1.6-system-libwhich-and-p7zip-symlink.patch similarity index 100% rename from repos/backports/packages/julia/julia-1.6-system-libwhich-and-p7zip-symlink.patch rename to repos/forked/deprecated/julia/julia-1.6-system-libwhich-and-p7zip-symlink.patch diff --git a/repos/backports/packages/julia/llvm-NDEBUG.patch b/repos/forked/deprecated/julia/llvm-NDEBUG.patch similarity index 100% rename from repos/backports/packages/julia/llvm-NDEBUG.patch rename to repos/forked/deprecated/julia/llvm-NDEBUG.patch diff --git a/repos/backports/packages/julia/llvm7-symver-jlprefix.patch b/repos/forked/deprecated/julia/llvm7-symver-jlprefix.patch similarity index 100% rename from repos/backports/packages/julia/llvm7-symver-jlprefix.patch rename to repos/forked/deprecated/julia/llvm7-symver-jlprefix.patch diff --git a/repos/forked/deprecated/julia/package.py b/repos/forked/deprecated/julia/package.py new file mode 100644 index 00000000..0d6a71ff --- /dev/null +++ b/repos/forked/deprecated/julia/package.py @@ -0,0 +1,326 @@ +# Copyright 2013-2023 Lawrence Livermore National Security, LLC and other +# Spack Project Developers. See the top-level COPYRIGHT file for details. +# +# SPDX-License-Identifier: (Apache-2.0 OR MIT) + +import os + +from spack.package import * +from spack.version import ver + + +def get_best_target(microarch, compiler_name, compiler_version): + for compiler_entry in microarch.compilers[compiler_name]: + if compiler_version.satisfies(ver(compiler_entry["versions"])): + return compiler_entry.get("name", microarch.name) + raise InstallError("Could not find a target architecture") + + +class Julia(MakefilePackage): + """The Julia Language: A fresh approach to technical computing""" + + homepage = "https://julialang.org" + url = "https://github.com/JuliaLang/julia/releases/download/v1.7.0/julia-1.7.0.tar.gz" + git = "https://github.com/JuliaLang/julia.git" + + maintainers("glennpj", "vchuravy", "haampie", "giordano") + + version("master", branch="master") + version("1.9.0", sha256="48f4c8a7d5f33d0bc6ce24226df20ab49e385c2d0c3767ec8dfdb449602095b2") + version("1.8.5", sha256="d31026cc6b275d14abce26fd9fd5b4552ac9d2ce8bde4291e494468af5743031") + version("1.8.4", sha256="b7b8ee64fb947db8d61104f231e1b25342fe330d29e0d2273f93c264f32c5333") + version("1.8.3", sha256="4d8d460fcae5c6f8306a3e3c14371635c1a26f47c3ce62b2950cf9234b6ec849") + version("1.8.2", sha256="3e2cea35bf5df963ed7b75a83e8febfc000acf1e664ecd657a0772508eb1fb5d") + version("1.8.1", sha256="066f4ca7a2ad39b003e2af77dbecfbfb9b0a1cb1664033f657ffdbe2f374d956") + version("1.8.0", sha256="0fa980286d6d912f24ed9f90a02930560d985e0ada8233a4ae5610884feb2438") + + version("1.7.3", sha256="06df2a81e6a18d0333ffa58d36f6eb84934c38984898f9e0c3072c8facaa7306") + version("1.7.2", sha256="0847943dd65001f3322b00c7dc4e12f56e70e98c6b798ccbd4f02d27ce161fef") + version("1.7.1", sha256="17d298e50e4e3dd897246ccebd9f40ce5b89077fa36217860efaec4576aa718e") + version("1.7.0", sha256="8e870dbef71bc72469933317a1a18214fd1b4b12f1080784af7b2c56177efcb4") + + version("1.6.7", sha256="74af1dc7b5841757a06a899923a62cac04665c09829324e8bf53cfb66f7b3d61") + version("1.6.6", sha256="a8023708cadb2649395769810e6cec8afc8e352aa6d407189b6c88b86d7f5090") + version("1.6.5", sha256="b70ae299ff6b63a9e9cbf697147a48a31b4639476d1947cb52e4201e444f23cb") + version("1.6.4", sha256="a4aa921030250f58015201e28204bff604a007defc5a379a608723e6bb1808d4") + + variant("precompile", default=True, description="Improve julia startup time") + variant("openlibm", default=True, description="Use openlibm instead of libm") + + # Note, we just use link_llvm_dylib so that we not only get a libLLVM, + # but also so that llvm-config --libfiles gives only the dylib. Without + # it it also gives static libraries, and breaks Julia's build. + depends_on("llvm targets=amdgpu,bpf,nvptx,webassembly version_suffix=jl +link_llvm_dylib") + depends_on("libuv", when="@:1.7") + depends_on("libuv-julia@1.42.0", when="@1.8.0:1.8.1") + depends_on("libuv-julia@1.44.2", when="@1.8.2:") + + # Do not use internal unwind. We need to use a conflict, because + # `internal_unwind` is defined only when `+clang`. + conflicts("^llvm+internal_unwind") + + with when("@1.9.0:1.9"): + # libssh2.so.1, libpcre2-8.so.0, mbedtls.so.14, mbedcrypto.so.7, mbedx509.so.1 + # openlibm.so.4, libblastrampoline.so.5, libgit2.so.1.5, libnghttp2.so.14, + # libcurl.so.4 + depends_on("libblastrampoline@5.4.0:5") + depends_on("libgit2@1.5.0:1.5") + depends_on("libssh2@1.10.0:1.10") + depends_on("llvm@14.0.6 +lld shlib_symbol_version=JL_LLVM_14.0") + depends_on("mbedtls@2.28.0:2.28") + depends_on("openlibm@0.8.1:0.8", when="+openlibm") + depends_on("nghttp2@1.48.0:1.48") + depends_on("curl@7.84.0:") + + with when("@1.8.0:1.8"): + # libssh2.so.1, libpcre2-8.so.0, mbedtls.so.14, mbedcrypto.so.7, mbedx509.so.1 + # openlibm.so.4, libblastrampoline.so.5, libgit2.so.1.3, libnghttp2.so.14, + # libcurl.so.4 + depends_on("libblastrampoline@5.1.0:5") + depends_on("libgit2@1.3.0:1.3") + depends_on("libssh2@1.10.0:1.10") + depends_on("llvm@13.0.1 shlib_symbol_version=JL_LLVM_13.0") + depends_on("mbedtls@2.28.0:2.28") + depends_on("openlibm@0.8.1:0.8", when="+openlibm") + depends_on("nghttp2@1.47.0:1.47") + depends_on("curl@7.84.0:") + + with when("@1.7.0:1.7"): + # libssh2.so.1, libpcre2-8.so.0, mbedtls.so.13, mbedcrypto.so.5, mbedx509.so.1 + # openlibm.so.3 + depends_on("libblastrampoline@3.0.0:3") + depends_on("libgit2@1.1.0:1.1") + depends_on("libssh2@1.9.0:1.9") + depends_on("libuv@1.42.0") + depends_on("llvm@12.0.1") + depends_on("mbedtls@2.24.0:2.24") + depends_on("openlibm@0.7.0:0.7", when="+openlibm") + depends_on("curl@7.73.0:") + + with when("@1.6.0:1.6"): + # libssh2.so.1, libpcre2-8.so.0, mbedtls.so.13, mbedcrypto.so.5, mbedx509.so.1 + # openlibm.so.3, (todo: complete this list for upperbounds...) + depends_on("libgit2@1.1.0:1.1") + depends_on("libssh2@1.9.0:1.9") + depends_on("libuv@1.39.0") + depends_on("llvm@11.0.1") + depends_on("mbedtls@2.24.0:2.24") + depends_on("openlibm@0.7.0:0.7", when="+openlibm") + depends_on("curl@7.73.0:") + + # Patches for llvm + depends_on("llvm", patches="llvm7-symver-jlprefix.patch", when="@:1.7") + depends_on( + "llvm", + when="^llvm@11.0.1", + patches=patch( + "https://raw.githubusercontent.com/spack/patches/0b543955683a903d711a3e95ff29a4ce3951ca13/julia/llvm-11.0.1-julia-1.6.patch", + sha256="8866ee0595272b826b72d173301a2e625855e80680a84af837f1ed6db4657f42", + ), + ) + depends_on( + "llvm", + when="^llvm@12.0.1", + patches=patch( + "https://github.com/JuliaLang/llvm-project/compare/fed41342a82f5a3a9201819a82bf7a48313e296b...980d2f60a8524c5546397db9e8bbb7d6ea56c1b7.patch", + sha256="10cb42f80c2eaad3e9c87cb818b6676f1be26737bdf972c77392d71707386aa4", + ), + ) + depends_on( + "llvm", + when="^llvm@13.0.1", + patches=patch( + "https://github.com/JuliaLang/llvm-project/compare/75e33f71c2dae584b13a7d1186ae0a038ba98838...2f4460bd46aa80d4fe0d80c3dabcb10379e8d61b.patch", + sha256="45f72c59ae5cf45461e9cd8b224ca49b739d885c79b3786026433c6c22f83b5f", + ), + ) + + # HPCCF: fix patch sha256sum + depends_on( + "llvm", + when="^llvm@14.0.6", + patches=patch( + "https://github.com/JuliaLang/llvm-project/compare/f28c006a5895fc0e329fe15fead81e37457cb1d1...5c82f5309b10fab0adf6a94969e0dddffdb3dbce.patch", + sha256="a2818fc384e577eba6ad58a3f5ed25d2b03ad93518b496bfb5b03877c5962f8d", + ), + ) + + # Patches for libuv + depends_on( + "libuv", + when="^libuv@1.39.0", + patches=patch( + "https://raw.githubusercontent.com/spack/patches/b59ca193423c4c388254f528afabb906b5373162/julia/libuv-1.39.0.patch", + sha256="f7c1e7341e89dc35dfd85435ba35833beaef575b997c3f978c27d0dbf805149b", + ), + ) + depends_on( + "libuv", + when="^libuv@1.42.0", + patches=patch( + "https://raw.githubusercontent.com/spack/patches/89b6d14eb1f3c3d458a06f1e06f7dda3ab67bd38/julia/libuv-1.42.0.patch", + sha256="d9252fbe67ac8f15e15653f0f6b00dffa07ae1a42f013d4329d17d8b492b7cdb", + ), + ) + + # patchelf 0.13 is required because the rpath patch uses --add-rpath + depends_on("patchelf@0.13:", type="build") + depends_on("perl", type="build") + depends_on("libwhich", type="build") + + depends_on("blas") # note: for now openblas is fixed... + depends_on("curl tls=mbedtls +nghttp2 +libssh2") + depends_on("dsfmt@2.2.4:") # apparently 2.2.3->2.2.4 breaks API + depends_on("gmp") + depends_on("lapack") # note: for now openblas is fixed... + depends_on("libblastrampoline", when="@1.7.0:") + depends_on("libgit2") + depends_on("libssh2 crypto=mbedtls") + depends_on("mbedtls libs=shared") + depends_on("mpfr") + depends_on("nghttp2") + depends_on("openblas +ilp64 symbol_suffix=64_") + depends_on("openlibm", when="+openlibm") + depends_on("p7zip") + depends_on("pcre2") + depends_on("suite-sparse +pic") + depends_on("unwind") + depends_on("utf8proc") + depends_on("zlib +shared +pic +optimize") + + # Patches for julia + patch("julia-1.6-system-libwhich-and-p7zip-symlink.patch", when="@1.6.0:1.6") + patch("use-add-rpath.patch", when="@:1.8.0") + patch("use-add-rpath-2.patch", when="@1.8.1:1.8") + + # Fix gfortran abi detection https://github.com/JuliaLang/julia/pull/44026 + patch("fix-gfortran.patch", when="@1.7.0:1.7.2") + + # Don't make julia run patchelf --set-rpath on llvm (presumably this should've + # only applied to libllvm when it's vendored by julia). + patch("revert-fix-rpath-of-libllvm.patch", when="@1.7.0:1.7.2") + + # Allow build with clang. + patch("gcc-ifdef.patch", when="@1.7.0:1.7") + + # Make sure Julia sets -DNDEBUG when including LLVM header files. + patch("llvm-NDEBUG.patch", when="@1.7.0:1.7") + + def patch(self): + # The system-libwhich-libblastrampoline.patch causes a rebuild of docs as it + # touches the main Makefile, so we reset the a/m-time to doc/_build's. + f = os.path.join("doc", "_build", "html", "en", "index.html") + if os.path.exists(f): + time = (os.path.getatime(f), os.path.getmtime(f)) + os.utime(os.path.join("base", "Makefile"), time) + + def setup_build_environment(self, env): + # this is a bit ridiculous, but we are setting runtime linker paths to + # dependencies so that libwhich can locate them. + if self.spec.satisfies("platform=linux") or self.spec.satisfies("platform=cray"): + linker_var = "LD_LIBRARY_PATH" + elif self.spec.satisfies("platform=darwin"): + linker_var = "DYLD_FALLBACK_LIBRARY_PATH" + else: + return + pkgs = [ + "curl", + "dsfmt", + "gmp", + "libgit2", + "libssh2", + "libunwind", + "mbedtls", + "mpfr", + "nghttp2", + "openblas", + "pcre2", + "suite-sparse", + "utf8proc", + "zlib", + ] + if "+openlibm" in self.spec: + pkgs.append("openlibm") + if self.spec.satisfies("@1.7.0:"): + pkgs.append("libblastrampoline") + for pkg in pkgs: + for dir in self.spec[pkg].libs.directories: + env.prepend_path(linker_var, dir) + + def edit(self, spec, prefix): + # TODO: use a search query for blas / lapack? + libblas = os.path.splitext(spec["blas"].libs.basenames[0])[0] + liblapack = os.path.splitext(spec["lapack"].libs.basenames[0])[0] + + # Host compiler target name + march = get_best_target(spec.target, spec.compiler.name, spec.compiler.version) + + # LLVM compatible name for the JIT + julia_cpu_target = get_best_target(spec.target, "clang", spec["llvm"].version) + + libuv = "libuv-julia" if "^libuv-julia" in spec else "libuv" + + options = [ + "prefix:={0}".format(prefix), + "MARCH:={0}".format(march), + "JULIA_CPU_TARGET:={0}".format(julia_cpu_target), + "USE_BINARYBUILDER:=0", + "VERBOSE:=1", + # Spack managed dependencies + "USE_SYSTEM_BLAS:=1", + "USE_SYSTEM_CSL:=1", + "USE_SYSTEM_CURL:=1", + "USE_SYSTEM_DSFMT:=1", + "USE_SYSTEM_GMP:=1", + "USE_SYSTEM_LAPACK:=1", + "USE_SYSTEM_LIBBLASTRAMPOLINE:=1", + "USE_SYSTEM_LIBGIT2:=1", + "USE_SYSTEM_LIBSSH2:=1", + "USE_SYSTEM_LIBSUITESPARSE:=1", # @1.7: + "USE_SYSTEM_SUITESPARSE:=1", # @:1.6 + "USE_SYSTEM_LIBUNWIND:=1", + "USE_SYSTEM_LIBUV:=1", + "USE_SYSTEM_LIBWHICH:=1", + "USE_SYSTEM_LLD:=1", # @1.9: + "USE_SYSTEM_LLVM:=1", + "USE_SYSTEM_MBEDTLS:=1", + "USE_SYSTEM_MPFR:=1", + "USE_SYSTEM_P7ZIP:=1", + "USE_SYSTEM_PATCHELF:=1", + "USE_SYSTEM_PCRE:=1", + "USE_SYSTEM_UTF8PROC:=1", + "USE_SYSTEM_ZLIB:=1", + # todo: ilp depends on arch + "USE_BLAS64:=1", + "LIBBLASNAME:={0}".format(libblas), + "LIBLAPACKNAME:={0}".format(liblapack), + "override LIBUV:={0}".format(spec[libuv].libs.libraries[0]), + "override LIBUV_INC:={0}".format(spec[libuv].headers.directories[0]), + "override USE_LLVM_SHLIB:=1", + # make rebuilds a bit faster for now, not sure if this should be kept + "JULIA_PRECOMPILE:={0}".format("1" if spec.variants["precompile"].value else "0"), + # we want to use `patchelf --add-rpath` instead of `patchelf --set-rpath` + "override PATCHELF_SET_RPATH_ARG:=--add-rpath", # @1.9: + ] + + options.append("USEGCC:={}".format("1" if "%gcc" in spec else "0")) + options.append("USECLANG:={}".format("1" if "%clang" in spec else "0")) + + options.extend( + [ + "override CC:={0}".format(spack_cc), + "override CXX:={0}".format(spack_cxx), + "override FC:={0}".format(spack_fc), + ] + ) + + # libm or openlibm? + if spec.variants["openlibm"].value: + options.append("USE_SYSTEM_LIBM=0") + options.append("USE_SYSTEM_OPENLIBM=1") + else: + options.append("USE_SYSTEM_LIBM=1") + options.append("USE_SYSTEM_OPENLIBM=0") + + with open("Make.user", "w") as f: + f.write("\n".join(options) + "\n") diff --git a/repos/backports/packages/julia/revert-fix-rpath-of-libllvm.patch b/repos/forked/deprecated/julia/revert-fix-rpath-of-libllvm.patch similarity index 100% rename from repos/backports/packages/julia/revert-fix-rpath-of-libllvm.patch rename to repos/forked/deprecated/julia/revert-fix-rpath-of-libllvm.patch diff --git a/repos/backports/packages/julia/use-add-rpath-2.patch b/repos/forked/deprecated/julia/use-add-rpath-2.patch similarity index 100% rename from repos/backports/packages/julia/use-add-rpath-2.patch rename to repos/forked/deprecated/julia/use-add-rpath-2.patch diff --git a/repos/backports/packages/julia/use-add-rpath.patch b/repos/forked/deprecated/julia/use-add-rpath.patch similarity index 100% rename from repos/backports/packages/julia/use-add-rpath.patch rename to repos/forked/deprecated/julia/use-add-rpath.patch diff --git a/repos/hpccf/packages/lmod/0001-fix-problem-with-MODULESHOME-and-issue-271.patch b/repos/forked/deprecated/lmod/0001-fix-problem-with-MODULESHOME-and-issue-271.patch similarity index 100% rename from repos/hpccf/packages/lmod/0001-fix-problem-with-MODULESHOME-and-issue-271.patch rename to repos/forked/deprecated/lmod/0001-fix-problem-with-MODULESHOME-and-issue-271.patch diff --git a/repos/hpccf/packages/lmod/fix_tclsh_paths.patch b/repos/forked/deprecated/lmod/fix_tclsh_paths.patch similarity index 100% rename from repos/hpccf/packages/lmod/fix_tclsh_paths.patch rename to repos/forked/deprecated/lmod/fix_tclsh_paths.patch diff --git a/repos/hpccf/packages/lmod/package.py b/repos/forked/deprecated/lmod/package.py similarity index 100% rename from repos/hpccf/packages/lmod/package.py rename to repos/forked/deprecated/lmod/package.py diff --git a/repos/hpccf/packages/maker/MpiChunk.patch b/repos/forked/deprecated/maker/MpiChunk.patch similarity index 100% rename from repos/hpccf/packages/maker/MpiChunk.patch rename to repos/forked/deprecated/maker/MpiChunk.patch diff --git a/repos/hpccf/packages/maker/install.patch b/repos/forked/deprecated/maker/install.patch similarity index 100% rename from repos/hpccf/packages/maker/install.patch rename to repos/forked/deprecated/maker/install.patch diff --git a/repos/hpccf/packages/maker/mpi.patch b/repos/forked/deprecated/maker/mpi.patch similarity index 100% rename from repos/hpccf/packages/maker/mpi.patch rename to repos/forked/deprecated/maker/mpi.patch diff --git a/repos/hpccf/packages/maker/package.py b/repos/forked/deprecated/maker/package.py similarity index 100% rename from repos/hpccf/packages/maker/package.py rename to repos/forked/deprecated/maker/package.py diff --git a/repos/hpccf/packages/mark/package.py b/repos/forked/deprecated/mark/package.py similarity index 100% rename from repos/hpccf/packages/mark/package.py rename to repos/forked/deprecated/mark/package.py diff --git a/repos/hpccf/packages/motioncor2/package.py b/repos/forked/deprecated/motioncor2/package.py similarity index 100% rename from repos/hpccf/packages/motioncor2/package.py rename to repos/forked/deprecated/motioncor2/package.py diff --git a/repos/forked/deprecated/openssl/package.py b/repos/forked/deprecated/openssl/package.py new file mode 100644 index 00000000..e30b1b60 --- /dev/null +++ b/repos/forked/deprecated/openssl/package.py @@ -0,0 +1,579 @@ +# Copyright 2013-2024 Lawrence Livermore National Security, LLC and other +# Spack Project Developers. See the top-level COPYRIGHT file for details. +# +# SPDX-License-Identifier: (Apache-2.0 OR MIT) + +import os +import re + +import llnl.util.tty as tty + +from spack.package import * + + +class Openssl(Package): # Uses Fake Autotools, should subclass Package + """OpenSSL is an open source project that provides a robust, + commercial-grade, and full-featured toolkit for the Transport + Layer Security (TLS) and Secure Sockets Layer (SSL) protocols. + It is also a general-purpose cryptography library.""" + + homepage = "https://www.openssl.org" + + # URL must remain http:// so Spack can bootstrap curl + url = "http://www.openssl.org/source/openssl-1.1.1d.tar.gz" + list_url = "https://www.openssl.org/source/old/" + list_depth = 1 + + maintainers("AlexanderRichert-NOAA") + + tags = ["core-packages", "windows"] + + executables = ["openssl"] + + license("Apache-2.0") + + version("3.2.1", sha256="83c7329fe52c850677d75e5d0b0ca245309b97e8ecbcfdc1dfdc4ab9fac35b39") + version("3.1.5", sha256="6ae015467dabf0469b139ada93319327be24b98251ffaeceda0221848dc09262") + version("3.0.13", sha256="88525753f79d3bec27d2fa7c66aa0b92b3aa9498dafd93d7cfa4b3780cdae313") + + version( + "3.1.3", + sha256="f0316a2ebd89e7f2352976445458689f80302093788c466692fb2a188b2eacf6", + deprecated=True, + ) + version( + "3.1.2", + sha256="a0ce69b8b97ea6a35b96875235aa453b966ba3cba8af2de23657d8b6767d6539", + deprecated=True, + ) + version( + "3.1.1", + sha256="b3aa61334233b852b63ddb048df181177c2c659eb9d4376008118f9c08d07674", + deprecated=True, + ) + version( + "3.1.0", + sha256="aaa925ad9828745c4cad9d9efeb273deca820f2cdcf2c3ac7d7c1212b7c497b4", + deprecated=True, + ) + version( + "3.0.11", + sha256="b3425d3bb4a2218d0697eb41f7fc0cdede016ed19ca49d168b78e8d947887f55", + deprecated=True, + ) + version( + "3.0.10", + sha256="1761d4f5b13a1028b9b6f3d4b8e17feb0cedc9370f6afe61d7193d2cdce83323", + deprecated=True, + ) + version( + "3.0.9", + sha256="eb1ab04781474360f77c318ab89d8c5a03abc38e63d65a603cabbf1b00a1dc90", + deprecated=True, + ) + version( + "3.0.8", + sha256="6c13d2bf38fdf31eac3ce2a347073673f5d63263398f1f69d0df4a41253e4b3e", + deprecated=True, + ) + version( + "3.0.7", + sha256="83049d042a260e696f62406ac5c08bf706fd84383f945cf21bd61e9ed95c396e", + deprecated=True, + ) + version( + "3.0.5", + sha256="aa7d8d9bef71ad6525c55ba11e5f4397889ce49c2c9349dcea6d3e4f0b024a7a", + deprecated=True, + ) + version( + "3.0.4", + sha256="2831843e9a668a0ab478e7020ad63d2d65e51f72977472dc73efcefbafc0c00f", + deprecated=True, + ) + version( + "3.0.2", + sha256="98e91ccead4d4756ae3c9cde5e09191a8e586d9f4d50838e7ec09d6411dfdb63", + deprecated=True, + ) + version( + "3.0.1", + sha256="c311ad853353bce796edad01a862c50a8a587f62e7e2100ef465ab53ec9b06d1", + deprecated=True, + ) + version( + "3.0.0", + sha256="59eedfcb46c25214c9bd37ed6078297b4df01d012267fe9e9eee31f61bc70536", + deprecated=True, + ) + version( + "1.1.1w", + sha256="cf3098950cb4d853ad95c0841f1f9c6d3dc102dccfcacd521d93925208b76ac8", + deprecated=True, + ) + version( + "1.1.1v", + sha256="d6697e2871e77238460402e9362d47d18382b15ef9f246aba6c7bd780d38a6b0", + deprecated=True, + ) + version( + "1.1.1u", + sha256="e2f8d84b523eecd06c7be7626830370300fbcc15386bf5142d72758f6963ebc6", + deprecated=True, + ) + version( + "1.1.1t", + sha256="8dee9b24bdb1dcbf0c3d1e9b02fb8f6bf22165e807f45adeb7c9677536859d3b", + deprecated=True, + ) + version( + "1.1.1s", + sha256="c5ac01e760ee6ff0dab61d6b2bbd30146724d063eb322180c6f18a6f74e4b6aa", + deprecated=True, + ) + version( + "1.1.1q", + sha256="d7939ce614029cdff0b6c20f0e2e5703158a489a72b2507b8bd51bf8c8fd10ca", + deprecated=True, + ) + version( + "1.1.1p", + sha256="bf61b62aaa66c7c7639942a94de4c9ae8280c08f17d4eac2e44644d9fc8ace6f", + deprecated=True, + ) + version( + "1.1.1o", + sha256="9384a2b0570dd80358841464677115df785edb941c71211f75076d72fe6b438f", + deprecated=True, + ) + version( + "1.1.1n", + sha256="40dceb51a4f6a5275bde0e6bf20ef4b91bfc32ed57c0552e2e8e15463372b17a", + deprecated=True, + ) + version( + "1.1.1m", + sha256="f89199be8b23ca45fc7cb9f1d8d3ee67312318286ad030f5316aca6462db6c96", + deprecated=True, + ) + version( + "1.1.1l", + sha256="0b7a3e5e59c34827fe0c3a74b7ec8baef302b98fa80088d7f9153aa16fa76bd1", + deprecated=True, + ) + version( + "1.1.1k", + sha256="892a0875b9872acd04a9fde79b1f943075d5ea162415de3047c327df33fbaee5", + deprecated=True, + ) + version( + "1.1.1j", + sha256="aaf2fcb575cdf6491b98ab4829abf78a3dec8402b8b81efc8f23c00d443981bf", + deprecated=True, + ) + version( + "1.1.1i", + sha256="e8be6a35fe41d10603c3cc635e93289ed00bf34b79671a3a4de64fcee00d5242", + deprecated=True, + ) + version( + "1.1.1h", + sha256="5c9ca8774bd7b03e5784f26ae9e9e6d749c9da2438545077e6b3d755a06595d9", + deprecated=True, + ) + version( + "1.1.1g", + sha256="ddb04774f1e32f0c49751e21b67216ac87852ceb056b75209af2443400636d46", + deprecated=True, + ) + version( + "1.1.1f", + sha256="186c6bfe6ecfba7a5b48c47f8a1673d0f3b0e5ba2e25602dd23b629975da3f35", + deprecated=True, + ) + version( + "1.1.1e", + sha256="694f61ac11cb51c9bf73f54e771ff6022b0327a43bbdfa1b2f19de1662a6dcbe", + deprecated=True, + ) + version( + "1.1.1d", + sha256="1e3a91bc1f9dfce01af26026f856e064eab4c8ee0a8f457b5ae30b40b8b711f2", + deprecated=True, + ) + version( + "1.1.1c", + sha256="f6fb3079ad15076154eda9413fed42877d668e7069d9b87396d0804fdb3f4c90", + deprecated=True, + ) + version( + "1.1.1b", + sha256="5c557b023230413dfb0756f3137a13e6d726838ccd1430888ad15bfb2b43ea4b", + deprecated=True, + ) + version( + "1.1.1a", + sha256="fc20130f8b7cbd2fb918b2f14e2f429e109c31ddd0fb38fc5d71d9ffed3f9f41", + deprecated=True, + ) + version( + "1.1.1", + sha256="2836875a0f89c03d0fdf483941512613a50cfb421d6fd94b9f41d7279d586a3d", + deprecated=True, + ) + version( + "1.1.0l", + sha256="74a2f756c64fd7386a29184dc0344f4831192d61dc2481a93a4c5dd727f41148", + deprecated=True, + ) + version( + "1.1.0k", + sha256="efa4965f4f773574d6cbda1cf874dbbe455ab1c0d4f906115f867d30444470b1", + deprecated=True, + ) + version( + "1.1.0j", + sha256="31bec6c203ce1a8e93d5994f4ed304c63ccf07676118b6634edded12ad1b3246", + deprecated=True, + ) + version( + "1.1.0i", + sha256="ebbfc844a8c8cc0ea5dc10b86c9ce97f401837f3fa08c17b2cdadc118253cf99", + deprecated=True, + ) + version( + "1.1.0g", + sha256="de4d501267da39310905cb6dc8c6121f7a2cad45a7707f76df828fe1b85073af", + deprecated=True, + ) + version( + "1.1.0e", + sha256="57be8618979d80c910728cfc99369bf97b2a1abd8f366ab6ebdee8975ad3874c", + deprecated=True, + ) + version( + "1.1.0d", + sha256="7d5ebb9e89756545c156ff9c13cf2aa6214193b010a468a3bc789c3c28fe60df", + deprecated=True, + ) + version( + "1.1.0c", + sha256="fc436441a2e05752d31b4e46115eb89709a28aef96d4fe786abe92409b2fd6f5", + deprecated=True, + ) + version( + "1.0.2u", + sha256="ecd0c6ffb493dd06707d38b14bb4d8c2288bb7033735606569d8f90f89669d16", + deprecated=True, + ) + version( + "1.0.2t", + sha256="14cb464efe7ac6b54799b34456bd69558a749a4931ecfd9cf9f71d7881cac7bc", + deprecated=True, + ) + version( + "1.0.2s", + sha256="cabd5c9492825ce5bd23f3c3aeed6a97f8142f606d893df216411f07d1abab96", + deprecated=True, + ) + version( + "1.0.2r", + sha256="ae51d08bba8a83958e894946f15303ff894d75c2b8bbd44a852b64e3fe11d0d6", + deprecated=True, + ) + version( + "1.0.2p", + sha256="50a98e07b1a89eb8f6a99477f262df71c6fa7bef77df4dc83025a2845c827d00", + deprecated=True, + ) + version( + "1.0.2o", + sha256="ec3f5c9714ba0fd45cb4e087301eb1336c317e0d20b575a125050470e8089e4d", + deprecated=True, + ) + version( + "1.0.2n", + sha256="370babb75f278c39e0c50e8c4e7493bc0f18db6867478341a832a982fd15a8fe", + deprecated=True, + ) + version( + "1.0.2m", + sha256="8c6ff15ec6b319b50788f42c7abc2890c08ba5a1cdcd3810eb9092deada37b0f", + deprecated=True, + ) + version( + "1.0.2k", + sha256="6b3977c61f2aedf0f96367dcfb5c6e578cf37e7b8d913b4ecb6643c3cb88d8c0", + deprecated=True, + ) + version( + "1.0.2j", + sha256="e7aff292be21c259c6af26469c7a9b3ba26e9abaaffd325e3dccc9785256c431", + deprecated=True, + ) + version( + "1.0.2i", + sha256="9287487d11c9545b6efb287cdb70535d4e9b284dd10d51441d9b9963d000de6f", + deprecated=True, + ) + version( + "1.0.2h", + sha256="1d4007e53aad94a5b2002fe045ee7bb0b3d98f1a47f8b2bc851dcd1c74332919", + deprecated=True, + ) + version( + "1.0.2g", + sha256="b784b1b3907ce39abf4098702dade6365522a253ad1552e267a9a0e89594aa33", + deprecated=True, + ) + version( + "1.0.2f", + sha256="932b4ee4def2b434f85435d9e3e19ca8ba99ce9a065a61524b429a9d5e9b2e9c", + deprecated=True, + ) + version( + "1.0.2e", + sha256="e23ccafdb75cfcde782da0151731aa2185195ac745eea3846133f2e05c0e0bff", + deprecated=True, + ) + version( + "1.0.2d", + sha256="671c36487785628a703374c652ad2cebea45fa920ae5681515df25d9f2c9a8c8", + deprecated=True, + ) + version( + "1.0.1u", + sha256="4312b4ca1215b6f2c97007503d80db80d5157f76f8f7d3febbe6b4c56ff26739", + deprecated=True, + ) + version( + "1.0.1t", + sha256="4a6ee491a2fdb22e519c76fdc2a628bb3cec12762cd456861d207996c8a07088", + deprecated=True, + ) + version( + "1.0.1r", + sha256="784bd8d355ed01ce98b812f873f8b2313da61df7c7b5677fcf2e57b0863a3346", + deprecated=True, + ) + version( + "1.0.1h", + sha256="9d1c8a9836aa63e2c6adb684186cbd4371c9e9dcc01d6e3bb447abf2d4d3d093", + deprecated=True, + ) + version( + "1.0.1e", + sha256="f74f15e8c8ff11aa3d5bb5f276d202ec18d7246e95f961db76054199c69c1ae3", + deprecated=True, + ) + + # On Cray DVS mounts, we can't make symlinks to /etc/ssl/openssl.cnf, + # either due to a bug or because DVS is not intended to be POSIX compliant. + # Therefore, stick to system agnostic certs=mozilla. + variant( + "certs", + default="mozilla", + values=("mozilla", "system", "none"), + multi=False, + description=( + "Use certificates from the ca-certificates-mozilla " + "package, symlink system certificates, or use none, " + "respectively. The default is `mozilla`, since it is " + "system agnostic. Instead of picking certs=system, " + "one can mark openssl as an external package, to " + "avoid compiling openssl entirely." + ), + ) + variant("docs", default=False, description="Install docs and manpages") + variant("shared", default=True, description="Build shared library version") + with when("platform=windows"): + variant("dynamic", default=False, description="Link with MSVC's dynamic runtime library") + + depends_on("zlib-api") + depends_on("perl@5.14.0:", type=("build", "test")) + depends_on("ca-certificates-mozilla", type="build", when="certs=mozilla") + depends_on("nasm", when="platform=windows") + + depends_on("gmake", type="build", when="platform=linux") + depends_on("gmake", type="build", when="platform=cray") + depends_on("gmake", type="build", when="platform=darwin") + + patch( + "https://github.com/openssl/openssl/commit/f9e578e720bb35228948564192adbe3bc503d5fb.patch?full_index=1", + sha256="3fdcf2d1e47c34f3a012f23306322c5a35cad55b180c9b6fb34537b55884645c", + when="@1.1.1q", + ) + + @classmethod + def determine_version(cls, exe): + output = Executable(exe)("version", output=str, error=str) + match = re.search(r"OpenSSL.(\S+)*", output) + return match.group(1) if match else None + + @property + def libs(self): + return find_libraries( + ["libssl", "libcrypto"], + root=self.prefix, + recursive=True, + shared=self.spec.variants["shared"].value, + ) + + def handle_fetch_error(self, error): + tty.warn( + "Fetching OpenSSL failed. This may indicate that OpenSSL has " + "been updated, and the version in your instance of Spack is " + "insecure. Consider updating to the latest OpenSSL version." + ) + + def install(self, spec, prefix): + # OpenSSL uses these variables in its Makefile or config scripts. If any of them + # happen to be set in the environment, then this will override what is set in + # the script or Makefile, leading to build errors. + for v in ("APPS", "BUILD", "RELEASE", "MACHINE", "SYSTEM"): + env.pop(v, None) + + if str(spec.target.family) in ("x86_64", "ppc64"): + # This needs to be done for all 64-bit architectures (except Linux, + # where it happens automatically?) + env["KERNEL_BITS"] = "64" + + options = ["zlib"] + if spec.satisfies("@1.0"): + options.append("no-krb5") + # clang does not support the .arch directive in assembly files. + if "clang" in self.compiler.cc and spec.target.family == "aarch64": + options.append("no-asm") + elif "%nvhpc" in spec: + # Last tested on nvidia@22.3 for x86_64: + # nvhpc segfaults NVC++-F-0000-Internal compiler error. + # gen_llvm_expr(): unknown opcode 0 (crypto/rsa/rsa_oaep.c: 248) + options.append("no-asm") + elif spec.satisfies("@3: %oneapi"): + # Last tested on oneapi@2023.1.0 for x86_64: + # crypto/md5/md5-x86_64.s:684:31: error: expected string + options.append("no-asm") + + # The default glibc provided by CentOS 7 does not provide proper + # atomic support when using the NVIDIA compilers + if self.spec.satisfies("%nvhpc os=centos7"): + options.append("-D__STDC_NO_ATOMICS__") + + # Make a flag for shared library builds + base_args = [ + "--prefix=%s" % prefix, + "--openssldir=%s" % join_path(prefix, "etc", "openssl"), + ] + if spec.satisfies("platform=windows"): + base_args.extend( + ['CC="%s"' % os.environ.get("CC"), 'CXX="%s"' % os.environ.get("CXX"), "VC-WIN64A"] + ) + else: + base_args.extend( + [ + "-I{0}".format(self.spec["zlib-api"].prefix.include), + "-L{0}".format(self.spec["zlib-api"].prefix.lib), + ] + ) + base_args.extend(options) + + if spec.satisfies("~shared"): + base_args.append("no-shared") + else: + base_args.append("shared") + + # On Windows, we use perl for configuration and build through MSVC + # nmake. + if spec.satisfies("platform=windows"): + # The configure executable requires that paths with spaces + # on Windows be wrapped in quotes + Executable("perl")("Configure", *base_args, ignore_quotes=True) + else: + Executable("./config")(*base_args) + + # Remove non-standard compiler options if present. These options are + # present e.g. on Darwin. They are non-standard, i.e. most compilers + # (e.g. gcc) will not accept them. + filter_file(r"-arch x86_64", "", "Makefile") + + if spec.satisfies("platform=windows"): + host_make = nmake + else: + host_make = make + + host_make() + + if self.run_tests: + host_make("test", parallel=False) # 'VERBOSE=1' + + install_tgt = "install" if self.spec.satisfies("+docs") else "install_sw" + + # See https://github.com/openssl/openssl/issues/7466#issuecomment-432148137 + host_make(install_tgt, parallel=False) + + @run_after("install") + def link_system_certs(self): + if self.spec.variants["certs"].value != "system": + return + + system_dirs = [ + # CentOS, Fedora, RHEL + "/etc/pki/tls", + # Ubuntu + "/usr/lib/ssl", + # OpenSUSE + "/etc/ssl", + ] + + pkg_dir = join_path(self.prefix, "etc", "openssl") + + mkdirp(pkg_dir) + + for directory in system_dirs: + # Link configuration file + sys_conf = join_path(directory, "openssl.cnf") + pkg_conf = join_path(pkg_dir, "openssl.cnf") + if os.path.exists(sys_conf) and not os.path.exists(pkg_conf): + os.symlink(sys_conf, pkg_conf) + + sys_cert = join_path(directory, "cert.pem") + pkg_cert = join_path(pkg_dir, "cert.pem") + # If a bundle exists, use it. This is the preferred way on Fedora, + # where the certs directory does not work. + if os.path.exists(sys_cert) and not os.path.exists(pkg_cert): + os.symlink(sys_cert, pkg_cert) + + sys_certs = join_path(directory, "certs") + pkg_certs = join_path(pkg_dir, "certs") + # If the certs directory exists, symlink it into the package. + # We symlink the whole directory instead of all files because + # the directory contents might change without Spack noticing. + if os.path.isdir(sys_certs) and not os.path.islink(pkg_certs): + if os.path.isdir(pkg_certs): + os.rmdir(pkg_certs) + os.symlink(sys_certs, pkg_certs) + + @run_after("install") + def copy_mozilla_certs(self): + if self.spec.variants["certs"].value != "mozilla": + return + + pkg_dir = join_path(self.prefix, "etc", "openssl") + mkdirp(pkg_dir) + + mozilla_pem = self.spec["ca-certificates-mozilla"].pem_path + pkg_cert = join_path(pkg_dir, "cert.pem") + install(mozilla_pem, pkg_cert) + + def patch(self): + if self.spec.satisfies("%nvhpc"): + # Remove incompatible preprocessor flags + filter_file("-MF ", "", "Configurations/unix-Makefile.tmpl", string=True) + filter_file(r"-MT \$\@ ", "", "Configurations/unix-Makefile.tmpl", string=True) + + def setup_build_environment(self, env): + env.set("PERL", self.spec["perl"].prefix.bin.perl) + + def setup_dependent_build_environment(self, env, dependent_spec): + env.set("OPENSSL_LIBS", "-L/{0} -lssl -lcrypto".format(self.prefix)) + env.set("OPENSSL_CFLAGS", "-I{0}".format(join_path(self.prefix, 'include'))) diff --git a/repos/hpccf/packages/py-deeptools/package.py b/repos/forked/deprecated/py-deeptools/package.py similarity index 100% rename from repos/hpccf/packages/py-deeptools/package.py rename to repos/forked/deprecated/py-deeptools/package.py diff --git a/repos/hpccf/packages/r-genomeinfodb/package.py b/repos/forked/deprecated/r-genomeinfodb/package.py similarity index 100% rename from repos/hpccf/packages/r-genomeinfodb/package.py rename to repos/forked/deprecated/r-genomeinfodb/package.py diff --git a/repos/hpccf/packages/r-genomicfeatures/package.py b/repos/forked/deprecated/r-genomicfeatures/package.py similarity index 100% rename from repos/hpccf/packages/r-genomicfeatures/package.py rename to repos/forked/deprecated/r-genomicfeatures/package.py diff --git a/repos/hpccf/packages/r-ggtree/package.py b/repos/forked/deprecated/r-ggtree/package.py similarity index 100% rename from repos/hpccf/packages/r-ggtree/package.py rename to repos/forked/deprecated/r-ggtree/package.py diff --git a/repos/hpccf/packages/r-v8/package.py b/repos/forked/deprecated/r-v8/package.py similarity index 100% rename from repos/hpccf/packages/r-v8/package.py rename to repos/forked/deprecated/r-v8/package.py diff --git a/repos/hpccf/packages/slurm/package.py b/repos/forked/deprecated/slurm/package.py similarity index 100% rename from repos/hpccf/packages/slurm/package.py rename to repos/forked/deprecated/slurm/package.py diff --git a/repos/hpccf/packages/unblur/package.py b/repos/forked/deprecated/unblur/package.py similarity index 100% rename from repos/hpccf/packages/unblur/package.py rename to repos/forked/deprecated/unblur/package.py diff --git a/repos/forked/deprecated/unzip/configure-cflags.patch b/repos/forked/deprecated/unzip/configure-cflags.patch new file mode 100644 index 00000000..f73b39f3 --- /dev/null +++ b/repos/forked/deprecated/unzip/configure-cflags.patch @@ -0,0 +1,37 @@ +--- ./unix/configure.old 2009-04-16 19:25:12.000000000 +0000 ++++ ./unix/configure 2023-07-14 09:35:33.735000149 +0000 +@@ -383,7 +383,7 @@ + do + echo Check for $func + echo "int main(){ $func(); return 0; }" > conftest.c +- $CC $BFLAG -o conftest conftest.c >/dev/null 2>/dev/null ++ $CC $BFLAG $CFLAGS -o conftest conftest.c >/dev/null 2>/dev/null + [ $? -ne 0 ] && CFLAGSR="${CFLAGSR} -DNO_`echo $func | tr '[a-z]' '[A-Z]'`" + done + +@@ -395,14 +395,14 @@ + echo "int main() { lchmod(\"${temp_file}\", 0666); }" \ + ) > conftest.c + ln -s "${temp_link}" "${temp_file}" && \ +- $CC $BFLAG -o conftest conftest.c >/dev/null 2>/dev/null && \ ++ $CC $CFLAGS $BFLAG -o conftest conftest.c >/dev/null 2>/dev/null && \ + ./conftest + [ $? -ne 0 ] && CFLAGSR="${CFLAGSR} -DNO_LCHMOD" + rm -f "${temp_file}" + + echo Check for memset + echo "int main(){ char k; memset(&k,0,0); return 0; }" > conftest.c +-$CC -o conftest conftest.c >/dev/null 2>/dev/null ++$CC $CFLAGS -o conftest conftest.c >/dev/null 2>/dev/null + [ $? -ne 0 ] && CFLAGSR="${CFLAGSR} -DZMEM" + + echo Check for errno declaration +@@ -422,7 +422,7 @@ + int main() { return closedir(opendir(".")); } + _EOF_ + +-$CC -o conftest conftest.c >/dev/null 2>/dev/null ++$CC $CFLAGS -o conftest conftest.c >/dev/null 2>/dev/null + if [ $? -ne 0 ]; then + OPT="" + for lib in ndir dir ucb bsd BSD PW x dirent diff --git a/repos/forked/deprecated/unzip/package.py b/repos/forked/deprecated/unzip/package.py new file mode 100644 index 00000000..f5a4749e --- /dev/null +++ b/repos/forked/deprecated/unzip/package.py @@ -0,0 +1,50 @@ +# Copyright 2013-2023 Lawrence Livermore National Security, LLC and other +# Spack Project Developers. See the top-level COPYRIGHT file for details. +# +# SPDX-License-Identifier: (Apache-2.0 OR MIT) + +from spack.package import * + + +class Unzip(MakefilePackage): + """Unzip is a compression and file packaging/archive utility.""" + + homepage = "http://www.info-zip.org/Zip.html" + url = "http://downloads.sourceforge.net/infozip/unzip60.tar.gz" + + version("6.0", sha256="036d96991646d0449ed0aa952e4fbe21b476ce994abc276e49d30e686708bd37") + + patch("configure-cflags.patch", when="%clang@16:") + + # The Cray cc wrapper doesn't handle the '-s' flag (strip) cleanly. + @when("platform=cray") + def patch(self): + filter_file(r"^LFLAGS2=.*", "LFLAGS2=", join_path("unix", "configure")) + + def get_make_args(self): + make_args = ["-f", join_path("unix", "Makefile")] + + cflags = [] + if self.spec.satisfies("%clang@16:"): + cflags.append("-Wno-error=implicit-function-declaration") + cflags.append("-Wno-error=implicit-int") + cflags.append("-DLARGE_FILE_SUPPORT") + + make_args.append('LOC="{}"'.format(" ".join(cflags))) + return make_args + + @property + def build_targets(self): + target = "generic" + if "platform=darwin" in self.spec: + target = "macosx" + elif "%oneapi" in self.spec: + target = "generic1" + return self.get_make_args() + [target] + + def url_for_version(self, version): + return "http://downloads.sourceforge.net/infozip/unzip{0}.tar.gz".format(version.joined) + + @property + def install_targets(self): + return self.get_make_args() + ["prefix={0}".format(self.prefix), "install"] diff --git a/repos/forked/packages/armpl-gcc/package.py b/repos/forked/packages/armpl-gcc/package.py new file mode 100644 index 00000000..63d6fc71 --- /dev/null +++ b/repos/forked/packages/armpl-gcc/package.py @@ -0,0 +1,531 @@ +# Copyright 2013-2024 Lawrence Livermore National Security, LLC and other +# Spack Project Developers. See the top-level COPYRIGHT file for details. +# +# SPDX-License-Identifier: (Apache-2.0 OR MIT) + +import os + +from spack.package import * + +_os_map_before_23 = { + "ubuntu18.04": "Ubuntu-18.04", + "ubuntu20.04": "Ubuntu-20.04", + "ubuntu22.04": "Ubuntu-20.04", + "sles15": "SLES-15", + "centos7": "RHEL-7", + "centos8": "RHEL-8", + "rhel7": "RHEL-7", + "rhel8": "RHEL-8", + "rocky8": "RHEL-8", + "amzn2": "RHEL-7", + "amzn2023": "RHEL-7", +} + +_os_map_before_24 = { + "ubuntu20.04": "Ubuntu-20.04", + "ubuntu22.04": "Ubuntu-22.04", + "debian12": "Ubuntu-22.04", + "sles15": "SLES-15", + "centos7": "RHEL-7", + "centos8": "RHEL-8", + "rhel7": "RHEL-7", + "rhel8": "RHEL-8", + "rhel9": "RHEL-9", + "rocky8": "RHEL-8", + "rocky9": "RHEL-9", + "amzn2": "AmazonLinux-2", + "amzn2023": "AmazonLinux-2023", +} + +_os_pkg_map = { + "ubuntu20.04": "deb", + "ubuntu22.04": "deb", + "debian12": "deb", + "sles15": "rpm", + "centos7": "rpm", + "centos8": "rpm", + "rhel7": "rpm", + "rhel8": "rpm", + "rhel9": "rpm", + "rocky8": "rpm", + "rocky9": "rpm", + "amzn2": "rpm", + "amzn2023": "rpm", +} + +_versions = { + "24.10": { + "deb": ("2be772d41c0e8646e24c4f57e188e96f2dd8934966ae560c74fa905cbde5e1bc"), + "macOS": ("04e794409867e6042ed0f487bbaf47cc6edd527dc6ddad67160f1dba83906969"), + "rpm": ("055d4b3c63d990942d453a8720d029be7e604646218ffc3262321683f51f23aa"), + }, + "24.04": { + "deb": ("a323074cd08af82f4d79988cc66088b18e47dea4b93323b1b8a0f994f769f2f0"), + "macOS": ("228bf3a2c25dbd45c2f89c78f455ee3c7dfb25e121c20d2765138b5174e688dc"), + "rpm": ("d3917523034cf5a35e4f31f9a8bf4e53e7cc97892e89739d5757cb65ce40dc2e"), + }, + "23.10_gcc-12.2": { + "RHEL-7": ("e5e2c69ad281a676f2a06c835fbf31d4f9fdf46aa3f3f7c8aafff46985f64902"), + "RHEL-8": ("cc0f3572ead93d1e31797b7a39a40cff3414878df9bd24a452bf4877dc35ca4c"), + "RHEL-9": ("18c75f57333031e454921cc3f4f22fd567e5a701424ff9ac219bbfe9955a8a96"), + "SLES-15": ("e1e891eceaffedecf7351e2c499ef2b49a36c9af29174b366ff470d0a568c18f"), + "Ubuntu-20.04": ("976424875c52c2062fc76cbc5d527ee82413cdc0432d7c59f423295a3b0cc612"), + "Ubuntu-22.04": ("6dd778edf55e13e8b766d75c340f0259f6cb507a93966d76d188b8b3943c769b"), + "AmazonLinux-2": ("423ac3df262b5fcca6cea480503b693306c970dd8e8e05c753ece92446ac7fee"), + "AmazonLinux-2023": ("acadf3b6cde866cb41f7363b290a646a492769aaa5819d4c0d60df89913342a9"), + }, + "23.10_gcc-11.3": { + "RHEL-7": ("b2afbdc056ae01fb5c71935448b19300ef368962a94ae76b8811f1d328c723c2"), + "RHEL-8": ("79b83a8a2c46b949896b3964c761cbd0b66c37826996afb62c466af5fb420bc2"), + "RHEL-9": ("7a84f561bcf941bb25123b3ef730b4c02616bc51215933870677163e78af38e3"), + "SLES-15": ("9243c405d092d3eabff112ccabc300e96f13c3d2c5c319df04d7093bb6f535a2"), + "Ubuntu-20.04": ("a16df088ef9303040d92b017b233c6e4c6f0300d09c2ad0a66c0318831bf009c"), + "Ubuntu-22.04": ("fabda66dc6388fa8c094443fa53deece5590db66caaa6a1e39e99e64d5bb0709"), + "AmazonLinux-2": ("db5d039fa1d07695a71b8733584d878bb778d41bc0ecc3e19059b75cffdcf8cd"), + "AmazonLinux-2023": ("977fd465702f086a69e3f7fc28f2bcb6c79a7af381dc7d865345115b26f4631f"), + }, + "23.10_gcc-10.4": { + "RHEL-7": ("3c8bad3af82a76ca1a45705afd47028cc26c7093377a554e692e1cd6f61cb304"), + "RHEL-8": ("381afae0e3e94aa91029f571de0e51c2342e50b4f855db7a9b9ca66e16e26276"), + "SLES-15": ("226e9519407331b4ad5ded8699cd15f1d9b845843304bbf21f47009a399fe2a0"), + "Ubuntu-20.04": ("45de59f795ad9026a838ab611b03b1644169a034ce59d6cca2c7940850fa17ad"), + "AmazonLinux-2": ("637b51da12548dc66da9132328fe2ea39ba0736af66fb30332ca8eeb540e3373"), + }, + "23.10_gcc-9.3": { + "RHEL-7": ("6fc2e3319b83ea2b1bf8d98ec43f614b937bb5f23d15aefe9e9171c882d24a60"), + "RHEL-8": ("1a05548a7051d1df42280fdcfcffeaf89d519aa7978bffd29171da60fdbccecf"), + "SLES-15": ("389ddd34e1299e4d942864f63f236158a81ce4190f59af512a1bea3221153bfe"), + "Ubuntu-20.04": ("a1a221859b5f0962df3a0c6ce31669827bff0bfffb185b80429620f14b40f4f4"), + "AmazonLinux-2": ("2eef9b28e95e75f0040eb61c9e1b406ec4d0b81cce3e95a652029aa0898733a0"), + }, + "23.10_gcc-8.2": { + "RHEL-7": ("d6596721e74e7bdc8d9ce7b8b2a4c5ab2bd430f3ca69b9ec84f587f1aa181083"), + "RHEL-8": ("004aed52003e19a6c14df303456318e486ad783eb543b79285c7953a23722a4a"), + "SLES-15": ("12c638c0cc5bdc220699499ec6bb160a7b889f105901f4354bd2748a77d25c8e"), + "AmazonLinux-2": ("d039134236cda298cd0920c3c5b017eeef83fcab82949221dc7deb081026252f"), + }, + "23.10_gcc-7.5": { + "RHEL-7": ("1a0ca860c168987d174923dfc7800e10521303914793162a8bae2b2cd3f68203"), + "AmazonLinux-2": ("58b201a6bbe7ee10563d8d42b32a77c4b15c57b4e81abb35d24b8c3fc9cff4d9"), + }, + "23.10_flang-new_clang_17": { + "macOS": ("baf09cd6d1d1b7c780b8b31cfe1dd709596b182dc714127fbc9f23007ff9e23a") + }, + "23.06_flang-new_clang_16": { + "macOS": ("232f5e89e0f1f4777480c64a790e477dfd2f423d3cf5704a116a2736f36250ea") + }, + "23.04.1_gcc-12.2": { + "RHEL-7": ("789cc093cb7e0d9294aff0fdf94b74987435a09cdff4c1b7118a03350548d03c"), + "RHEL-8": ("1b668baec6d3df2d48c5aedc70baa6a9b638983b94bf2cd58d378859a1da49f0"), + "RHEL-9": ("8a4d7aec2fe109aedcb9e8fdec566dc1ba3adcb3ba79e5c08b78b9717578db1c"), + "SLES-15": ("9c8aa114907d3ac9311301b991d732d535422e73516e0f337395637ce6a14c4a"), + "Ubuntu-20.04": ("c0a67afb6989b2bdb172052ff7d20a9e3197356714df06c862edd3ac71ef62f0"), + "Ubuntu-22.04": ("02e59d834c341164f5acf633555024bf614726aed8a85c1b0b46d024ce7840e2"), + "AmazonLinux-2": ("1cbb9a3d777353b42bfb5af327419c231640e7744ab46ab3a13e97802b1ce227"), + "AmazonLinux-2023": ("ee9b0b6ee0d881280e473390007020504a147b75bf6076d245832f101b01653e"), + }, + "23.04.1_gcc-11.3": { + "RHEL-7": ("522e0269ca03d6251c10ee3aa8d94ceec4618887f47847defb535849434439a5"), + "RHEL-8": ("00f6fee4ba4bbff5be6d5ad34137973ab89505fc61a23d8e0c302b8860c70484"), + "RHEL-9": ("2402165267b25d07fd64b6d444b3120354dfd27594b11a1f082e85e76465e712"), + "SLES-15": ("a928539efe5af760fc86a009e3d87c9648e4d4e91490c13bc136a837591549c3"), + "Ubuntu-20.04": ("5754d8a6040bb6d0b1df326c9ab61901a72e5cc6d2d4195e52ca9271e55fb9f6"), + "Ubuntu-22.04": ("8af5aca7512a604b051a7808701a5c0285e92d88232138612d8caf973b7b1252"), + "AmazonLinux-2": ("8c710cb7bb21694130b915cc2650cfb85fb00cfca7e5fca9bbdec5c59a09c007"), + "AmazonLinux-2023": ("8b9c69a72c5b1ed5814e28ddd122ab09dbe5dd3585e4c395242ed590eea6ea79"), + }, + "23.04.1_gcc-10.2": { + "RHEL-7": ("40d62517bd978516c308b2e57ab88772699fd8bb579d98bbc10ea397c0bab431"), + "RHEL-8": ("76554ea1f3d143f1236afea67e33eea74660f57718ef57c12986843da75e03d3"), + "SLES-15": ("63a6acb00300a9e85cfafd2141515ecb28dac82c1f441778d74e8add038724e2"), + "Ubuntu-20.04": ("7b6bcb8d1b9ca8be2d29e7620862fa961d965f479fa04873616ac8cc9bb399fc"), + "AmazonLinux-2": ("c6410ce2c109ae72568186bb7e162fcf4a9b05ea89da36d17db695b7df34f506"), + }, + "23.04.1_gcc-9.3": { + "RHEL-7": ("782bbc27c77c230426086c226a78b8951501066d631947438e65ca51d33f24c3"), + "RHEL-8": ("8d3be6381b3e5032c5068a1d2e3d0e69c308a93496f85af42d43a579f9f7d9a3"), + "SLES-15": ("abe2245674a66ec93cff3c93dac7ae04a99c6c7e43e2733de214ec188e0d6cae"), + "Ubuntu-20.04": ("a7d385b901f2d1c07f243c816030ad19543e00667615dea1969ce16d29759271"), + "AmazonLinux-2": ("7113b6e2c795933ce8d18d468889168732d3a52a0df4a48ef4bf4497e891083a"), + }, + "23.04.1_gcc-8.2": { + "RHEL-7": ("4e077813121c1cbd8abd1afe5348cafcce5b70f96affa725c7c2d8671e2d5eed"), + "RHEL-8": ("772aaab9304191e3a398cba2dec21ec22fd0abadcaf44d44f32114968bd3b59d"), + "SLES-15": ("33766ac351fb4628c6b39f16d6bdb310ad09d88b6a6f43740349405c960d4d21"), + "AmazonLinux-2": ("c215ed8de77b5144a60b6552f79ef2b59ccbfac5350f083ef135305ddf643a4e"), + }, + "23.04.1_gcc-7.5": { + "RHEL-7": ("7b2239b2ce5315e1be14dbd8fe15aff2d3b07968d64b5c80c8ab57140b6a17a8"), + "AmazonLinux-2": ("a2e0f176df627c50f851924ac57994f582f63b0f3d42ad0b65c915ea04dc0467"), + }, + "22.1_gcc-11.2": { + "RHEL-7": ("9ce7858525109cca8f4e1d533113b6410d55f10cc4db16c4742562da87a32f2b"), + "RHEL-8": ("24f9f4496e41c2314d4ace25b6e3d63127bd586ff7bdd8a732471cbc65a8023e"), + "SLES-15": ("5b2a88148157c2a6ac5fd5698e9cb5b8717fb5f7afeab156de253f53cef5ab71"), + "Ubuntu-18.04": ("44315990a2bf9cca1f48cd873f97b4282c371b6894c96e58d890ba1ca9ed5b2a"), + "Ubuntu-20.04": ("00c051e0176ac4354d6cf181d38ef5a6d41f5b1f4db0109f3abc5d877d8e0a1f"), + }, + "22.1_gcc-10.2": { + "RHEL-7": ("ca8bf196757b4755f817d97e289305893fbe9a195b6892c90f8414f438f42d83"), + "RHEL-8": ("8a1b65b1086b7b9e0ccd7080f9ed1d411f98a775b61c1e05c000e584877a1e66"), + "SLES-15": ("7d703d7a2954283f11b742e0bc8fee886135d5bc87fe3e700c05b8277de495c3"), + "Ubuntu-18.04": ("fde39a1bad9d904f2b18445252245f30f31848fd4470b58b3124f92c4c641710"), + "Ubuntu-20.04": ("f0dfde5e9f8ca29bb49ea4596cb56ca50c8fda51758a38281e191fb36def812a"), + }, + "22.1_gcc-9.3": { + "RHEL-7": ("76c8ab3687d421153f91cacd33047b65b3650b21e2094d34341a91e94c766425"), + "RHEL-8": ("eebeedddab04a393f4afc499d8681dc531b6bba0312a583afde445efb29ab849"), + "SLES-15": ("e33cc89582a98866aa5e1cf6573a0bbe71b98c1585bbe665173deeb561d9afc5"), + "Ubuntu-18.04": ("453e524cb66c2525443ab09283baef1521c1389d9d967b24fa94539ceaa62088"), + "Ubuntu-20.04": ("521b106652fd50dc23fa056f208b788a1e3e6f4dd6e162b8cd5d835d755cb3af"), + }, + "22.1_gcc-8.2": { + "RHEL-7": ("9a6caa9767367c16a5abc2a3c145f0fccd47052cd5e2b9e3fbf511009a85746c"), + "RHEL-8": ("90009f854ab597ab3f4d6745d90460e01bbbe922bf4bdfd30a3e58e62352f6be"), + "SLES-15": ("0b7a5a5631798cba794810983e6180dd57cb40d5e82a806fdbc8a00f50f01bd6"), + "Ubuntu-18.04": ("7dddedcaf7ce56b10da4a8d21d253f5c6eec928d238233049462b4ce5fece1ae"), + }, + "22.1_gcc-7.5": { + "RHEL-7": ("33c66ed1aa78eec4a8bd9d9c77882e9275232f742dc7808789272dbded0032e0"), + "Ubuntu-18.04": ("523b926595565af96cf8c4109517c30e248bb2336bdf55f626be4e7356c97b98"), + }, + "22.0.2_gcc-11.2": { + "RHEL-7": ("c8191f3a65762955714f020caf2a89e37ff7f9cb2326dc180c746acd8a018acd"), + "RHEL-8": ("d69432a3148c9d2745c70859a0143285537e06920ecfdb4669ff364a9d24972c"), + "SLES-15": ("dab5efa8cad15cc78212a085e7ed9125725fb51924cb79bd556229cde3c4f1a3"), + "Ubuntu-18.04": ("38a9a2f8bf5101dd7a8b66b3eec7647730434b8ee5e4c5efd17a172e2ea1357e"), + "Ubuntu-20.04": ("b7322d0e824615cd6fe784bfd4eeed359f11aa4eeb01a52cb61863844d79791f"), + }, + "22.0.2_gcc-10.2": { + "RHEL-7": ("1b728f7551db8b3d6a710151f24872d6ba8c97a7572581680161441268b9e500"), + "RHEL-8": ("d0e2101db55f25a3ee5723c14c4209d5b082c6b737bad6121ae692e829b50038"), + "SLES-15": ("4de686744937345bc7eeac06db2086535e0230813b87d6b4013f1336a54324a3"), + "Ubuntu-18.04": ("ca08d6942352f4cdec634b5e8c3bfe46a05f04f19d957e6af56c25a433682e66"), + "Ubuntu-20.04": ("25c5288c285fc08160a104dd2c36d2adab7f72b42b99771f93b0dfcb2b3e3230"), + }, + "22.0.2_gcc-9.3": { + "RHEL-7": ("2c2bc000d9819cae7785880b3bab00556fcc5eda3fb48356300048df28876e09"), + "RHEL-8": ("1e992d603af0d1f80f05fffb0d57e3f66a5457fb82c56e38d5aec380f66b7bd9"), + "SLES-15": ("e30b6d989b97f2065f981ce6061a00377455c84018c4639865c774994bab0c71"), + "Ubuntu-18.04": ("fa0fa8367aa18169e045d9ba40f339629f14fdd6e7087b946b9bea9588213d5f"), + "Ubuntu-20.04": ("7d3f6661304ecc7111e8b67b745d6d7fc15306e04e87dac4561e6040ac5f68b0"), + }, + "22.0.2_gcc-8.2": { + "RHEL-7": ("5a8cdbdfceb53252358842e505cfdc35c50af06d8d17d073bab41efdb78a38b5"), + "RHEL-8": ("564f3e2fcdadc831d010aed0a938a419321a9ba8c18978bdad08f53924bd3986"), + "SLES-15": ("c4d43e1ba84e2f09b6223ac148be3f7b4c7f83a4af77255dd1cb7ad0034c713a"), + "Ubuntu-18.04": ("98c752dc997a3abe4ac4db16fd684bdd8aa8d4482bccf93948a593d523e477e0"), + }, + "22.0.2_gcc-7.5": { + "RHEL-7": ("adc76d9b1375330dd424dd85cd1aefa7bceaa3b25a353157d493d98850c0d8fa"), + "Ubuntu-18.04": ("331846312e579e954dac54f69b1ffcda96ab51984050659f2314269e55b58b9e"), + }, + "22.0.1_gcc-11.2": { + "RHEL-7": ("32529fdc70c39084eafe746db6baa487815bb49dae1588ccf2f7bd7929c10f7c"), + "RHEL-8": ("1abd0b1c47cae65ee74510cf6e25946c66f9f4244e4674d5e9f73c442901482c"), + "SLES-15": ("631261d7b29e85e99d208bdd397bdb5fcb0b53fd834b4b5a9cf963789e29f96e"), + "Ubuntu-18.04": ("2ec210ff3c33d94a7cbe0cd7ea92add0b954ab1b1dc438dffa1d5f516e80e3ec"), + "Ubuntu-20.04": ("13e9b98afc01c5444799c7f2ef84716f8a7be11df93b71fe9cfdc7fc6162f6d5"), + }, + "22.0.1_gcc-10.2": { + "RHEL-7": ("d2d91f43872e072ccec0cfab61eccf531daf6f02997e29fef3d738178c023d7a"), + "RHEL-8": ("d642f55937410d2d402589f09e985c05b577d1227063b8247dc5733199e124a4"), + "SLES-15": ("6746de2db361a65edac2ff8dcd4fc84a314fd919df3758c9bad7027dcfadfea2"), + "Ubuntu-18.04": ("f3a7a7cb1768046ef742110fa311c65504074f1a381d295d583848221e267bd9"), + "Ubuntu-20.04": ("5da7450196d94b0aea613cf8e7c4083ae3eb2e905d049db3b300059a9fbf169b"), + }, + "22.0.1_gcc-9.3": { + "RHEL-7": ("8df55f83ccebf9c1de5291c701d7cbeb051ce194ffe2d1f1148b2a6be0d7ea1c"), + "RHEL-8": ("b0e26004c40db3138939b7bddc4bbe54ec7de4e548b5dc697cce5c85a8acbb27"), + "SLES-15": ("963278d35485ec28a8b17a89efcfe0f82d84edc4ff8af838d56648917ec7b547"), + "Ubuntu-18.04": ("3c7d2f7d102954440539d5b541dd1f669d2ccb3daaa14de1f04d6790368d6794"), + "Ubuntu-20.04": ("8e78bef6517f42efd878579aee2cae4e439e3cd5c8a28e3f3fa83254f7189a2f"), + }, + "22.0.1_gcc-8.2": { + "RHEL-7": ("1e682e319c3b07236acc3870bf291a1d0cba884112b447dad7e356fdc42bd06a"), + "RHEL-8": ("1fad5a0de02cda0a23a7864cca653a04ceb4244e362073d2959ce7db4144bb20"), + "SLES-15": ("fa6111264c3fbe29ec084e7322c794640a1b3c40b2f0e01f7637f3f0d87d03e2"), + "Ubuntu-18.04": ("3d092ecd98620b31e813ad726244ff40fdcb012aa055b6695dff51bc1578039d"), + }, + "22.0.1_gcc-7.5": { + "RHEL-7": ("e23702a9fecfc64aa6bd56439a602f0c25b0febce059cb6c0192b575758c6f1a"), + "Ubuntu-18.04": ("bf4e6327eedec656b696f98735aa988a75b0c60185f3c22af6b7e608abbdb305"), + }, +} + + +def get_os_or_pkg_manager(ver): + platform = spack.platforms.host() + if platform.name == "darwin": + return "macOS" + if ver.startswith("22."): + return _os_map_before_23.get(platform.default_os, "") + elif ver.startswith("23."): + return _os_map_before_24.get(platform.default_os, "RHEL-7") + else: + return _os_pkg_map.get(platform.default_os, "rpm") + + +def get_package_url_before_24(version): + base_url = "https://developer.arm.com/-/media/Files/downloads/hpc/arm-performance-libraries" + armpl_version = version.split("_")[0] + armpl_version_dashed = armpl_version.replace(".", "-") + compiler_version = version.split("_", 1)[1] + os = get_os_or_pkg_manager(armpl_version) + if os == "macOS": + if armpl_version.startswith("23.06"): + return ( + f"{base_url}/{armpl_version_dashed}/" + f"armpl_{armpl_version}_{compiler_version}.dmg" + ) + else: + filename = f"arm-performance-libraries_{armpl_version}_macOS.dmg" + return f"{base_url}/{armpl_version_dashed}/macos/{filename}" + filename = f"arm-performance-libraries_{armpl_version}_{os}_{compiler_version}.tar" + os_short = "" + if armpl_version.startswith("22.0."): + os_short = os.replace("-", "") + else: + os_short = os.split(".")[0].lower() + if "amazonlinux" in os_short: + os_short = os_short.replace("amazonlinux", "al") + return f"{base_url}/{armpl_version_dashed}/{os_short}/{filename}" + + +def get_package_url_from_24(version): + base_url = ( + "https://developer.arm.com/-/cdn-downloads/permalink/Arm-Performance-Libraries/Version" + ) + pkg_system = get_os_or_pkg_manager(version) + + extension = "tgz" if pkg_system == "macOS" else "tar" + + full_name_library = f"arm-performance-libraries_{version}_{pkg_system}" + + if pkg_system != "macOS": + full_name_library = f"{full_name_library}_gcc" + file_name = f"{full_name_library}.{extension}" + + url_parts = f"{base_url}_{version}/{file_name}" + return url_parts + + +def get_package_url(version): + if version[:2] >= "24": + return get_package_url_from_24(version) + else: + return get_package_url_before_24(version) + + +def get_armpl_prefix(spec): + armpl_dir = [ + d + for d in os.listdir(spec.prefix) + if os.path.isdir(os.path.join(spec.prefix, d)) and d.startswith("armpl_") + ][0] + return os.path.join(spec.prefix, armpl_dir) + + +def get_armpl_suffix(spec): + suffix = "" + if spec.satisfies("@24:"): + suffix += "_ilp64" if spec.satisfies("+ilp64") else "_lp64" + else: + suffix += "_ilp64" if spec.satisfies("+ilp64") else "" + suffix += "_mp" if spec.satisfies("threads=openmp") else "" + return suffix + + +class ArmplGcc(Package): + """Arm Performance Libraries provides optimized standard core math libraries for + high-performance computing applications on Arm processors.""" + + homepage = "https://developer.arm.com/tools-and-software/server-and-hpc/downloads/arm-performance-libraries" + maintainers("paolotricerri") + + for ver, packages in _versions.items(): + key = get_os_or_pkg_manager(ver) + sha256sum = packages.get(key) + url = get_package_url(ver) + if sha256sum: + extension = os.path.splitext(url)[1] + # Don't attempt to expand .dmg files + expand = extension != ".dmg" + version(ver, sha256=sha256sum, url=url, extension=extension, expand=expand) + + conflicts("target=x86_64:", msg="Only available on Aarch64") + conflicts("target=ppc64:", msg="Only available on Aarch64") + conflicts("target=ppc64le:", msg="Only available on Aarch64") + + conflicts("%gcc@:11", when="@23.10_gcc-12.2") + conflicts("%gcc@:10", when="@23.10_gcc-11.3") + conflicts("%gcc@:9", when="@23.10_gcc-10.4") + conflicts("%gcc@:8", when="@23.10_gcc-9.3") + conflicts("%gcc@:7", when="@23.10_gcc-8.2") + conflicts("%gcc@:6", when="@23.10_gcc-7.5") + + conflicts("%gcc@:11", when="@23.04.1_gcc-12.2") + conflicts("%gcc@:10", when="@23.04.1_gcc-11.3") + conflicts("%gcc@:9", when="@23.04.1_gcc-10.2") + conflicts("%gcc@:8", when="@23.04.1_gcc-9.3") + conflicts("%gcc@:7", when="@23.04.1_gcc-8.2") + conflicts("%gcc@:6", when="@23.04.1_gcc-7.5") + + conflicts("%gcc@:10", when="@22.1_gcc-11.2") + conflicts("%gcc@:9", when="@22.1_gcc-10.2") + conflicts("%gcc@:8", when="@22.1_gcc-9.3") + conflicts("%gcc@:7", when="@22.1_gcc-8.2") + conflicts("%gcc@:6", when="@22.1_gcc-7.5") + + conflicts("%gcc@:10", when="@22.0.2_gcc-11.2") + conflicts("%gcc@:9", when="@22.0.2_gcc-10.2") + conflicts("%gcc@:8", when="@22.0.2_gcc-9.3") + conflicts("%gcc@:7", when="@22.0.2_gcc-8.2") + conflicts("%gcc@:6", when="@22.0.2_gcc-7.5") + + conflicts("%gcc@:10", when="@22.0.1_gcc-11.2") + conflicts("%gcc@:9", when="@22.0.1_gcc-10.2") + conflicts("%gcc@:8", when="@22.0.1_gcc-9.3") + conflicts("%gcc@:7", when="@22.0.1_gcc-8.2") + conflicts("%gcc@:6", when="@22.0.1_gcc-7.5") + + conflicts("%msvc", msg="Not compatible with MSVC compiler.") + + variant("ilp64", default=False, description="use ilp64 specific Armpl library") + variant("shared", default=True, description="enable shared libs") + variant( + "threads", + default="none", + description="Multithreading support", + values=("openmp", "none"), + multi=False, + ) + + provides("blas") + provides("lapack") + provides("fftw-api@3") + + # Run the installer with the desired install directory + def install(self, spec, prefix): + if spec.platform == "darwin": + hdiutil = which("hdiutil") + # Mount image + mountpoint = os.path.join(self.stage.path, "mount") + if spec.satisfies("@:23"): + dmg_file = self.stage.archive_file + else: + # The archive file only extracts to one .dmg file + dmg_file = os.path.join( + self.stage.source_path, os.listdir(self.stage.source_path)[0] + ) + hdiutil("attach", "-mountpoint", mountpoint, dmg_file) + try: + # Run installer + exe_name = [f for f in os.listdir(mountpoint) if f.endswith(".sh")][0] + installer = Executable(os.path.join(mountpoint, exe_name)) + installer("-y", f"--install_dir={prefix}") + finally: + # Unmount image + hdiutil("detach", mountpoint) + return + if self.compiler.name != "gcc": + raise spack.error.SpackError(("Only compatible with GCC.\n")) + + with when("@:22"): + armpl_version = spec.version.up_to(3).string.split("_")[0] + with when("@23:"): + armpl_version = spec.version.string.split("_")[0] + + exe = Executable( + f"./arm-performance-libraries_{armpl_version}_" + f"{get_os_or_pkg_manager(armpl_version)}.sh" + ) + exe("--accept", "--force", "--install-to", prefix) + + @property + def lib_suffix(self): + return get_armpl_suffix(self.spec) + + @property + def blas_libs(self): + armpl_prefix = get_armpl_prefix(self.spec) + + libname = "libarmpl" + self.lib_suffix + + # Get ArmPL Lib + armpl_libs = find_libraries( + [libname, "libamath", "libastring"], + root=armpl_prefix, + shared=self.spec.satisfies("+shared"), + recursive=True, + ) + + armpl_libs += find_system_libraries(["libm"]) + + return armpl_libs + + @property + def lapack_libs(self): + return self.blas_libs + + @property + def fftw_libs(self): + return self.blas_libs + + @property + def libs(self): + return self.blas_libs + + @property + def headers(self): + armpl_dir = get_armpl_prefix(self.spec) + + if self.spec.satisfies("@24:"): + suffix = "include" + else: + suffix = "include" + self.lib_suffix + + incdir = join_path(armpl_dir, suffix) + + hlist = find_all_headers(incdir) + hlist.directories = [incdir] + return hlist + + def setup_run_environment(self, env): + armpl_dir = get_armpl_prefix(self.spec) + if self.spec.platform == "darwin": + env.prepend_path("DYLD_LIBRARY_PATH", join_path(armpl_dir, "lib")) + else: + env.prepend_path("LD_LIBRARY_PATH", join_path(armpl_dir, "lib")) + + @run_after("install") + def check_install(self): + armpl_dir = get_armpl_prefix(self.spec) + suffix = get_armpl_suffix(self.spec) + armpl_example_dir = join_path(armpl_dir, f"examples{suffix}") + + # run example makefile + if self.spec.platform == "darwin": + # Fortran examples on MacOS requires flang-new which is + # not commonly installed, so only run the C examples. + make("-C", armpl_example_dir, "ARMPL_DIR=" + armpl_dir, "c_examples") + else: + make("-C", armpl_example_dir, "ARMPL_DIR=" + armpl_dir) + # clean up + make("-C", armpl_example_dir, "ARMPL_DIR=" + armpl_dir, "clean") + + @run_after("install") + def make_pkgconfig_files(self): + if self.spec.satisfies("@:22"): + # ArmPL pkgconfig files do not have .pc extension and are thus not found by pkg-config + armpl_dir = get_armpl_prefix(self.spec) + for f in find(join_path(armpl_dir, "pkgconfig"), "*"): + symlink(f, f + ".pc") + + def setup_dependent_build_environment(self, env, dependent_spec): + armpl_dir = get_armpl_prefix(self.spec) + if self.spec.satisfies("@:22"): + # pkgconfig directory is not in standard ("lib", "lib64", "share") location + env.append_path("PKG_CONFIG_PATH", join_path(armpl_dir, "pkgconfig")) + else: + env.append_path("PKG_CONFIG_PATH", join_path(armpl_dir, "lib/pkgconfig")) diff --git a/repos/forked/packages/blat/package.py b/repos/forked/packages/blat/package.py new file mode 100644 index 00000000..43838979 --- /dev/null +++ b/repos/forked/packages/blat/package.py @@ -0,0 +1,44 @@ +# Copyright 2013-2024 Lawrence Livermore National Security, LLC and other +# Spack Project Developers. See the top-level COPYRIGHT file for details. +# +# SPDX-License-Identifier: (Apache-2.0 OR MIT) + +from spack.package import * + + +class Blat(Package): + """BLAT (BLAST-like alignment tool) is a pairwise sequence + alignment algorithm.""" + + homepage = "https://genome.ucsc.edu/FAQ/FAQblat.html" + url = "https://genome-test.gi.ucsc.edu/~kent/src/blatSrc35.zip" + + maintainers("snehring") + + version("37", sha256="88ee2b272d42ab77687c61d200b11f1d58443951069feb7e10226a2509f84cf2") + version("35", sha256="06d9bcf114ec4a4b21fef0540a0532556b6602322a5a2b33f159dc939ae53620") + + depends_on("libpng") + depends_on("libuuid", when="@37:") + depends_on("mysql-client", when="@37:") + depends_on("openssl@1.1") + + @when("@37") + def patch(self): + filter_file(r",src\/hg\/", ",NOMATCHME", "inc/userApp.mk") + filter_file(r"^\s*L\+=.*\/libssl\.a", "L+=-lssl ", "inc/common.mk") + + def flag_handler(self, name, flags): + if self.spec.satisfies("@35") and name.lower() == "cflags": + flags.append("-fcommon") + return (flags, None, None) + + def setup_build_environment(self, env): + env.set("MACHTYPE", "x86_64") + env.set("SSLDIR", self.spec["openssl"].prefix.include) + env.set("SSL_DIR", self.spec["openssl"].prefix) + + def install(self, spec, prefix): + filter_file("CC=.*", "CC={0}".format(spack_cc), "inc/common.mk") + mkdirp(prefix.bin) + make("BINDIR=%s" % prefix.bin) diff --git a/repos/forked/packages/bpp-core/package.py b/repos/forked/packages/bpp-core/package.py index 2d96afb5..a783bcd7 100644 --- a/repos/forked/packages/bpp-core/package.py +++ b/repos/forked/packages/bpp-core/package.py @@ -1,4 +1,4 @@ -# Copyright 2013-2023 Lawrence Livermore National Security, LLC and other +# Copyright 2013-2024 Lawrence Livermore National Security, LLC and other # Spack Project Developers. See the top-level COPYRIGHT file for details. # # SPDX-License-Identifier: (Apache-2.0 OR MIT) @@ -13,7 +13,9 @@ class BppCore(CMakePackage): url = "https://github.com/BioPP/bpp-core/archive/refs/tags/v2.4.1.tar.gz" git = "https://github.com/BioPP/bpp-core.git" - maintainers = ["snehring"] + maintainers("snehring") + + license("CECILL-2.0") version("2023-07-26", commit="fecd6f1c1896b81244d3fd396680c1a48b957eda") version("2.4.1", sha256="1150b8ced22cff23dd4770d7c23fad11239070b44007740e77407f0d746c0af6") diff --git a/repos/forked/packages/bpp-phyl-omics/package.py b/repos/forked/packages/bpp-phyl-omics/package.py index f557e251..6ede2504 100644 --- a/repos/forked/packages/bpp-phyl-omics/package.py +++ b/repos/forked/packages/bpp-phyl-omics/package.py @@ -1,4 +1,4 @@ -# Copyright 2013-2023 Lawrence Livermore National Security, LLC and other +# Copyright 2013-2024 Lawrence Livermore National Security, LLC and other # Spack Project Developers. See the top-level COPYRIGHT file for details. # # SPDX-License-Identifier: (Apache-2.0 OR MIT) @@ -13,6 +13,8 @@ class BppPhylOmics(CMakePackage): url = "https://github.com/BioPP/bpp-phyl-omics/archive/v2.4.1.tar.gz" git = "https://github.com/BioPP/bpp-phyl-omics.git" + license("CECILL-2.0") + version("2023-04-17", commit="2798cde9d04ab86c243c89a475a921949d6df46b") version("2.4.1", sha256="fb0908422e59c71065db874e68d5c71acddf66d8a51776f7e04a5f8d5f0f6577") version("2.4.0", sha256="56cc0da613e72dbb8d0ed10d8209e182804a850fd96df1481e4710df97f18435") diff --git a/repos/forked/packages/bpp-phyl/package.py b/repos/forked/packages/bpp-phyl/package.py index e25106c2..abe3135a 100644 --- a/repos/forked/packages/bpp-phyl/package.py +++ b/repos/forked/packages/bpp-phyl/package.py @@ -1,4 +1,4 @@ -# Copyright 2013-2023 Lawrence Livermore National Security, LLC and other +# Copyright 2013-2024 Lawrence Livermore National Security, LLC and other # Spack Project Developers. See the top-level COPYRIGHT file for details. # # SPDX-License-Identifier: (Apache-2.0 OR MIT) @@ -13,7 +13,10 @@ class BppPhyl(CMakePackage): url = "https://github.com/BioPP/bpp-phyl/archive/refs/tags/v2.4.1.tar.gz" git = "https://github.com/BioPP/bpp-phyl.git" - maintainers = ["snehring"] + + maintainers("snehring") + + license("CECILL-2.0") version("2023-09-04", commit="17da39da8c272115b2fb429cad82a8a73e88f51a") version("2.4.1", sha256="e7bf7d4570f756b7773904ffa600ffcd77c965553ddb5cbc252092d1da962ff2") diff --git a/repos/forked/packages/bpp-popgen/package.py b/repos/forked/packages/bpp-popgen/package.py index 4a0b5a13..e2c921c7 100644 --- a/repos/forked/packages/bpp-popgen/package.py +++ b/repos/forked/packages/bpp-popgen/package.py @@ -1,4 +1,4 @@ -# Copyright 2013-2023 Lawrence Livermore National Security, LLC and other +# Copyright 2013-2024 Lawrence Livermore National Security, LLC and other # Spack Project Developers. See the top-level COPYRIGHT file for details. # # SPDX-License-Identifier: (Apache-2.0 OR MIT) @@ -13,7 +13,9 @@ class BppPopgen(CMakePackage): url = "https://github.com/BioPP/bpp-popgen/archive/refs/tags/v2.4.1.tar.gz" git = "https://github.com/BioPP/bpp-popgen.git" - maintainers = ["snehring"] + maintainers("snehring") + + license("CECILL-2.0") version("2023-05-07", commit="4ed20e21211b8fa19226c9151b9a6d1f014ed201") version("2.4.1", sha256="03b57d71a63c8fa7f11c085e531d0d691fc1d40d4ea541070dabde0ab3baf413") diff --git a/repos/forked/packages/bpp-seq-omics/package.py b/repos/forked/packages/bpp-seq-omics/package.py index 5ccff8b5..85985fbc 100644 --- a/repos/forked/packages/bpp-seq-omics/package.py +++ b/repos/forked/packages/bpp-seq-omics/package.py @@ -1,4 +1,4 @@ -# Copyright 2013-2023 Lawrence Livermore National Security, LLC and other +# Copyright 2013-2024 Lawrence Livermore National Security, LLC and other # Spack Project Developers. See the top-level COPYRIGHT file for details. # # SPDX-License-Identifier: (Apache-2.0 OR MIT) @@ -13,6 +13,8 @@ class BppSeqOmics(CMakePackage): url = "https://github.com/BioPP/bpp-seq-omics/archive/v2.4.1.tar.gz" git = "https://github.com/BioPP/bpp-seq-omics.git" + license("CECILL-2.0") + version("2023-05-07", commit="65451f6b8484ba8fa747a9b97322a27a7bdcbe11") version("2.4.1", sha256="200da925b42065998d825f0b2a37e26b00a865883c85bc332beb3a94cae1e08b") version("2.4.0", sha256="3217c7d6253f32c101d628aa039f2b3c49c3990de46c6842f2b88637da408e21") diff --git a/repos/forked/packages/bpp-seq/package.py b/repos/forked/packages/bpp-seq/package.py index 6df02b40..6b1529ae 100644 --- a/repos/forked/packages/bpp-seq/package.py +++ b/repos/forked/packages/bpp-seq/package.py @@ -1,4 +1,4 @@ -# Copyright 2013-2023 Lawrence Livermore National Security, LLC and other +# Copyright 2013-2024 Lawrence Livermore National Security, LLC and other # Spack Project Developers. See the top-level COPYRIGHT file for details. # # SPDX-License-Identifier: (Apache-2.0 OR MIT) @@ -13,7 +13,9 @@ class BppSeq(CMakePackage): url = "https://github.com/BioPP/bpp-seq/archive/refs/tags/v2.4.1.tar.gz" git = "https://github.com/BioPP/bpp-seq.git" - maintainers = ["snehring"] + maintainers("snehring") + + license("CECILL-2.0") version("2023-04-24", commit="3b0698d1831f3b3b1ee152eeab203d34f889745d") version("2.4.1", sha256="dbfcb04803e4b7f08f9f159da8a947c91906c3ca8b20683ac193f6dc524d4655") diff --git a/repos/forked/packages/bpp-suite/package.py b/repos/forked/packages/bpp-suite/package.py index 1540edfe..863075a5 100644 --- a/repos/forked/packages/bpp-suite/package.py +++ b/repos/forked/packages/bpp-suite/package.py @@ -1,4 +1,4 @@ -# Copyright 2013-2023 Lawrence Livermore National Security, LLC and other +# Copyright 2013-2024 Lawrence Livermore National Security, LLC and other # Spack Project Developers. See the top-level COPYRIGHT file for details. # # SPDX-License-Identifier: (Apache-2.0 OR MIT) @@ -13,7 +13,9 @@ class BppSuite(CMakePackage): homepage = "http://biopp.univ-montp2.fr/wiki/index.php/BppSuite" url = "https://github.com/BioPP/bppsuite/archive/refs/tags/v2.4.1.tar.gz" - maintainers = ["snehring"] + maintainers("snehring") + + license("CECILL-2.0") version("2.4.1", sha256="0485adcc17e37439069d27e4fac144e5ae38036ba21f31e6d21f070ce4ea5199") version( diff --git a/repos/hpccf/packages/bwtool/package.py b/repos/forked/packages/bwtool/package.py similarity index 100% rename from repos/hpccf/packages/bwtool/package.py rename to repos/forked/packages/bwtool/package.py diff --git a/repos/forked/packages/circos/package.py b/repos/forked/packages/circos/package.py new file mode 100644 index 00000000..83014ee3 --- /dev/null +++ b/repos/forked/packages/circos/package.py @@ -0,0 +1,45 @@ +# Copyright 2013-2024 Lawrence Livermore National Security, LLC and other +# Spack Project Developers. See the top-level COPYRIGHT file for details. +# +# SPDX-License-Identifier: (Apache-2.0 OR MIT) + +from os import symlink + +from spack.package import * + + +class Circos(Package): + """Circos is a software package for visualizing data and information.""" + + homepage = "http://circos.ca/" + url = "http://circos.ca/distribution/circos-0.69-9.tgz" + + license("GPL-3.0-only") + + version("0.69-9", sha256="34d8d7ebebf3f553d62820f8f4a0a57814b610341f836b4740c46c3057f789d2") + + depends_on("perl", type="run") + depends_on("perl-clone", type="run") + depends_on("perl-config-general", type="run") + depends_on("perl-exporter-tiny", type="run") + depends_on("perl-font-ttf", type="run") + depends_on("perl-gd", type="run") + depends_on("perl-io-string", type="run") + depends_on("perl-list-moreutils", type="run") + depends_on("perl-math-round", type="run") + depends_on("perl-math-bezier", type="run") + depends_on("perl-math-vecstat", type="run") + depends_on("perl-params-validate", type="run") + depends_on("perl-readonly", type="run") + depends_on("perl-regexp-common", type="run") + depends_on("perl-set-intspan", type="run") + depends_on("perl-statistics-basic", type="run") + depends_on("perl-svg", type="run") + depends_on("perl-text-format", type="run") + + def install(self, spec, prefix): + basedir = prefix.lib.circos + install_tree(".", basedir) + + mkdirp(prefix.bin) + symlink(basedir.bin.circos, prefix.bin.circos) diff --git a/repos/hpccf/packages/ctffind/configure.patch b/repos/forked/packages/ctffind/configure.patch similarity index 100% rename from repos/hpccf/packages/ctffind/configure.patch rename to repos/forked/packages/ctffind/configure.patch diff --git a/repos/hpccf/packages/ctffind/ctffind.cpp.patch b/repos/forked/packages/ctffind/ctffind.cpp.patch similarity index 100% rename from repos/hpccf/packages/ctffind/ctffind.cpp.patch rename to repos/forked/packages/ctffind/ctffind.cpp.patch diff --git a/repos/hpccf/packages/ctffind/package.py b/repos/forked/packages/ctffind/package.py similarity index 100% rename from repos/hpccf/packages/ctffind/package.py rename to repos/forked/packages/ctffind/package.py diff --git a/repos/hpccf/packages/ctffind/power9.patch b/repos/forked/packages/ctffind/power9.patch similarity index 100% rename from repos/hpccf/packages/ctffind/power9.patch rename to repos/forked/packages/ctffind/power9.patch diff --git a/repos/forked/packages/dislin/package.py b/repos/forked/packages/dislin/package.py new file mode 100644 index 00000000..10312977 --- /dev/null +++ b/repos/forked/packages/dislin/package.py @@ -0,0 +1,61 @@ +# Copyright 2013-2022 Lawrence Livermore National Security, LLC and other +# Spack Project Developers. See the top-level COPYRIGHT file for details. +# +# SPDX-License-Identifier: (Apache-2.0 OR MIT) + +from spack.package import * + + +class Dislin(Package): + """DISLIN is a high level and easy to use graphics library for displaying + data as curves, bar graphs, pie charts, 3D-colour plots, surfaces, + contours and maps.""" + + homepage = "https://www.mps.mpg.de/dislin" + url = "https://www.dislin.de/downloads/linux/i586_64/dislin-11.5.linux.i586_64.tar.gz" + + # Our package provides the newer 11.5 + + version("11.5", sha256="344eade6b409aff41d463f1879d5dec1079ee13d3fccdd097fd7717a947c87dc") + version("11.0", sha256="13d28188924e0b0b803d72aa4b48be4067e98e890701b0aa6f54a11c7d34dd10", + url="ftp://ftp.gwdg.de/pub/grafik/dislin/linux/i586_64/dislin-11.0.linux.i586_64.tar.gz") + + depends_on("motif") + depends_on("gl") + depends_on("glx") + + @property + def libs(self): + query_parameters = self.spec.last_query.extra_parameters + query2libraries = { + tuple(): ["libdislin"], + ("d",): ["libdislin_d"], + ("c",): ["libdislnc"], + ("cd",): ["libdislnc_d"], + ("cxx",): ["libdiscpp"], + ("java",): ["libdisjava"], + } + + key = tuple(query_parameters) + libraries = query2libraries[key] + + return find_libraries(libraries, root=self.prefix, shared=True, recursive=True) + + def setup_build_environment(self, env): + env.set("DISLIN", self.prefix) + + def setup_run_environment(self, env): + env.set("DISLIN", self.prefix) + env.prepend_path("PATH", self.prefix) + env.prepend_path("LD_LIBRARY_PATH", self.prefix) + env.prepend_path("LD_LIBRARY_PATH", self.spec["motif"].prefix.lib) + env.prepend_path("LD_LIBRARY_PATH", self.spec["mesa"].prefix.lib) + + def setup_dependent_run_environment(self, env, dependent_spec): + env.prepend_path("LD_LIBRARY_PATH", self.prefix) + + def install(self, spec, prefix): + dislin_install = Executable("./INSTALL") + dislin_install() + with working_dir("examples"): + install("dislin_d.h", prefix) diff --git a/repos/forked/packages/environment-modules/package.py b/repos/forked/packages/environment-modules/package.py new file mode 100644 index 00000000..3af43f3f --- /dev/null +++ b/repos/forked/packages/environment-modules/package.py @@ -0,0 +1,180 @@ +# Copyright 2013-2024 Lawrence Livermore National Security, LLC and other +# Spack Project Developers. See the top-level COPYRIGHT file for details. +# +# SPDX-License-Identifier: (Apache-2.0 OR MIT) + + +from spack.package import * + + +class EnvironmentModules(Package): + """The Environment Modules package provides for the dynamic + modification of a user's environment via module files. + """ + + homepage = "https://cea-hpc.github.io/modules/" + url = "https://github.com/cea-hpc/modules/releases/download/v5.5.0/modules-5.5.0.tar.gz" + git = "https://github.com/cea-hpc/modules.git" + + maintainers("xdelaruelle") + + version("main", branch="main") + version("5.5.0", sha256="ad0e360c7adc2515a99836863d98499b3ad89cd7548625499b20293845b040cb") + version("5.4.0", sha256="586245cbf9420866078d8c28fce8ef4f192530c69a0f368f51e848340dcf3b90") + version("5.3.1", sha256="d02f9ce4f8baf6c99edceb7c73bfdd1e97d77bcc4725810b86efed9f58dda962") + version("5.3.0", sha256="21b8daa0181044ef65097a1e3517af1f24e7c7343cc5bdaf70be11e3cb0edb51") + version("5.2.0", sha256="48f9f10864303df628a48cab17074820a6251ad8cd7d66dd62aa7798af479254") + version("5.1.1", sha256="1985f79e0337f63d6564b08db0238cf96a276a4184def822bb8ad37996dc8295") + version("5.1.0", sha256="1ab1e859b9c8bca8a8d332945366567fae4cf8dd7e312a689daaff46e7ffa949") + version("5.0.1", sha256="33a598eaff0713de09e479c2636ecde188b982584e56377f234e5065a61be7ba") + version("5.0.0", sha256="428e23ac51a6006605de65ed9114d544a5506cb4b6bfb03d8522778f13e4f7ea") + version("4.8.0", sha256="d6b45cadc2146ed5e0b25a96d44643ad516054eb7745acb14a1dc7bf30744f6e") + version("4.7.1", sha256="ee7ecd62bbbde6d51e30788a97800c39e72515b6a910839fb84041b35ba42b4d") + version("4.7.0", sha256="3ab0a649e23b4dd00963e4cae60e573b449194ecb4035c5ce487330b272b4d06") + version("4.6.1", sha256="3445df39abe5838b94552b53e7dbff56ada8347b9fdc6c04a72297d5b04af76f") + version("4.6.0", sha256="b42b14bb696bf1075ade1ecaefe7735dbe411db4c29031a1dae549435eafa946") + version("4.5.3", sha256="7cbd9c61e6dcd82a3f81b5ced92c3cf84ecc5489639bdfc94869256383a2c915") + version("4.5.2", sha256="74ccc9ab0fea0064ff3f4c5841435cef13cc6d9869b3c2b25e5ca4efa64a69a1") + version("4.5.1", sha256="7d4bcc8559e7fbbc52e526fc86a15b161ff4422aa49eee37897ee7a48eb64ac2") + version("4.5.0", sha256="5f46336f612553af5553d99347f387f733de0aaa0d80d4572e67615289382ec8") + version("4.4.1", sha256="3c20cfb2ff8a4d74ac6d566e7b5fa9dd220d96d17e6d8a4ae29b1ec0107ee407") + version("4.4.0", sha256="4dd55ad6cc684905e891ad1ba9e3c542e79eea0a9cd9a0e99cd77abe6ed63fab") + version("4.3.1", sha256="979efb5b3d3c8df2c3c364aaba61f97a459456fc5bbc092dfc02677da63e5654") + version("4.3.0", sha256="231f059c4109a2d3028c771f483f6c92f1f3689eb0033648ce00060dad00e103") + version("4.2.5", sha256="3375b454568e7bbec7748cd6173516ef9f30a3d8e13c3e99c02794a6a3bc3c8c") + version("4.2.4", sha256="416dda94141e4778356e2aa9ba8687e6522a1eb197b3caf00a82e5fa2707709a") + version("4.2.3", sha256="f667134cca8e2c75e12a00b50b5605d0d8068efa5b821f5b3c3f0df06fd79411") + version("4.2.2", sha256="481fe8d03eec6806c1b401d764536edc2c233ac9d82091a10094de6101867afc") + version("4.2.1", sha256="c796ea6a03e22d63886ca9ec6b1bef821e8cb09f186bd007f63653e31e9cb595") + version("4.2.0", sha256="d439dfa579a633108c4f06574ed9bc3b91b8610d2ce3a6eb803bf377d0284be7") + version("4.1.4", sha256="965b6056ea6b72b87d9352d4c1db1d7a7f9f358b9408df2689d823b932d6aa7f") + version("4.1.3", sha256="dab82c5bc20ccea284b042d6af4bd6eaba95f4eaadd495a75413115d33a3151f") + version("4.1.2", sha256="d1f54f639d1946aa1d7ae8ae03752f8ac464a879c14bc35e63b6a87b8a0b7522") + version("4.1.1", sha256="998e9cc936045b4e84f28ca60c4680c08385a210d6bb95fc31c28a7d634a9357") + version("4.1.0", sha256="d98aa369219bf0a4ec41efe7cb8d1127d34cb07666088dd79da6b424196d4cfd") + version("4.0.0", sha256="f0ab7f6a747863cb980681a904a3c9380e2e52de6eb046cfa285e5e225f9ac47") + version( + "3.2.10", + sha256="fb05c82a83477805a1d97737a9f0ca0db23f69b7bce504f1609ba99477b03955", + url="http://prdownloads.sourceforge.net/modules/modules-3.2.10.tar.gz", + ) + + variant("X", default=True, description="Build with X functionality") + variant( + "etcdir", + default="PREFIX/etc", + values=any, + description="Directory for the executable configuration scripts", + when="@4.1:" + ) + + depends_on("c", type="build") # generated + depends_on("less", type=("build", "run"), when="@4.1:") + + with when("@main"): + depends_on("autoconf", type="build") + depends_on("automake", type="build") + depends_on("libtool", type="build") + depends_on("m4", type="build") + depends_on("python", type="build") + depends_on("py-sphinx@1.0:", type="build") + depends_on("gzip", type="build") + + # Dependencies: + depends_on("tcl", type=("build", "link", "run")) + depends_on("tcl@8.4:", type=("build", "link", "run"), when="@4.0.0:4.8") + depends_on("tcl@8.5:8", type=("build", "link", "run"), when="@5.0.0:5.4.0") + depends_on("tcl@8.5:", type=("build", "link", "run"), when="@5.5.0:") + + def patch(self): + etcdir = self.spec.variants["etcdir"].value + if etcdir != "PREFIX/etc": + filter_file( + "$(INSTALL_DIR) '$(DESTDIR)$(etcdir)'", + "", + "Makefile", + string=True + ) + filter_file( + "$(INSTALL_DATA) siteconfig.tcl '$(DESTDIR)$(etcdir)/'", + "", + "Makefile", + string=True + ) + + def install(self, spec, prefix): + tcl = spec["tcl"] + + config_args = [ + "--prefix=" + prefix, + # It looks for tclConfig.sh + "--with-tcl=" + tcl.libs.directories[0], + "--datarootdir=" + prefix.share, + ] + + # ./configure script on version 4.5.2 breaks when specific options are + # set (see https://github.com/cea-hpc/modules/issues/354) + if not spec.satisfies("@4.5.2"): + config_args.extend(["--disable-dependency-tracking", "--disable-silent-rules"]) + + if spec.satisfies("~X"): + config_args = ["--without-x"] + config_args + + if self.spec.satisfies("@5.5.0:"): + config_args.extend(["--enable-conflict-unload"]) + + etcdir = spec.variants["etcdir"].value + if etcdir != "PREFIX/etc": + config_args.extend([f"--etcdir={etcdir}", "--with-initconf-in=initdir"]) + + if "@4.4.0:4.8" in self.spec: + config_args.extend( + [ + "--with-icase=search", + "--enable-extended-default", + "--enable-advanced-version-spec", + ] + ) + + if "@4.3.0:4.8" in self.spec: + config_args.extend(["--enable-color"]) + + if "@4.2.0:4.8" in self.spec: + config_args.extend(["--enable-auto-handling"]) + + if "@4.1.0:" in self.spec: + config_args.extend( + [ + # Variables in quarantine are empty during module command + # start-up and they will be restored to the value they had + # in the environment once the command starts + "--with-quarantine-vars=LD_LIBRARY_PATH LD_PRELOAD" + ] + ) + + if "@4.0.0:4.8" in self.spec: + config_args.extend(["--disable-compat-version"]) + + if "@4.0.0:" in self.spec: + config_args.extend(["--with-tclsh={0}".format(tcl.prefix.bin.tclsh)]) + + if "@3.2.10" in self.spec: + # See: https://sourceforge.net/p/modules/bugs/62/ + config_args.extend(["--disable-debug", "CPPFLAGS=-DUSE_INTERP_ERRORLINE"]) + + if "@:3.2" in self.spec: + config_args.extend( + [ + "--without-tclx", + "--with-tclx-ver=0.0", + "--with-tcl-ver={0}".format(tcl.version.up_to(2)), + "--disable-versioning", + ] + ) + + if self.spec.satisfies("@4.1:"): + config_args.append(f"--with-pager={str(self.spec['less'].prefix.bin.less)}") + + configure(*config_args) + make() + make("install") diff --git a/repos/forked/packages/genemark-et/package.py b/repos/forked/packages/genemark-et/package.py new file mode 100644 index 00000000..4acb7e1a --- /dev/null +++ b/repos/forked/packages/genemark-et/package.py @@ -0,0 +1,69 @@ +# Copyright 2013-2022 Lawrence Livermore National Security, LLC and other +# Spack Project Developers. See the top-level COPYRIGHT file for details. +# +# SPDX-License-Identifier: (Apache-2.0 OR MIT) + +import glob +import os + +from spack.package import * + + +class GenemarkEt(Package): + """Gene Prediction in Bacteria, archaea, Metagenomes and + Metatranscriptomes. + When downloaded this file is named the same for all versions. + Spack will search your current directory for the download file. + Alternatively, add this file to a mirror so that Spack can find it. + For instructions on how to set up a mirror, see + https://spack.readthedocs.io/en/latest/mirrors.html""" + + homepage = "http://topaz.gatech.edu/GeneMark" + manual_download = True + + version("4.71", sha256="629f430e7262bdb5df8f24413e65d26e35eb10ea34212145b692ee4689591e54") + version("4.69", sha256="027a060d6e0654d4d2a09bc97dde9bd6efd60bc4dc3e0183f212ddd5e6854ae7") + version("4.65", sha256="62ea2dfa1954ab25edcc118dbeaeacf15924274fb9ed47bc54716cfd15ad04fe") + version("4.46", sha256="856b0b6c7cbd12835e140ff04ecd9124376348efd65f76bfd8b8e08c1834eac0") + version("4.38", sha256="cee3bd73d331be44159eac15469560d0b07ffa2c98ac764c37219e1f3b7d3146") + + depends_on("perl", type=("build", "run")) + depends_on("perl-yaml", type=("build", "run")) + depends_on("perl-hash-merge", type=("build", "run")) + depends_on("perl-parallel-forkmanager", type=("build", "run")) + depends_on("perl-logger-simple", when="@:4.46", type=("build", "run")) + depends_on("perl-mce", when="@4.65:", type=("build", "run")) + depends_on("perl-thread-queue", when="@4.65:", type=("build", "run")) + depends_on("perl-threads", when="@4.65:", type=("build", "run")) + + def url_for_version(self, version): + if version >= Version("4.65"): + return "file://{0}/gmes_linux_64.tar.gz".format(os.getcwd()) + else: + return "file://{0}/gm_et_linux_64.tar.gz".format(os.getcwd()) + + def install(self, spec, prefix): + mkdirp(prefix.bin) + mkdirp(prefix.bin.heu_dir) + if self.version <= Version("4.38"): + source_dir = "gmes_petap" + else: + source_dir = self.stage.source_path + with working_dir(source_dir): + install_tree("lib", prefix.lib) + files = glob.iglob("*") + for file in files: + if os.path.isfile(file): + install(file, prefix.bin) + install_tree("heu_dir", prefix.bin.heu_dir) + + @run_after("install") + def filter_sbang(self): + with working_dir(self.prefix.bin): + pattern = "^#!.*/usr/bin/perl" + repl = "#!{0}".format(self.spec["perl"].command.path) + files = glob.iglob("*.pl") + filter_file(pattern, repl, *files, backup=False) + + def setup_run_environment(self, env): + env.prepend_path("PERL5LIB", self.prefix.lib) diff --git a/repos/forked/packages/graphicsmagick/package.py b/repos/forked/packages/graphicsmagick/package.py index 53a58d3d..2f57bc8d 100644 --- a/repos/forked/packages/graphicsmagick/package.py +++ b/repos/forked/packages/graphicsmagick/package.py @@ -18,6 +18,7 @@ class Graphicsmagick(AutotoolsPackage): homepage = "http://www.graphicsmagick.org/" url = "https://sourceforge.net/projects/graphicsmagick/files/graphicsmagick/1.3.29/GraphicsMagick-1.3.29.tar.xz/download" + version("1.3.43", sha256="2b88580732cd7e409d9e22c6116238bef4ae06fcda11451bf33d259f9cbf399f") version("1.3.34", sha256="df009d5173ed0d6a0c6457234256c5a8aeaace782afa1cbab015d5a12bd4f7a4") version("1.3.33", sha256="130cb330a633580b5124eba5c125bbcbc484298423a97b9bed37ccd50d6dc778") version("1.3.32", sha256="b842a5a0d6c84fd6c5f161b5cd8e02bbd210b0c0b6728dd762b7c53062ba94e1") @@ -25,6 +26,9 @@ class Graphicsmagick(AutotoolsPackage): version("1.3.30", sha256="d965e5c6559f55eec76c20231c095d4ae682ea0cbdd8453249ae8771405659f1") version("1.3.29", sha256="e18df46a6934c8c12bfe274d09f28b822f291877f9c81bd9a506f879a7610cd4") + depends_on("c", type="build") # generated + depends_on("cxx", type="build") # generated + depends_on("bzip2") depends_on("ghostscript") depends_on("ghostscript-fonts") diff --git a/repos/forked/packages/homer/package.py b/repos/forked/packages/homer/package.py new file mode 100644 index 00000000..d914504d --- /dev/null +++ b/repos/forked/packages/homer/package.py @@ -0,0 +1,53 @@ +# Copyright 2013-2024 Lawrence Livermore National Security, LLC and other +# Spack Project Developers. See the top-level COPYRIGHT file for details. +# +# SPDX-License-Identifier: (Apache-2.0 OR MIT) + +from os import symlink + +from spack.package import * + + +class Homer(Package): + """Software for motif discovery and next generation sequencing analysis""" + + homepage = "http://homer.ucsd.edu/homer" + url = "http://homer.ucsd.edu/homer/data/software/homer.v4.9.1.zip" + + license("GPL-3.0-only") + + version("4.11.1", sha256="80d1cd00616729894017b24a36a2ef81f9cde8bd364e875aead1e0cfb500c82b") + version("4.9.1", sha256="ad1303b0b0400dc8a88dbeae1ee03a94631977b751a3d335326c4febf0eec3a9") + + depends_on("perl", type=("build", "run")) + depends_on("r-biocgenerics", type="run") + depends_on("r-biocparallel", type="run") + depends_on("r-edger", type="run") + depends_on("r-deseq2", type="run") + + variant("data", default=False, description="Download genome data packages") + + def install(self, spec, prefix): + # initialize homer directories + basedir = join_path(prefix.lib, "homer") + mkdirp(basedir) + + # symlink bin so it is included in the PATH + symlink(join_path(basedir, "bin"), prefix.bin) + + # override homer base directory in configure script + filter_file( + r"my \$homeDir = \$1;", + 'my $homeDir = "{0}";'.format(basedir), + "configureHomer.pl" + ) + + install_tree(".", basedir) + + # compile/prepare binaries and perl scripts with the correct paths + perl = which("perl") + perl("configureHomer.pl", "-local", "-keepScript") + + # download extra data if requested + if "+data" in spec: + perl("configureHomer.pl", "-install", "-all", "-keepScript") diff --git a/repos/forked/packages/idl/package.py b/repos/forked/packages/idl/package.py new file mode 100644 index 00000000..9a2195c3 --- /dev/null +++ b/repos/forked/packages/idl/package.py @@ -0,0 +1,51 @@ +# Copyright 2013-2023 Lawrence Livermore National Security, LLC and other +# Spack Project Developers. See the top-level COPYRIGHT file for details. +# +# SPDX-License-Identifier: (Apache-2.0 OR MIT) + +import os + +from spack.package import * + + +class Idl(Package): + """IDL Software: Interactive Data Visulation. + + Note: IDL is a licensed software. You will also need an existing + downloaded tarball of IDL in your current directory or in a + spack mirror in order to install.""" + + homepage = "https://www.harrisgeospatial.com/Software-Technology/IDL" + manual_download = True + + # IDL licensing changed in 8.9, so the old flexlm license & server will no longer work. + version("8.9", sha256="55c10a8ffc48d6f6cb219660dfc3f9b49010310cb9977eb0fd26f20e6e3ea655") + + version("8.7.3", + sha256="295e3d8975bab96a707b8b976c4f17867d801447566723228e3c075643df31ea", + preferred=True) + + maintainers("francinelapid") + + license_required = True + license_files = ['license/o_licenseserverurl.txt'] + + def url_for_version(self, version): + return "file://{0}/idl-{1}.tar.gz".format(os.getcwd(), version) + + def install(self, spec, prefix): + # replace default install dir to self.prefix by editing answer file + os.chmod('silent/idl_answer_file', 0o0664) + filter_file("/usr/local/harris", prefix, "silent/idl_answer_file") + + # execute install script + install_script = Executable("./install.sh") + install_script("-s", input="silent/idl_answer_file") + + def setup_run_environment(self, env): + # set necessary environment variables + env.prepend_path("EXELIS_DIR", self.prefix) + env.prepend_path("IDL_DIR", self.prefix.idl) + + # add bin to path + env.prepend_path("PATH", self.prefix.idl.bin) diff --git a/repos/forked/packages/jdk/package.py b/repos/forked/packages/jdk/package.py new file mode 100644 index 00000000..919698e8 --- /dev/null +++ b/repos/forked/packages/jdk/package.py @@ -0,0 +1,133 @@ +# Copyright 2013-2024 Lawrence Livermore National Security, LLC and other +# Spack Project Developers. See the top-level COPYRIGHT file for details. +# +# SPDX-License-Identifier: (Apache-2.0 OR MIT) + +import os +import re + +from spack.package import * +from spack.util.prefix import Prefix + + +class Jdk(Package): + """The Java Development Kit (JDK) released by Oracle Corporation in the + form of a binary product aimed at Java developers. Includes a complete JRE + plus tools for developing, debugging, and monitoring Java applications.""" + + homepage = "https://www.oracle.com/technetwork/java/javase/downloads/index.html" + + maintainers("justintoo") + + version( + "23.0.1", + sha256="2bda38cd0f31d593b56ee5a607401bc6f245aafe07535b6525572861c2d15d6f", + url="https://download.oracle.com/java/23/latest/jdk-23_linux-x64_bin.tar.gz" + ) + + version( + "21.0.5", + sha256="9c2f7c39e0d5b296ce50e563740694b2ebfe4a620415d1b2b848ba47bebceb47", + url="https://download.oracle.com/java/21/latest/jdk-21_linux-x64_bin.tar.gz", + ) + + provides("java@23", when="@23") + provides("java@21", when="@21") + + requires("target=x86_64:", msg="binaries only availble for x86_64") + # requires("platform=linux") # bug in concretizer + conflicts("platform=windows") + conflicts("platform=darwin") + conflicts("platform=freebsd") + + # FIXME: + # 1. `extends('java')` doesn't work, you need to use `extends('jdk')` + # 2. Packages cannot extend multiple packages, see #987 + # 3. Update `YamlFilesystemView.merge` to allow a Package to completely + # override how it is symlinked into a view prefix. Then, spack activate + # can symlink all *.jar files to `prefix.lib.ext` + extendable = True + + executables = ["^java$"] + + @classmethod + def determine_version(cls, exe): + output = Executable(exe)("-version", output=str, error=str) + + # Make sure this is actually Oracle JDK, not OpenJDK + if "openjdk" in output: + return None + + match = re.search(r"\(build (\S+)\)", output) + return match.group(1).replace("+", "_") if match else None + + @property + def home(self): + """Most of the time, ``JAVA_HOME`` is simply ``spec['java'].prefix``. + However, if the user is using an externally installed JDK, it may be + symlinked. For example, on macOS, the ``java`` executable can be found + in ``/usr/bin``, but ``JAVA_HOME`` is actually + ``/Library/Java/JavaVirtualMachines/jdk-10.0.1.jdk/Contents/Home``. + Users may not know the actual installation directory and add ``/usr`` + to their ``packages.yaml`` unknowingly. Run ``java_home`` if it exists + to determine exactly where it is installed. Specify which version we + are expecting in case multiple Java versions are installed. + See ``man java_home`` for more details.""" + + prefix = self.prefix + java_home = prefix.libexec.java_home + if os.path.exists(java_home): + java_home = Executable(java_home) + version = str(self.version.up_to(2)) + prefix = java_home("--version", version, output=str).strip() + prefix = Prefix(prefix) + + return prefix + + @property + def libs(self): + """Depending on the version number and whether the full JDK or just + the JRE was installed, Java libraries can be in several locations: + + * ``lib/libjvm.so`` + * ``jre/lib/libjvm.dylib`` + + Search recursively to find the correct library location.""" + + return find_libraries(["libjvm"], root=self.home, recursive=True) + + def install(self, spec, prefix): + install_tree(".", prefix) + + def setup_run_environment(self, env): + """Set JAVA_HOME.""" + + env.set("JAVA_HOME", self.home) + + def setup_dependent_build_environment(self, env, dependent_spec): + """Set JAVA_HOME and CLASSPATH. + + CLASSPATH contains the installation prefix for the extension and any + other Java extensions it depends on.""" + + env.set("JAVA_HOME", self.home) + + class_paths = [] + for d in dependent_spec.traverse(deptype=("build", "run", "test")): + if d.package.extends(self.spec): + class_paths.extend(find(d.prefix, "*.jar")) + + classpath = os.pathsep.join(class_paths) + env.set("CLASSPATH", classpath) + + def setup_dependent_run_environment(self, env, dependent_spec): + """Set CLASSPATH. + + CLASSPATH contains the installation prefix for the extension and any + other Java extensions it depends on.""" + # For runtime environment set only the path for + # dependent_spec and prepend it to CLASSPATH + if dependent_spec.package.extends(self.spec): + class_paths = find(dependent_spec.prefix, "*.jar") + classpath = os.pathsep.join(class_paths) + env.prepend_path("CLASSPATH", classpath) diff --git a/repos/hpccf/packages/libbeato/package.py b/repos/forked/packages/libbeato/package.py similarity index 100% rename from repos/hpccf/packages/libbeato/package.py rename to repos/forked/packages/libbeato/package.py diff --git a/repos/forked/packages/libjpeg-turbo/package.py b/repos/forked/packages/libjpeg-turbo/package.py new file mode 100644 index 00000000..51798583 --- /dev/null +++ b/repos/forked/packages/libjpeg-turbo/package.py @@ -0,0 +1,127 @@ +# Copyright 2013-2024 Lawrence Livermore National Security, LLC and other +# Spack Project Developers. See the top-level COPYRIGHT file for details. +# +# SPDX-License-Identifier: (Apache-2.0 OR MIT) + +from spack.package import * + + +class LibjpegTurbo(CMakePackage, AutotoolsPackage): + """libjpeg-turbo is a fork of the original IJG libjpeg which uses SIMD to + accelerate baseline JPEG compression and decompression. + + libjpeg is a library that implements JPEG image encoding, decoding and + transcoding. + """ + + maintainers("AlexanderRichert-NOAA") + + # https://github.com/libjpeg-turbo/libjpeg-turbo/blob/master/BUILDING.md + homepage = "https://libjpeg-turbo.org/" + url = "https://github.com/libjpeg-turbo/libjpeg-turbo/archive/2.0.3.tar.gz" + + license("BSD-3-Clause AND IJG AND Zlib") + + version("3.0.4", sha256="0270f9496ad6d69e743f1e7b9e3e9398f5b4d606b6a47744df4b73df50f62e38") + version("3.0.0", sha256="171dae5d73560bc94006a7c0c3281bd9bfde6a34f7e41e66f930a1a9162bd7df") + version("2.1.5.1", sha256="61846251941e5791005fb7face196eec24541fce04f12570c308557529e92c75") + version("2.1.5", sha256="254f3642b04e309fee775123133c6464181addc150499561020312ec61c1bf7c") + version("2.1.4", sha256="a78b05c0d8427a90eb5b4eb08af25309770c8379592bb0b8a863373128e6143f") + version("2.1.3", sha256="dbda0c685942aa3ea908496592491e5ec8160d2cf1ec9d5fd5470e50768e7859") + version("2.1.2", sha256="e7fdc8a255c45bc8fbd9aa11c1a49c23092fcd7379296aeaeb14d3343a3d1bed") + version("2.1.1", sha256="20e9cd3e5f517950dfb7a300ad344543d88719c254407ffb5ad88d891bf701c4") + version("2.1.0", sha256="d6b7790927d658108dfd3bee2f0c66a2924c51ee7f9dc930f62c452f4a638c52") + version("2.0.6", sha256="005aee2fcdca252cee42271f7f90574dda64ca6505d9f8b86ae61abc2b426371") + version("2.0.5", sha256="b3090cd37b5a8b3e4dbd30a1311b3989a894e5d3c668f14cbc6739d77c9402b7") + version("2.0.4", sha256="7777c3c19762940cff42b3ba4d7cd5c52d1671b39a79532050c85efb99079064") + version("2.0.3", sha256="a69598bf079463b34d45ca7268462a18b6507fdaa62bb1dfd212f02041499b5d") + version("2.0.2", sha256="b45255bd476c19c7c6b198c07c0487e8b8536373b82f2b38346b32b4fa7bb942") + version("1.5.90", sha256="cb948ade92561d8626fd7866a4a7ba3b952f9759ea3dd642927bc687470f60b7") + version( + "1.5.3", + sha256="1a17020f859cb12711175a67eab5c71fc1904e04b587046218e36106e07eabde", + deprecated=True, + ) + version( + "1.5.0", + sha256="232280e1c9c3e6a1de95fe99be2f7f9c0362ee08f3e3e48d50ee83b9a2ed955b", + deprecated=True, + ) + version( + "1.3.1", + sha256="5008aeeac303ea9159a0ec3ccff295434f4e63b05aed4a684c9964d497304524", + deprecated=True, + ) + + provides("jpeg") + + build_system( + conditional("autotools", when="@:1.5.3"), + conditional("cmake", when="@1.5.90:"), + default="cmake", + ) + + variant( + "libs", + default=("shared", "static"), + values=("shared", "static"), + multi=True, + description="Build shared libs, static libs, or both", + ) + variant("jpeg8", default=False, description="Emulate libjpeg v8 API/ABI") + variant( + "pic", default=True, description="Enable position independent code", when="libs=static" + ) + variant( + "partial_decoder", + default=False, + description="add partial_decode_scale functionality required for rocAL", + ) + + patch( + "https://github.com/libjpeg-turbo/libjpeg-turbo/commit/09c71da06a6346dca132db66f26f959f7e4dd5ad.patch?full_index=1", + sha256="4d5bdfb5de5b04399144254ea383f5357ab7beb830b398aeb35b65f21dd6b4b0", + when="@2.0.6 +partial_decoder", + ) + patch( + "https://github.com/libjpeg-turbo/libjpeg-turbo/commit/640d7ee1917fcd3b6a5271aa6cf4576bccc7c5fb.patch?full_index=1", + sha256="dc1ec567c2356b652100ecdc28713bbf25f544e46f7d2947f31a2395c362cc48", + when="@2.0.6 +partial_decoder", + ) + + # Can use either of these. But in the current version of the package + # only nasm is used. In order to use yasm an environmental variable + # NASM must be set. + # TODO: Implement the selection between two supported assemblers. + # depends_on('yasm', type='build') + depends_on("nasm", type="build") + with when("build_system=autotools"): + depends_on("autoconf", type="build") + depends_on("automake", type="build") + depends_on("libtool", type="build") + + with when("build_system=cmake"): + depends_on("cmake", type="build", when="@1.5.90:") + + @property + def libs(self): + shared = self.spec.satisfies("libs=shared") + return find_libraries("libjpeg*", root=self.prefix, shared=shared, recursive=True) + + +class CMakeBuilder(spack.build_systems.cmake.CMakeBuilder): + def cmake_args(self): + args = [ + self.define("ENABLE_SHARED", self.spec.satisfies("libs=shared")), + self.define("ENABLE_STATIC", self.spec.satisfies("libs=static")), + self.define_from_variant("WITH_JPEG8", "jpeg8"), + self.define_from_variant("CMAKE_POSITION_INDEPENDENT_CODE", "pic"), + ] + + return args + + @run_after("install") + def darwin_fix(self): + # The shared library is not installed correctly on Darwin; fix this + if self.spec.satisfies("platform=darwin") and ("+shared" in self.spec): + fix_darwin_install_name(self.prefix.lib) diff --git a/repos/forked/packages/libseccomp/package.py b/repos/forked/packages/libseccomp/package.py new file mode 100644 index 00000000..0b5b7754 --- /dev/null +++ b/repos/forked/packages/libseccomp/package.py @@ -0,0 +1,33 @@ +# Copyright 2013-2024 Lawrence Livermore National Security, LLC and other +# Spack Project Developers. See the top-level COPYRIGHT file for details. +# +# SPDX-License-Identifier: (Apache-2.0 OR MIT) + +from spack.package import * + +# 2023-10-26: camw: TODO: move to forked + +class Libseccomp(AutotoolsPackage): + """The main libseccomp repository""" + + homepage = "https://github.com/seccomp/libseccomp" + url = "https://github.com/seccomp/libseccomp/releases/download/v2.5.3/libseccomp-2.5.3.tar.gz" + + license("LGPL-2.1-or-later") + + version("2.5.4", sha256="d82902400405cf0068574ef3dc1fe5f5926207543ba1ae6f8e7a1576351dcbdb") + version("2.5.3", sha256="59065c8733364725e9721ba48c3a99bbc52af921daf48df4b1e012fbc7b10a76") + version("2.3.3", sha256="7fc28f4294cc72e61c529bedf97e705c3acf9c479a8f1a3028d4cd2ca9f3b155") + + variant("python", default=True, description="Build Python bindings") + + depends_on("gperf", type="build", when="@2.5:") + depends_on("py-cython", type="build", when="+python") + + build_directory = "spack-build" + + def configure_args(self): + args = [] + if "+python" in self.spec: + args.append("--enable-python") + return args diff --git a/repos/forked/packages/libxml2/package.py b/repos/forked/packages/libxml2/package.py index 6a779833..ae04cc11 100644 --- a/repos/forked/packages/libxml2/package.py +++ b/repos/forked/packages/libxml2/package.py @@ -1,9 +1,10 @@ -# Copyright 2013-2023 Lawrence Livermore National Security, LLC and other +# Copyright 2013-2024 Lawrence Livermore National Security, LLC and other # Spack Project Developers. See the top-level COPYRIGHT file for details. # # SPDX-License-Identifier: (Apache-2.0 OR MIT) import os +import spack.builder from spack.build_systems import autotools, nmake from spack.package import * @@ -17,29 +18,60 @@ class Libxml2(AutotoolsPackage, NMakePackage): url = "https://download.gnome.org/sources/libxml2/2.9/libxml2-2.9.13.tar.xz" list_url = "https://gitlab.gnome.org/GNOME/libxml2/-/releases" + maintainers("AlexanderRichert-NOAA") + def url_for_version(self, version): if version >= Version("2.9.13"): url = "https://download.gnome.org/sources/libxml2/{0}/libxml2-{1}.tar.xz" return url.format(version.up_to(2), version) return "http://xmlsoft.org/sources/libxml2-{0}.tar.gz".format(version) - version("2.10.3", sha256="5d2cc3d78bec3dbe212a9d7fa629ada25a7da928af432c93060ff5c17ee28a9c") - version("2.10.2", sha256="d240abe6da9c65cb1900dd9bf3a3501ccf88b3c2a1cb98317d03f272dda5b265") - version("2.10.1", sha256="21a9e13cc7c4717a6c36268d0924f92c3f67a1ece6b7ff9d588958a6db9fb9d8") - version("2.9.14", sha256="60d74a257d1ccec0475e749cba2f21559e48139efba6ff28224357c7c798dfee") - version("2.9.13", sha256="276130602d12fe484ecc03447ee5e759d0465558fbc9d6bd144e3745306ebf0e") - version("2.9.12", sha256="c8d6681e38c56f172892c85ddc0852e1fd4b53b4209e7f4ebf17f7e2eae71d92") - version("2.9.11", sha256="886f696d5d5b45d780b2880645edf9e0c62a4fd6841b853e824ada4e02b4d331") - version("2.9.10", sha256="aafee193ffb8fe0c82d4afef6ef91972cbaf5feea100edc2f262750611b4be1f") - version("2.9.9", sha256="94fb70890143e3c6549f265cee93ec064c80a84c42ad0f23e85ee1fd6540a871") - version("2.9.8", sha256="0b74e51595654f958148759cfef0993114ddccccbb6f31aee018f3558e8e2732") - version("2.9.4", sha256="ffb911191e509b966deb55de705387f14156e1a56b21824357cdf0053233633c") - version("2.9.2", sha256="5178c30b151d044aefb1b08bf54c3003a0ac55c59c866763997529d60770d5bc") - version("2.7.8", sha256="cda23bc9ebd26474ca8f3d67e7d1c4a1f1e7106364b690d822e009fdc3c417ec") + license("MIT") + + version("2.13.4", sha256="65d042e1c8010243e617efb02afda20b85c2160acdbfbcb5b26b80cec6515650") + version("2.12.9", sha256="59912db536ab56a3996489ea0299768c7bcffe57169f0235e7f962a91f483590") + version("2.11.9", sha256="780157a1efdb57188ec474dca87acaee67a3a839c2525b2214d318228451809f") + with default_args(deprecated=True): + # https://nvd.nist.gov/vuln/detail/CVE-2024-25062 + version( + "2.10.3", sha256="5d2cc3d78bec3dbe212a9d7fa629ada25a7da928af432c93060ff5c17ee28a9c" + ) + version( + "2.10.2", sha256="d240abe6da9c65cb1900dd9bf3a3501ccf88b3c2a1cb98317d03f272dda5b265" + ) + version( + "2.10.1", sha256="21a9e13cc7c4717a6c36268d0924f92c3f67a1ece6b7ff9d588958a6db9fb9d8" + ) + version( + "2.9.14", sha256="60d74a257d1ccec0475e749cba2f21559e48139efba6ff28224357c7c798dfee" + ) + version( + "2.9.13", sha256="276130602d12fe484ecc03447ee5e759d0465558fbc9d6bd144e3745306ebf0e" + ) + version( + "2.9.12", sha256="c8d6681e38c56f172892c85ddc0852e1fd4b53b4209e7f4ebf17f7e2eae71d92" + ) + version( + "2.9.11", sha256="886f696d5d5b45d780b2880645edf9e0c62a4fd6841b853e824ada4e02b4d331" + ) + version( + "2.9.10", sha256="aafee193ffb8fe0c82d4afef6ef91972cbaf5feea100edc2f262750611b4be1f" + ) + version("2.9.9", sha256="94fb70890143e3c6549f265cee93ec064c80a84c42ad0f23e85ee1fd6540a871") + version("2.9.8", sha256="0b74e51595654f958148759cfef0993114ddccccbb6f31aee018f3558e8e2732") + version("2.9.4", sha256="ffb911191e509b966deb55de705387f14156e1a56b21824357cdf0053233633c") + version("2.9.2", sha256="5178c30b151d044aefb1b08bf54c3003a0ac55c59c866763997529d60770d5bc") + version("2.7.8", sha256="cda23bc9ebd26474ca8f3d67e7d1c4a1f1e7106364b690d822e009fdc3c417ec") + + depends_on("c", type="build") # generated variant("python", default=False, description="Enable Python support") + variant("shared", default=True, description="Build shared library") + variant("pic", default=True, description="Enable position-independent code (PIC)") variant("ftp", default=True, description="Enable FTP support") + conflicts("~pic+shared") + depends_on("pkgconfig@0.9.0:", type="build", when="build_system=autotools") # conditional on non Windows, but rather than specify for each platform # specify for non Windows builder, which has equivalent effect @@ -69,12 +101,18 @@ def url_for_version(self, version): # Use NAN/INFINITY if available to avoid SIGFPE # See https://gitlab.gnome.org/GNOME/libxml2/-/merge_requests/186 patch( - "https://gitlab.gnome.org/GNOME/libxml2/-/commit/c9925454fd384a17c8c03d358c6778a552e9287b.patch", - sha256="3e06d42596b105839648070a5921157fe284b932289ffdbfa304ddc3457e5637", + "https://gitlab.gnome.org/GNOME/libxml2/-/commit/c9925454fd384a17c8c03d358c6778a552e9287b.diff", + sha256="5dc43fed02b443d2563a502a52caafe39477c06fc30b70f786d5ed3eb5aea88d", when="@2.9.11:2.9.14", ) build_system(conditional("nmake", when="platform=windows"), "autotools", default="autotools") + def flag_handler(self, name, flags): + if name == "cflags" and self.spec.satisfies("+pic"): + flags.append(self.compiler.cc_pic_flag) + flags.append("-DPIC") + return (flags, None, None) + @property def command(self): return Executable(self.prefix.bin.join("xml2-config")) @@ -186,7 +224,7 @@ def test_xmllint(self): xmllint("--dtdvalid", dtd_path, data_dir.join("info.xml")) -class RunAfter: +class BaseBuilder(metaclass=spack.builder.PhaseCallbacksMeta): @run_after("install") @on_package_attributes(run_tests=True) def import_module_test(self): @@ -195,7 +233,7 @@ def import_module_test(self): python("-c", "import libxml2") -class AutotoolsBuilder(autotools.AutotoolsBuilder, RunAfter): +class AutotoolsBuilder(BaseBuilder, autotools.AutotoolsBuilder): def configure_args(self): spec = self.spec @@ -214,13 +252,17 @@ def configure_args(self): else: args.append("--without-python") + args.extend(self.enable_or_disable("shared")) + # PIC setting is taken care of above by self.flag_handler() + args.append("--without-pic") + if "+ftp" in spec: args.append("--with-ftp") return args -class NMakeBuilder(nmake.NMakeBuilder, RunAfter): +class NMakeBuilder(BaseBuilder, nmake.NMakeBuilder): phases = ("configure", "build", "install") @property diff --git a/repos/forked/packages/matlab/package.py b/repos/forked/packages/matlab/package.py new file mode 100644 index 00000000..3760fb1a --- /dev/null +++ b/repos/forked/packages/matlab/package.py @@ -0,0 +1,88 @@ +# Copyright 2013-2023 Lawrence Livermore National Security, LLC and other +# Spack Project Developers. See the top-level COPYRIGHT file for details. +# +# SPDX-License-Identifier: (Apache-2.0 OR MIT) + +import os +import subprocess + +from spack.package import * + + +class Matlab(Package): + """MATLAB (MATrix LABoratory) is a multi-paradigm numerical computing + environment and fourth-generation programming language. A proprietary + programming language developed by MathWorks, MATLAB allows matrix + manipulations, plotting of functions and data, implementation of + algorithms, creation of user interfaces, and interfacing with programs + written in other languages, including C, C++, C#, Java, Fortran and Python. + + Note: MATLAB is licensed software. You will need to create an account on + the MathWorks homepage and download MATLAB yourself. Spack will search your + current directory for the download file. Alternatively, add this file to a + mirror so that Spack can find it. For instructions on how to set up a + mirror, see https://spack.readthedocs.io/en/latest/mirrors.html""" + + homepage = "https://www.mathworks.com/products/matlab.html" + manual_download = True + + version("R2019b", sha256="d60787263afb810283b7820c4c8d9cb1f854c7cb80f47e136643fd95bf5fbd59") + version("R2018b", sha256="8cfcddd3878d3a69371c4e838773bcabf12aaf0362cc2e1ae7e8820845635cac") + version("R2018a", sha256="d34401359d089b3dc9591f01ceccecfebcce4bb4b47141f54f5813872c6ce3cf") + version("R2016b", sha256="a3121057b1905b132e5741de9f7f8350378592d84c5525faf3ec571620a336f2") + version("R2015b", sha256="dead402960f4ab8f22debe8b28a402069166cd967d9dcca443f6c2940b00a783") + + variant( + "mode", + default="interactive", + values=("interactive", "silent", "automated"), + description="Installation mode (interactive, silent, or automated)", + ) + + variant( + "key", default="", description="The file installation key to use" + ) + + # Licensing + license_required = True + license_comment = "#" + license_files = ["licenses/license.dat"] + license_vars = ["LM_LICENSE_FILE"] + license_url = "https://www.mathworks.com/help/install/index.html" + + extendable = True + + def url_for_version(self, version): + return "file://{0}/matlab_{1}_glnxa64.zip".format(os.getcwd(), version) + + def install(self, spec, prefix): + config = { + "destinationFolder": prefix, + "mode": spec.variants["mode"].value, + "fileInstallationKey": spec.variants["key"].value, + "licensePath": self.global_license_file, + "agreeToLicense": "yes", + } + + # Store values requested by the installer in a file + with open("spack_installer_input.txt", "w") as input_file: + for key in config: + input_file.write("{0}={1}\n".format(key, config[key])) + + # Run silent installation script + # Full path required + input_file = join_path(self.stage.source_path, "spack_installer_input.txt") + subprocess.call(["./install", "-inputFile", input_file]) + + @run_after("install") + def post_install(self): + # Fix broken link + with working_dir(self.spec.prefix.bin.glnxa64): + os.unlink("libSDL2.so") + os.symlink("libSDL2-2.0.so.0.2.1", "libSDL2.so") + + # Fix to random exceptions when changing display settings + # https://www.mathworks.com/matlabcentral/answers/373897-external-monitor-throws-java-exception + java_opts = os.path.join(self.spec.prefix.bin.glnxa64, "java.opts") + with open(java_opts, "w") as out: + out.write("-Dsun.java2d.xrender=false\n") diff --git a/repos/forked/packages/megahit/amd.patch b/repos/forked/packages/megahit/amd.patch new file mode 100644 index 00000000..6f99f616 --- /dev/null +++ b/repos/forked/packages/megahit/amd.patch @@ -0,0 +1,20 @@ +Common subdirectories: spack-src/cub and spack-src.mod/cub +Common subdirectories: spack-src/example and spack-src.mod/example +Common subdirectories: spack-src/lib_idba and spack-src.mod/lib_idba +diff -u spack-src/Makefile spack-src.mod/Makefile +--- spack-src/Makefile 2018-11-02 10:14:27.000000000 +0900 ++++ spack-src.mod/Makefile 2019-07-09 15:53:34.685959951 +0900 +@@ -48,6 +48,12 @@ + CPU_ARCH_SUFFIX = ppc64 + CPU_ARCH = -mpowerpc64 + endif ++IS_AARCH64 := $(shell echo `$(CXX) -v 2>&1 | grep aarch64 | wc -l`) ++ifneq (0, $(IS_AARCH64)) ++ CPU_ARCH_SUFFIX = aarch64 ++ CPU_ARCH = ++ disablempopcnt=1 ++endif + + #------------------------------------------------------------------------------- + # Includes +Common subdirectories: spack-src/tools and spack-src.mod/tools diff --git a/repos/forked/packages/megahit/package.py b/repos/forked/packages/megahit/package.py new file mode 100644 index 00000000..f4a0ab05 --- /dev/null +++ b/repos/forked/packages/megahit/package.py @@ -0,0 +1,37 @@ +# Copyright 2013-2024 Lawrence Livermore National Security, LLC and other +# Spack Project Developers. See the top-level COPYRIGHT file for details. +# +# SPDX-License-Identifier: (Apache-2.0 OR MIT) + +from spack.package import * + + +class Megahit(CMakePackage): + """MEGAHIT: An ultra-fast single-node solution for + large and complex metagenomics assembly via succinct de Bruijn graph""" + + homepage = "https://github.com/voutcn/megahit" + url = "https://github.com/voutcn/megahit/archive/v1.1.3.tar.gz" + + license("GPL-3.0-only") + + version("1.2.9", sha256="09026eb07cc4e2d24f58b0a13f7a826ae8bb73da735a47cb1cbe6e4693118852") + + depends_on("c", type="build") # generated + depends_on("cxx", type="build") # generated + + depends_on("python @3:") + depends_on("zlib-api") + + patch("python3.patch") + patch("amd.patch", when="target=aarch64:") + + def cmake_args(self): + return ["-DCMAKE_BUILD_TYPE=Release"] + + #def install(self, spec, prefix): + # mkdirp(prefix.bin) + ## install("megahit", prefix.bin) + # install("megahit_asm_core", prefix.bin) + # install("megahit_sdbg_build", prefix.bin) + # install("megahit_toolkit", prefix.bin) diff --git a/repos/forked/packages/megahit/python3.patch b/repos/forked/packages/megahit/python3.patch new file mode 100644 index 00000000..30290350 --- /dev/null +++ b/repos/forked/packages/megahit/python3.patch @@ -0,0 +1,73 @@ +diff --git a/README.md b/README.md +index aa812ea..c6e2c0f 100644 +--- a/README.md ++++ b/README.md +@@ -16,6 +16,11 @@ Installation + conda install -c bioconda megahit + ``` + ++### Guix ++```sh ++guix install megahit ++``` ++ + ### Pre-built binaries for x86_64 Linux + + ```sh +@@ -73,6 +78,11 @@ To see the full manual, run `megahit` without parameters or with `-h`. + + Also, our [wiki](https://github.com/voutcn/megahit/wiki) may be helpful. + ++### Examples ++ ++There is an example of a real assembly on this [wiki page](https://github.com/voutcn/megahit/wiki/An-example-of-real-assembly) ++and its corresponding [interactive Jupyter notebook](https://biotutorials.org/megahit). Contributed by Noah Lebovic (@lebovic). ++ + Publications + ------------ + +diff --git a/src/megahit b/src/megahit +index 8ad261b..b070425 100755 +--- a/src/megahit ++++ b/src/megahit +@@ -1,4 +1,4 @@ +-#!/usr/bin/env python ++#!/usr/bin/env python3 + + # ------------------------------------------------------------------------- + # MEGAHIT +@@ -19,7 +19,6 @@ + # ------------------------------------------------------------------------- + + +-from __future__ import print_function + + import getopt + import json +@@ -375,7 +374,7 @@ def parse_option(argv): + elif option == '--max-tip-len': + opt.max_tip_len = int(value) + elif option == '--merge-level': +- (opt.merge_len, opt.merge_similar) = map(float, value.split(',')) ++ (opt.merge_len, opt.merge_similar) = list(map(float, value.split(','))) + opt.merge_len = int(opt.merge_len) + elif option == '--prune-level': + opt.prune_level = int(value) +@@ -553,12 +552,12 @@ def check_and_correct_option(): + raise Usage('--low-local-ratio should be in (0, 0.5].') + if opt.cleaning_rounds <= 0: + raise Usage('--cleaning-rounds must be >= 1') +- if opt.num_cpu_threads > multiprocessing.cpu_count(): +- logger.warning('Maximum number of available CPU thread is %d.' % multiprocessing.cpu_count()) +- logger.warning('Number of thread is reset to the %d.' % multiprocessing.cpu_count()) +- opt.num_cpu_threads = multiprocessing.cpu_count() ++ if opt.num_cpu_threads > len(os.sched_getaffinity(0)): ++ logger.warning('Maximum number of available CPU thread is %d.' % len(os.sched_getaffinity(0))) ++ logger.warning('Number of thread is reset to the %d.' % len(os.sched_getaffinity(0))) ++ opt.num_cpu_threads = len(os.sched_getaffinity(0)) + if opt.num_cpu_threads == 0: +- opt.num_cpu_threads = multiprocessing.cpu_count() ++ opt.num_cpu_threads = len(os.sched_getaffinity(0)) + if opt.prune_depth < 0 and opt.prune_level < 3: + opt.prune_depth = opt.min_count + if opt.bubble_level < 0: diff --git a/repos/forked/packages/node-js/fix-old-glibc-random-headers.patch b/repos/forked/packages/node-js/fix-old-glibc-random-headers.patch new file mode 100644 index 00000000..9629a6bb --- /dev/null +++ b/repos/forked/packages/node-js/fix-old-glibc-random-headers.patch @@ -0,0 +1,22 @@ +diff --git a/deps/cares/config/linux/ares_config.h b/deps/cares/config/linux/ares_config.h +index 3cb135a..88934ad 100644 +--- a/deps/cares/config/linux/ares_config.h ++++ b/deps/cares/config/linux/ares_config.h +@@ -116,7 +116,7 @@ + #define HAVE_GETNAMEINFO 1 + + /* Define to 1 if you have `getrandom` */ +-#define HAVE_GETRANDOM 1 ++#undef HAVE_GETRANDOM + + /* Define to 1 if you have `getservbyport_r` */ + #define HAVE_GETSERVBYPORT_R 1 +@@ -329,7 +329,7 @@ + #define HAVE_SYS_PARAM_H 1 + + /* Define to 1 if you have the header file. */ +-#define HAVE_SYS_RANDOM_H 1 ++#undef HAVE_SYS_RANDOM_H + + /* Define to 1 if you have the header file. */ + #define HAVE_SYS_SELECT_H 1 diff --git a/repos/forked/packages/node-js/package.py b/repos/forked/packages/node-js/package.py new file mode 100644 index 00000000..512eaeb0 --- /dev/null +++ b/repos/forked/packages/node-js/package.py @@ -0,0 +1,178 @@ +# Copyright 2013-2024 Lawrence Livermore National Security, LLC and other +# Spack Project Developers. See the top-level COPYRIGHT file for details. +# +# SPDX-License-Identifier: (Apache-2.0 OR MIT) + +import subprocess +import sys + +from spack.package import * + + +class NodeJs(Package): + """Node.js is an open-source, cross-platform JavaScript runtime environment.""" + + homepage = "https://nodejs.org/" + url = "https://nodejs.org/dist/v13.5.0/node-v13.5.0.tar.gz" + list_url = "https://nodejs.org/dist/" + list_depth = 1 + + maintainers("cosmicexplorer") + + license("Unicode-TOU") + + # Current (latest features) - odd major number + version("21.7.3", sha256="ce1f61347671ef219d9c2925313d629d3fef98fc8d7f5ef38dd4656f7d0f58e7") + version("19.2.0", sha256="aac9d1a366fb57d68f4639f9204d1de5d6387656959a97ed929a5ba9e62c033a") + version("17.9.1", sha256="1102f5e0aafaab8014d19c6c57142caf2ba3ef69d88d7a7f0f82798051796027") + version("15.3.0", sha256="cadfa384a5f14591b84ce07a1afe529f28deb0d43366fb0ae4e78afba96bfaf2") + version("13.8.0", sha256="815b5e1b18114f35da89e4d98febeaba97555d51ef593bd5175db2b05f2e8be6") + version("13.5.0", sha256="4b8078d896a7550d7ed399c1b4ac9043e9f883be404d9b337185c8d8479f2db8") + + # LTS (recommended for most users) - even major number + version( + "22.4.0", + sha256="b62cd83c9a57a11349883f89b1727a16e66c02eb6255a4bf32714ff5d93165f5", + preferred=True, + ) + version("22.3.0", sha256="6326484853093ab6b8f361a267445f4a5bff469042cda11a3585497b13136b55") + version("20.15.1", sha256="da228a0c27922f02001d9a781793696432096ab2da658eb77d7fc21693f4c5cb") + version("20.15.0", sha256="01e2c034467a324a33e778c81f2808dff13d289eaa9307d3e9b06c171e4d932d") + version("18.12.1", sha256="ba8174dda00d5b90943f37c6a180a1d37c861d91e04a4cb38dc1c0c74981c186") + version("16.18.1", sha256="3d24c9c3a953afee43edc44569045eda56cd45cd58b0539922d17da62736189c") + version("14.21.1", sha256="76ba961536dc11e4dfd9b198c61ff3399e655eca959ae4b66d926f29bfcce9d3") + version("14.16.1", sha256="5f5080427abddde7f22fd2ba77cd2b8a1f86253277a1eec54bc98a202728ce80") + version("14.15.1", sha256="a1120472bf55aea745287693a6651e16973e1008c9d6107df350126adf9716fe") + version("14.13.0", sha256="8538b2e76aa06ee0e6eb1c118426c3c5ca53b2e49d66591738eacf76e89edd61") + version("14.10.0", sha256="7e0d7a1aa23697415e3588a1ca4f1c47496e6c88b9cf37c66be90353d3e4ac3e") + + depends_on("c", type="build") # generated + depends_on("cxx", type="build") # generated + + variant("debug", default=False, description="Include debugger support") + variant("doc", default=False, description="Compile with documentation") + variant( + "icu4c", + default=False, + description="Build with support for all locales instead of just English", + ) + variant( + "openssl", + default=True, + description="Build with Spacks OpenSSL instead of the bundled version", + ) + variant( + "zlib", default=True, description="Build with Spacks zlib instead of the bundled version" + ) + + # https://github.com/nodejs/node/blob/master/BUILDING.md#unix-and-macos + depends_on("gmake@3.81:", type="build") + depends_on("python@3.6:3.11", when="@19.1:", type="build") + depends_on("python@3.6:3.10", when="@16.11:19.0", type="build") + depends_on("python@3.6:3.9", when="@16.0:16.10", type="build") + depends_on("python@2.7,3.5:3.8", when="@15", type="build") + depends_on("python@2.7,3.6:3.10", when="@14.18.2:14", type="build") + depends_on("python@2.7,3.5:3.8", when="@13.1:14.18.1", type="build") + depends_on("libtool", type="build", when=sys.platform != "darwin") + depends_on("pkgconfig", type="build") + # depends_on('bash-completion', when="+bash-completion") + depends_on("icu4c", when="+icu4c") + depends_on("openssl@1.1:", when="+openssl") + depends_on("zlib-api", when="+zlib") + + phases = ["configure", "build", "install"] + + # https://github.com/spack/spack/issues/19310 + conflicts( + "%gcc@:4.8", + msg="fails to build with gcc 4.8 (see https://github.com/spack/spack/issues/19310)", + ) + + conflicts( + "%gcc@14:", when="@:19", msg="fails to build with gcc 14+ due to implicit conversions" + ) + + # See https://github.com/nodejs/node/issues/52223 + patch("fix-old-glibc-random-headers.patch", when="^glibc@:2.24") + + def setup_build_environment(self, env): + # Force use of experimental Python 3 support + env.set("PYTHON", self.spec["python"].command.path) + env.set("NODE_GYP_FORCE_PYTHON", self.spec["python"].command.path) + + def configure_args(self): + # On macOS, the system libtool must be used + # So, we ensure that this is the case by... + if sys.platform == "darwin": + # Possible output formats: + # + # /usr/bin/libtool + process_pipe = subprocess.Popen(["which", "libtool"], stdout=subprocess.PIPE) + result_which = process_pipe.communicate()[0].strip() + + # Possible output formats: + # + # /usr/bin/libtool + # libtool: /usr/bin/libtool + # libtool: /usr/bin/libtool /Applications/Xcode.app/.../share/man/man1/libtool.1 + process_pipe = subprocess.Popen(["whereis", "libtool"], stdout=subprocess.PIPE) + result_whereis_list = process_pipe.communicate()[0].strip().split() + if len(result_whereis_list) == 1: + result_whereis = result_whereis_list[0] + else: + result_whereis = result_whereis_list[1] + + assert result_which == result_whereis, ( + "On macOS the system libtool must be used. Please (temporarily) remove " + "\n or its link to libtool from PATH" + ) + + args = [ + "--prefix={0}".format(self.prefix), + # Note: npm is updated more regularly than node.js, so we build + # the package instead of using the bundled version + "--without-npm", + ] + + if "+debug" in self.spec: + args.append("--debug") + + if "+openssl" in self.spec: + args.extend( + [ + "--shared-openssl", + "--shared-openssl-includes={0}".format(self.spec["openssl"].prefix.include), + "--shared-openssl-libpath={0}".format(self.spec["openssl"].prefix.lib), + ] + ) + + if "+zlib" in self.spec: + args.extend( + [ + "--shared-zlib", + "--shared-zlib-includes={0}".format(self.spec["zlib-api"].prefix.include), + "--shared-zlib-libpath={0}".format(self.spec["zlib-api"].prefix.lib), + ] + ) + + if "+icu4c" in self.spec: + args.append("--with-intl=full-icu") + + return args + + def configure(self, spec, prefix): + python("configure.py", *self.configure_args()) + + def build(self, spec, prefix): + make() + if "+doc" in spec: + make("doc") + + @run_after("build") + @on_package_attributes(run_tests=True) + def build_test(self): + make("test") + make("test-addons") + + def install(self, spec, prefix): + make("install") diff --git a/repos/forked/packages/npm/package.py b/repos/forked/packages/npm/package.py new file mode 100644 index 00000000..90f2a3e4 --- /dev/null +++ b/repos/forked/packages/npm/package.py @@ -0,0 +1,107 @@ +# Copyright 2013-2024 Lawrence Livermore National Security, LLC and other +# Spack Project Developers. See the top-level COPYRIGHT file for details. +# +# SPDX-License-Identifier: (Apache-2.0 OR MIT) + +import os +import shutil + +from spack.package import * + + +class Npm(Package): + """npm: A package manager for javascript.""" + + homepage = "https://github.com/npm/cli" + url = "https://registry.npmjs.org/npm/-/npm-9.3.1.tgz" + git = "https://github.com/npm/cli.git" + + license("Artistic-2.0") + + version("10.9.0", sha256="c12def16fe3efdc80b1e652d60903d807ac4b78b9e7c3e76f633f4b13a32897c") + version("9.8.1", sha256="0f3e2ae9569291274114b765d8d79b644f63fa162497daee54446d9a600e0f79") + version("9.3.1", sha256="41caa26a340b0562bc5429d28792049c980fe3e872b42b82cad94e8f70e37f40") + version("8.19.3", sha256="634bf4e0dc87be771ebf48a058629960e979a209c20a51ebdbc4897ca6a25260") + version("7.24.2", sha256="5b9eeea011f8bc3b76e55cc33339e87213800677f37e0756ad13ef0e9eaccd64") + version("6.14.18", sha256="c9b15f277e2a0b1b57e05bad04504296a27024555d56c2aa967f862e957ad2ed") + + depends_on("node-js", type=("build", "run")) + depends_on("libvips", when="@:7") + + # npm 6.13.4 ships with node-gyp 5.0.5, which contains several Python 3 + # compatibility issues on macOS. Manually update to node-gyp 6.0.1 for + # full Python 3 support. + resource( + name="node-gyp", + destination="node-gyp", + url="https://registry.npmjs.org/node-gyp/-/node-gyp-6.0.1.tgz", + sha256="bbc0e137e17a63676efc97a0e3b1fcf101498a1c2c01c3341cd9491f248711b8", + when="@6", + ) + resource( + name="env-paths", + destination="env-paths", + url="https://registry.npmjs.org/env-paths/-/env-paths-2.2.0.tgz", + sha256="168b394fbca60ea81dc84b1824466df96246b9eb4d671c2541f55f408a264b4c", + when="@6", + ) + + @when("@6") + def patch(self): + shutil.rmtree("node_modules/node-gyp") + install_tree("node-gyp/package", "node_modules/node-gyp") + filter_file(r'"node-gyp": "\^5\..*"', '"node-gyp": "^6.0.1"', "package.json") + install_tree("env-paths/package", "node_modules/env-paths") + + @when("@:8") + def install(self, spec, prefix): + # `npm install .` doesn't work properly out of the box on npm up to 8, so we do + # what it would do manually. The only thing we seem to miss is docs. In + # particular, it will end up symlinking into the stage, which spack then + # deletes. You can avoid that with `npm install $(npm pack .)`, but `npm pack` + # also seems to fail when run from the tarball on macos. So we just copy manually. + to_install = [ + "LICENSE", + "README.md", + "bin", + "docs", + "index.js", + "lib", + "node_modules", + "package.json", + ] + + mkdirp(prefix.bin) + mkdirp(prefix.lib.node_modules.npm) + + # manually install all the files above (if they exist for a particular node version) + for filename in to_install: + if os.path.exists(filename): + install_fn = install if os.path.isfile(filename) else install_tree + install_fn(filename, os.path.join(prefix.lib.node_modules.npm, filename)) + + # set up symlinks in bin + node_modules_bin = os.path.relpath(prefix.lib.node_modules.npm.bin, prefix.bin) + symlink(os.path.join(node_modules_bin, "npm-cli.js"), prefix.bin.npm) + symlink(os.path.join(node_modules_bin, "npx-cli.js"), prefix.bin.npx) + + @when("@9:") + def install(self, spec, prefix): + # in npm 9, `npm install .` finally works within the repo, so we can just call it. + node = which("node", required=True) + npm_flags = ["bin/npm-cli.js", "install", "-ddd", "--global", f"--prefix={prefix}"] + with when("@9.8.1:"): + # Counterintuitively, this means COPY the node_modules from . instead of linking + # See https://github.com/npm/cli/issues/4031 + npm_flags.append("--install-links") + node(*npm_flags, ".") + + def setup_dependent_build_environment(self, env, dependent_spec): + npm_config_cache_dir = "%s/npm-cache" % dependent_spec.prefix + if not os.path.isdir(npm_config_cache_dir): + mkdirp(npm_config_cache_dir) + env.set("npm_config_cache", npm_config_cache_dir) + + def setup_dependent_run_environment(self, env, dependent_spec): + npm_config_cache_dir = "%s/npm-cache" % dependent_spec.prefix + env.set("npm_config_cache", npm_config_cache_dir) diff --git a/repos/hpccf/packages/ont-guppy/package.py b/repos/forked/packages/ont-guppy/package.py similarity index 100% rename from repos/hpccf/packages/ont-guppy/package.py rename to repos/forked/packages/ont-guppy/package.py diff --git a/repos/forked/packages/openblas/0001-use-usr-bin-env-perl.patch b/repos/forked/packages/openblas/0001-use-usr-bin-env-perl.patch new file mode 100644 index 00000000..28de1277 --- /dev/null +++ b/repos/forked/packages/openblas/0001-use-usr-bin-env-perl.patch @@ -0,0 +1,55 @@ +From ec6b354c32e939605331e2081590815a86413ca8 Mon Sep 17 00:00:00 2001 +From: Harmen Stoppels +Date: Wed, 24 Feb 2021 14:07:20 +0100 +Subject: [PATCH] use /usr/bin/env perl + +--- + c_check | 2 +- + exports/gensymbol | 2 +- + f_check | 2 +- + interface/create | 2 +- + 4 files changed, 4 insertions(+), 4 deletions(-) + +diff --git a/c_check b/c_check +index 9c8b1aba..e24943a2 100644 +--- a/c_check ++++ b/c_check +@@ -1,4 +1,4 @@ +-#!/usr/bin/perl ++#!/usr/bin/env perl + + #use File::Basename; + # use File::Temp qw(tempfile); +diff --git a/exports/gensymbol b/exports/gensymbol +index 857a17a9..e7210a03 100644 +--- a/exports/gensymbol ++++ b/exports/gensymbol +@@ -1,4 +1,4 @@ +-#!/usr/bin/perl ++#!/usr/bin/env perl + + # Changelog + # 2017/09/03 staticfloat +diff --git a/f_check b/f_check +index ffe9c6b4..d044f254 100644 +--- a/f_check ++++ b/f_check +@@ -1,4 +1,4 @@ +-#!/usr/bin/perl ++#!/usr/bin/env perl + + $hostos = `uname -s | sed -e s/\-.*//`; chop($hostos); + +diff --git a/interface/create b/interface/create +index b7be8ab6..0b9cefa2 100755 +--- a/interface/create ++++ b/interface/create +@@ -1,4 +1,4 @@ +-#!/usr/bin/perl ++#!/usr/bin/env perl + + $count = 0; + +-- +2.25.1 + diff --git a/repos/forked/packages/openblas/cce.patch b/repos/forked/packages/openblas/cce.patch new file mode 100644 index 00000000..12341fcb --- /dev/null +++ b/repos/forked/packages/openblas/cce.patch @@ -0,0 +1,105 @@ +diff -ruN spack-src/cmake/fc.cmake spack-src-patched/cmake/fc.cmake +--- spack-src/cmake/fc.cmake 2022-02-20 16:35:05.000000000 -0500 ++++ spack-src-patched/cmake/fc.cmake 2022-08-04 13:02:13.294697807 -0400 +@@ -221,3 +221,14 @@ + set(TIMER "NONE") + endif () + ++if (${F_COMPILER} STREQUAL "CRAY") ++ set(CCOMMON_OPT "${CCOMMON_OPT} -DF_INTERFACE_INTEL") ++ set(FCOMMON_OPT "${FCOMMON_OPT} -hnopattern") ++ if (INTERFACE64) ++ set (FCOMMON_OPT "${FCOMMON_OPT} -s integer64") ++ endif () ++ if (NOT USE_OPENMP) ++ set(FCOMMON_OPT "${FCOMMON_OPT} -O noomp") ++ endif () ++endif () ++ +diff -ruN spack-src/cmake/system.cmake spack-src-patched/cmake/system.cmake +--- spack-src/cmake/system.cmake 2022-02-20 16:35:05.000000000 -0500 ++++ spack-src-patched/cmake/system.cmake 2022-08-04 13:03:15.173843680 -0400 +@@ -552,6 +552,14 @@ + endforeach () + endif () + ++if ("${F_COMPILER}" STREQUAL "NAG" OR "${F_COMPILER}" STREQUAL "CRAY") ++ set(FILTER_FLAGS "-msse3;-mssse3;-msse4.1;-mavx;-mavx2,-mskylake-avx512") ++ foreach (FILTER_FLAG ${FILTER_FLAGS}) ++ string(REPLACE ${FILTER_FLAG} "" LAPACK_FFLAGS ${LAPACK_FFLAGS}) ++ string(REPLACE ${FILTER_FLAG} "" LAPACK_FPFLAGS ${LAPACK_FPFLAGS}) ++ endforeach () ++endif () ++ + if ("${F_COMPILER}" STREQUAL "GFORTRAN") + # lapack-netlib is rife with uninitialized warnings -hpa + set(LAPACK_FFLAGS "${LAPACK_FFLAGS} -Wno-maybe-uninitialized") +diff -ruN spack-src/f_check spack-src-patched/f_check +--- spack-src/f_check 2022-02-20 16:35:05.000000000 -0500 ++++ spack-src-patched/f_check 2022-08-04 13:05:03.075337778 -0400 +@@ -34,7 +34,7 @@ + "pathf90", "pathf95", + "pgf95", "pgf90", "pgf77", "pgfortran", "nvfortran", + "flang", "egfortran", +- "ifort", "nagfor"); ++ "ifort", "nagfor", "ftn", "crayftn"); + + OUTER: + foreach $lists (@lists) { +@@ -76,6 +76,11 @@ + $vendor = FUJITSU; + $openmp = "-Kopenmp"; + ++ } elsif ($data =~ /Cray/) { ++ ++ $vendor = CRAY; ++ $openmp = "-fopenmp"; ++ + } elsif ($data =~ /GNU/ || $data =~ /GCC/ ) { + + $data =~ s/\(+.*?\)+//g; +@@ -306,6 +311,10 @@ + if ( $vendor eq "NAG") { + $link = `$compiler $openmp -dryrun ftest2.f 2>&1 && rm -f a.out a.exe`; + } ++ ++if ( $vendor eq "CRAY") { ++ $link = `$compiler $openmp -hnopattern ftest2.f 2>&1 && rm -f a.out a.exe`; ++ } + $linker_L = ""; + $linker_l = ""; + $linker_a = ""; +diff -ruN spack-src/Makefile.system spack-src-patched/Makefile.system +--- spack-src/Makefile.system 2022-02-20 16:35:05.000000000 -0500 ++++ spack-src-patched/Makefile.system 2022-08-04 13:01:53.413702690 -0400 +@@ -1271,6 +1271,19 @@ + endif + endif + ++ifeq ($(F_COMPILER), CRAY) ++CCOMMON_OPT += -DF_INTERFACE_INTEL ++FCOMMON_OPT += -hnopattern ++ifdef INTERFACE64 ++ifneq ($(INTERFACE64), 0) ++FCOMMON_OPT += -s integer64 ++endif ++endif ++ifneq ($(USE_OPENMP), 1) ++FCOMMON_OPT += -O noomp ++endif ++endif ++ + ifdef BINARY64 + ifdef INTERFACE64 + ifneq ($(INTERFACE64), 0) +@@ -1551,6 +1564,10 @@ + ifeq ($(F_COMPILER),NAG) + LAPACK_FFLAGS := $(filter-out -msse3 -mssse3 -msse4.1 -mavx -mavx2 -mskylake-avx512 ,$(FFLAGS)) + endif ++ifeq ($(F_COMPILER),CRAY) ++LAPACK_FFLAGS := $(filter-out -msse3 -mssse3 -msse4.1 -mavx -mavx2 -mskylake-avx512 ,$(FFLAGS)) ++FFLAGS := $(filter-out -msse3 -mssse3 -msse4.1 -mavx -mavx2 -mskylake-avx512 ,$(FFLAGS)) ++endif + + LAPACK_CFLAGS = $(CFLAGS) + LAPACK_CFLAGS += -DHAVE_LAPACK_CONFIG_H diff --git a/repos/forked/packages/openblas/f_check-intel.patch b/repos/forked/packages/openblas/f_check-intel.patch new file mode 100644 index 00000000..d395e7c8 --- /dev/null +++ b/repos/forked/packages/openblas/f_check-intel.patch @@ -0,0 +1,24 @@ +diff -ur a/f_check b/f_check +--- a/f_check 2022-08-07 15:36:26.000000000 -0500 ++++ b/f_check 2022-12-09 16:17:43.475278869 -0600 +@@ -102,7 +102,7 @@ + vendor=FLANG + openmp='-fopenmp' + ;; +- *ifx*) ++ *ifort*|*ifx*) + vendor=INTEL + openmp='-fopenmp' + ;; +diff -ur a/f_check.pl b/f_check.pl +--- a/f_check.pl 2022-08-07 15:36:26.000000000 -0500 ++++ b/f_check.pl 2022-12-09 16:18:59.982923288 -0600 +@@ -95,7 +95,7 @@ + if ($compiler =~ /flang/) { + $vendor = FLANG; + $openmp = "-fopenmp"; +- } elsif ($compiler =~ /ifx/) { ++ } elsif ($compiler =~ /ifort/ || $compiler =~ /ifx/) { + $vendor = INTEL; + $openmp = "-fopenmp"; + } elsif ($compiler =~ /pgf/ || $compiler =~ /nvf/) { diff --git a/repos/forked/packages/openblas/f_check-oneapi.patch b/repos/forked/packages/openblas/f_check-oneapi.patch new file mode 100644 index 00000000..61d76867 --- /dev/null +++ b/repos/forked/packages/openblas/f_check-oneapi.patch @@ -0,0 +1,31 @@ +diff -ruN spack-src/f_check spack-src-new/f_check +--- spack-src/f_check 2022-02-20 13:35:05.000000000 -0800 ++++ spack-src-new/f_check 2022-07-25 14:41:31.877584474 -0700 +@@ -34,7 +34,7 @@ + "pathf90", "pathf95", + "pgf95", "pgf90", "pgf77", "pgfortran", "nvfortran", + "flang", "egfortran", +- "ifort", "nagfor"); ++ "ifort", "nagfor", "ifx"); + + OUTER: + foreach $lists (@lists) { +@@ -90,6 +90,9 @@ + if ($compiler =~ /flang/) { + $vendor = FLANG; + $openmp = "-fopenmp"; ++ } elsif ($compiler =~ /ifx/) { ++ $vendor = INTEL; ++ $openmp = "-fopenmp"; + } elsif ($compiler =~ /pgf/ || $compiler =~ /nvf/) { + $vendor = PGI; + $openmp = "-mp"; +@@ -176,7 +179,7 @@ + $openmp = "-fopenmp"; + } + +- if ($compiler =~ /ifort/) { ++ if ($compiler =~ /ifort/ || $compiler =~ /ifx/) { + $vendor = INTEL; + $bu = "_"; + $openmp = "-fopenmp"; diff --git a/repos/forked/packages/openblas/fix-cray-fortran-detection-pr3778.patch b/repos/forked/packages/openblas/fix-cray-fortran-detection-pr3778.patch new file mode 100644 index 00000000..0d87eafb --- /dev/null +++ b/repos/forked/packages/openblas/fix-cray-fortran-detection-pr3778.patch @@ -0,0 +1,54 @@ +diff -ruN spack-src/f_check spack-src-patched/f_check +--- spack-src/f_check 2022-08-07 16:36:26.000000000 -0400 ++++ spack-src-patched/f_check 2022-10-20 15:06:34.296845220 -0400 +@@ -82,10 +82,6 @@ + vendor=FUJITSU + openmp='-Kopenmp' + ;; +- *Cray*) +- vendor=CRAY +- openmp='-fopenmp' +- ;; + *GNU*|*GCC*) + + v="${data#*GCC: *\) }" +@@ -117,6 +113,10 @@ + esac + fi + ;; ++ *Cray*) ++ vendor=CRAY ++ openmp='-fopenmp' ++ ;; + *g95*) + vendor=G95 + openmp='' +diff -ruN spack-src/f_check.pl spack-src-patched/f_check.pl +--- spack-src/f_check.pl 2022-08-07 16:36:26.000000000 -0400 ++++ spack-src-patched/f_check.pl 2022-10-20 15:07:50.884794505 -0400 +@@ -76,11 +76,6 @@ + $vendor = FUJITSU; + $openmp = "-Kopenmp"; + +- } elsif ($data =~ /Cray/) { +- +- $vendor = CRAY; +- $openmp = "-fopenmp"; +- + } elsif ($data =~ /GNU/ || $data =~ /GCC/ ) { + + $data =~ s/\(+.*?\)+//g; +@@ -106,8 +101,12 @@ + $openmp = ""; + } + } ++ } elsif ($data =~ /Cray/) { ++ ++ $vendor = CRAY; ++ $openmp = "-fopenmp"; + +- } ++ } + + if ($data =~ /g95/) { + $vendor = G95; diff --git a/repos/forked/packages/openblas/ifort-msvc.patch b/repos/forked/packages/openblas/ifort-msvc.patch new file mode 100644 index 00000000..dd4c97fd --- /dev/null +++ b/repos/forked/packages/openblas/ifort-msvc.patch @@ -0,0 +1,13 @@ +diff -ruN spack-src/cmake/fc.cmake spack-src-new/cmake/fc.cmake +--- spack-src/cmake/fc.cmake 2023-04-01 14:18:01.000000000 -0600 ++++ spack-src-new/cmake/fc.cmake 2023-06-06 09:34:12.921982500 -0600 +@@ -89,6 +89,9 @@ + + if (${F_COMPILER} STREQUAL "INTEL") + set(CCOMMON_OPT "${CCOMMON_OPT} -DF_INTERFACE_INTEL") ++ if (MSVC) ++ set(FCOMMON_OPT "${FCOMMON_OPT} -names:uppercase -assume:underscore") ++ endif () + if (INTERFACE64) + set(FCOMMON_OPT "${FCOMMON_OPT} -i8") + endif () diff --git a/repos/forked/packages/openblas/lapack-0.3.9-xerbl.patch b/repos/forked/packages/openblas/lapack-0.3.9-xerbl.patch new file mode 100644 index 00000000..a61f3b3c --- /dev/null +++ b/repos/forked/packages/openblas/lapack-0.3.9-xerbl.patch @@ -0,0 +1,14 @@ +diff --git a/lapack-netlib/SRC/sorhr_col.f b/lapack-netlib/SRC/sorhr_col.f +index 38976245..600c19fb 100644 +--- a/lapack-netlib/SRC/sorhr_col.f ++++ b/lapack-netlib/SRC/sorhr_col.f +@@ -282,7 +282,8 @@ + $ NPLUSONE + * .. + * .. External Subroutines .. +- EXTERNAL SCOPY, SLAORHR_COL_GETRFNP, SSCAL, STRSM, XERBLA ++ EXTERNAL SCOPY, SLAORHR_COL_GETRFNP, SSCAL, STRSM, ++ $ XERBLA + * .. + * .. Intrinsic Functions .. + INTRINSIC MAX, MIN diff --git a/repos/forked/packages/openblas/linktest.patch b/repos/forked/packages/openblas/linktest.patch new file mode 100644 index 00000000..6ec5f7ff --- /dev/null +++ b/repos/forked/packages/openblas/linktest.patch @@ -0,0 +1,21 @@ +--- a/exports/gensymbol ++++ b/exports/gensymbol +@@ -3914,6 +3914,18 @@ + @underscore_objs = (@underscore_objs, @misc_common_objs); + @no_underscore_objs = (@no_underscore_objs, @misc_common_objs); + ++ foreach $objs (@underscore_objs) { ++ print "void ", $symbolprefix, $objs, $bu, $symbolsuffix, "();\n" if $objs ne "xerbla"; ++ } ++ ++ foreach $objs (@need_2underscore_objs) { ++ print "void ", $symbolprefix, $objs, $bu, $bu, $symbolsuffix, "();\n"; ++ } ++ ++ foreach $objs (@no_underscore_objs) { ++ print "void ", $symbolprefix, $objs, $symbolsuffix, "();\n"; ++ } ++ + print "int main(void){\n"; + foreach $objs (@underscore_objs) { + print $symbolprefix, $objs, $bu, $symbolsuffix, "();\n" if $objs ne "xerbla"; diff --git a/repos/forked/packages/openblas/make.patch b/repos/forked/packages/openblas/make.patch new file mode 100644 index 00000000..85121421 --- /dev/null +++ b/repos/forked/packages/openblas/make.patch @@ -0,0 +1,35 @@ +diff --git a/Makefile.system b/Makefile.system +index b89f60e..2dbdad0 100644 +--- a/Makefile.system ++++ b/Makefile.system +@@ -139,6 +139,10 @@ NO_PARALLEL_MAKE=0 + endif + GETARCH_FLAGS += -DNO_PARALLEL_MAKE=$(NO_PARALLEL_MAKE) + ++ifdef MAKE_NO_J ++GETARCH_FLAGS += -DMAKE_NO_J=$(MAKE_NO_J) ++endif ++ + ifdef MAKE_NB_JOBS + GETARCH_FLAGS += -DMAKE_NB_JOBS=$(MAKE_NB_JOBS) + endif +diff --git a/getarch.c b/getarch.c +index f9c49e6..dffad70 100644 +--- a/getarch.c ++++ b/getarch.c +@@ -1012,6 +1012,7 @@ int main(int argc, char *argv[]){ + #endif + #endif + ++#ifndef MAKE_NO_J + #ifdef MAKE_NB_JOBS + printf("MAKE += -j %d\n", MAKE_NB_JOBS); + #elif NO_PARALLEL_MAKE==1 +@@ -1021,6 +1022,7 @@ int main(int argc, char *argv[]){ + printf("MAKE += -j %d\n", get_num_cores()); + #endif + #endif ++#endif + + break; + diff --git a/repos/forked/packages/openblas/openblas-0.3.2-cmake.patch b/repos/forked/packages/openblas/openblas-0.3.2-cmake.patch new file mode 100644 index 00000000..50df1980 --- /dev/null +++ b/repos/forked/packages/openblas/openblas-0.3.2-cmake.patch @@ -0,0 +1,43 @@ +From 8ebf541e97e7c0573cde6a51353a47e3c509ca00 Mon Sep 17 00:00:00 2001 +From: Scott Thornton +Date: Mon, 30 Jul 2018 15:18:29 -0500 +Subject: [PATCH 1/2] Set EXPORT_NAME to match OpenBLASConfig.cmake + +--- + CMakeLists.txt | 1 + + 1 file changed, 1 insertion(+) + +diff --git a/CMakeLists.txt b/CMakeLists.txt +index 97f8adeda..4dc18da99 100644 +--- a/CMakeLists.txt ++++ b/CMakeLists.txt +@@ -169,6 +169,7 @@ endif() + # Set output for libopenblas + set_target_properties( ${OpenBLAS_LIBNAME} PROPERTIES RUNTIME_OUTPUT_DIRECTORY ${PROJECT_BINARY_DIR}/lib) + set_target_properties( ${OpenBLAS_LIBNAME} PROPERTIES LIBRARY_OUTPUT_NAME_DEBUG "${OpenBLAS_LIBNAME}_d") ++set_target_properties( ${OpenBLAS_LIBNAME} PROPERTIES EXPORT_NAME "OpenBLAS") + + foreach (OUTPUTCONFIG ${CMAKE_CONFIGURATION_TYPES}) + string( TOUPPER ${OUTPUTCONFIG} OUTPUTCONFIG ) + +From 2a9a9389ef6c3da56fda859c9586becc41a2e780 Mon Sep 17 00:00:00 2001 +From: Scott Thornton +Date: Thu, 2 Aug 2018 14:58:52 -0500 +Subject: [PATCH 2/2] Added target_include_directories() + +--- + CMakeLists.txt | 1 + + 1 file changed, 1 insertion(+) + +diff --git a/CMakeLists.txt b/CMakeLists.txt +index 4dc18da99..20ce02e87 100644 +--- a/CMakeLists.txt ++++ b/CMakeLists.txt +@@ -150,6 +150,7 @@ endif() + + # add objects to the openblas lib + add_library(${OpenBLAS_LIBNAME} ${LA_SOURCES} ${LAPACKE_SOURCES} ${RELA_SOURCES} ${TARGET_OBJS} ${OpenBLAS_DEF_FILE}) ++target_include_directories(${OpenBLAS_LIBNAME} INTERFACE $) + + # Android needs to explicitly link against libm + if(ANDROID) diff --git a/repos/forked/packages/openblas/openblas-0.3.28-thread-buffer.patch b/repos/forked/packages/openblas/openblas-0.3.28-thread-buffer.patch new file mode 100644 index 00000000..8c94a921 --- /dev/null +++ b/repos/forked/packages/openblas/openblas-0.3.28-thread-buffer.patch @@ -0,0 +1,14 @@ +--- a/driver/others/blas_server.c 2024-09-18 17:09:48.362101394 -0700 ++++ b/driver/others/blas_server.c 2024-09-18 17:12:59.690940586 -0700 +@@ -1076,6 +1076,11 @@ + main_status[cpu] = MAIN_RUNNING1; + #endif + ++if (buffer == NULL) { ++ blas_thread_buffer[cpu] = blas_memory_alloc(2); ++ buffer = blas_thread_buffer[cpu]; ++} ++ + //For target LOONGSON3R5, applying an offset to the buffer is essential + //for minimizing cache conflicts and optimizing performance. + #if defined(ARCH_LOONGARCH64) && !defined(NO_AFFINITY) diff --git a/repos/forked/packages/openblas/openblas-0.3.8-darwin.patch b/repos/forked/packages/openblas/openblas-0.3.8-darwin.patch new file mode 100644 index 00000000..e844e0be --- /dev/null +++ b/repos/forked/packages/openblas/openblas-0.3.8-darwin.patch @@ -0,0 +1,23 @@ +diff --git a/c_check b/c_check +index fbd1838a..e10def2e 100644 +--- a/c_check ++++ b/c_check +@@ -263,18 +263,6 @@ if ($architecture ne $hostarch) { + + $cross = 1 if ($os ne $hostos); + +-# rework cross suffix and architecture if we are on OSX cross-compiling for ARMV8-based IOS +-# the initial autodetection will have been confused by the command-line arguments to clang +-# and the cross-compiler apparently still claims to build for x86_64 in its CC -E output +-if (($os eq "Darwin") && ($cross_suffix ne "")) { +- my $tmpnam = `xcrun --sdk iphoneos --find clang`; +- $cross_suffix = substr($tmpnam, 0, rindex($tmpnam, "/")+1 ); +-# this should produce something like $cross_suffix="/Applications/Xcode-10.1.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/"; +- $cross =1; +- $architecture = arm64; +-} +- +- + + $openmp = "" if $ENV{USE_OPENMP} != 1; + diff --git a/repos/forked/packages/openblas/openblas0.2.19.diff b/repos/forked/packages/openblas/openblas0.2.19.diff new file mode 100644 index 00000000..442612d5 --- /dev/null +++ b/repos/forked/packages/openblas/openblas0.2.19.diff @@ -0,0 +1,847 @@ +diff --git a/cpuid_x86.c b/cpuid_x86.c +index bbd377f..dff1507 100644 +--- a/cpuid_x86.c ++++ b/cpuid_x86.c +@@ -1110,6 +1110,9 @@ int get_cpuname(void){ + break; + case 3: + switch (model) { ++ case 7: ++ // Bay Trail ++ return CPUTYPE_ATOM; + case 10: + case 14: + // Ivy Bridge +diff --git a/driver/others/dynamic.c b/driver/others/dynamic.c +index 18f85c3..a09660f 100644 +--- a/driver/others/dynamic.c ++++ b/driver/others/dynamic.c +@@ -232,6 +232,7 @@ static gotoblas_t *get_coretype(void){ + return &gotoblas_NEHALEM; //OS doesn't support AVX. Use old kernels. + } + } ++ if (model == 7) return &gotoblas_ATOM; //Bay Trail + return NULL; + case 4: + //Intel Haswell +diff --git a/kernel/x86_64/dgemm_kernel_4x8_sandy.S b/kernel/x86_64/dgemm_kernel_4x8_sandy.S +index a52bb07..926395c 100644 +--- a/kernel/x86_64/dgemm_kernel_4x8_sandy.S ++++ b/kernel/x86_64/dgemm_kernel_4x8_sandy.S +@@ -277,7 +277,7 @@ LEAQ (, %rax, SIZE), %rax; + LEAQ (ptrba, %rax, 8), ptrba; + LEAQ (ptrbb, %rax, 4), ptrbb; + #endif +-#### Initial Results Register #### ++//#### Initial Results Register #### + PREFETCH2 0*SIZE(prebb); + XOR_DY yvec15, yvec15, yvec15; + PREFETCH2 8*SIZE(prebb); +@@ -317,7 +317,7 @@ ALIGN_5; + .L2_bodyB:; + # Computing kernel + +-#### Unroll times 1 #### ++//#### Unroll times 1 #### + LD_DY 4*SIZE(ptrba), yvec1; + MUL_DY yvec0, yvec2, yvec6; + SHUF_DY $0x03, yvec2, yvec2, yvec4; +@@ -345,7 +345,7 @@ MUL_DY yvec1, yvec5, yvec7; + ADD_DY yvec10, yvec6, yvec10; + ADD_DY yvec8, yvec7, yvec8; + +-#### Unroll times 2 #### ++//#### Unroll times 2 #### + LD_DY 12*SIZE(ptrba), yvec1; + MUL_DY yvec0, yvec2, yvec6; + SHUF_DY $0x03, yvec2, yvec2, yvec4; +@@ -373,7 +373,7 @@ MUL_DY yvec1, yvec5, yvec7; + ADD_DY yvec10, yvec6, yvec10; + ADD_DY yvec8, yvec7, yvec8; + +-#### Unroll times 3 #### ++//#### Unroll times 3 #### + LD_DY 20*SIZE(ptrba), yvec1; + MUL_DY yvec0, yvec2, yvec6; + SHUF_DY $0x03, yvec2, yvec2, yvec4; +@@ -402,7 +402,7 @@ MUL_DY yvec1, yvec5, yvec7; + ADD_DY yvec10, yvec6, yvec10; + ADD_DY yvec8, yvec7, yvec8; + +-#### Unroll times 4 #### ++//#### Unroll times 4 #### + LD_DY 28*SIZE(ptrba), yvec1; + MUL_DY yvec0, yvec2, yvec6; + SHUF_DY $0x03, yvec2, yvec2, yvec4; +@@ -446,7 +446,7 @@ TEST $2, %rax; + JLE .L3_loopE; + ALIGN_5 + .L3_bodyB: +-#### Unroll times 1 #### ++//#### Unroll times 1 #### + PREFETCH0 64*SIZE(ptrba) + LD_DY 4*SIZE(ptrba), yvec1; + MUL_DY yvec0, yvec2, yvec6; +@@ -475,7 +475,7 @@ MUL_DY yvec1, yvec5, yvec7; + ADD_DY yvec10, yvec6, yvec10; + ADD_DY yvec8, yvec7, yvec8; + +-#### Unroll times 2 #### ++//#### Unroll times 2 #### + PREFETCH0 72*SIZE(ptrba) + LD_DY 12*SIZE(ptrba), yvec1; + MUL_DY yvec0, yvec2, yvec6; +@@ -516,7 +516,7 @@ TEST $1, %rax; + JLE .L4_loopE; + ALIGN_5 + .L4_bodyB:; +-#### Unroll times 1 #### ++//#### Unroll times 1 #### + PREFETCH0 64*SIZE(ptrba) + LD_DY 4*SIZE(ptrba), yvec1; + MUL_DY yvec0, yvec2, yvec6; +@@ -544,9 +544,9 @@ ADD_DY yvec10, yvec6, yvec10; + ADD_DY yvec8, yvec7, yvec8; + + .L4_loopE:; +-#### Load Alpha #### ++//#### Load Alpha #### + BROAD_DY MEMALPHA,yvec7; +-#### Multiply Alpha #### ++//#### Multiply Alpha #### + MUL_DY yvec7,yvec15,yvec15; + MUL_DY yvec7,yvec14,yvec14; + MUL_DY yvec7,yvec13,yvec13; +@@ -555,7 +555,7 @@ MUL_DY yvec7,yvec11,yvec11; + MUL_DY yvec7,yvec10,yvec10; + MUL_DY yvec7,yvec9,yvec9; + MUL_DY yvec7,yvec8,yvec8; +-#### Reverse the Results #### ++//#### Reverse the Results #### + MOV_DY yvec15,yvec7; + REVS_DY $0x0a,yvec13,yvec15,yvec15; + REVS_DY $0x0a,yvec7,yvec13,yvec13; +@@ -568,13 +568,13 @@ REVS_DY $0x0a,yvec7,yvec9,yvec9; + MOV_DY yvec10,yvec7; + REVS_DY $0x0a,yvec8,yvec10,yvec10; + REVS_DY $0x0a,yvec7,yvec8,yvec8; +-#### Testing alignment #### ++//#### Testing alignment #### + MOVQ C0, %rax; + OR ldc, %rax; + TEST $15, %rax; + JNE .L4_loopEx; # Unalign part write back + ALIGN_5 +-#### Writing Back #### ++//#### Writing Back #### + EXTRA_DY $1,yvec15,xvec7; + EXTRA_DY $1,yvec14,xvec6; + EXTRA_DY $1,yvec13,xvec5; +@@ -776,7 +776,7 @@ LEAQ (, %rax, SIZE), %rax; + LEAQ (ptrba, %rax, 4), ptrba; + LEAQ (ptrbb, %rax, 4), ptrbb; + #endif +-#### Initial Results Register #### ++//#### Initial Results Register #### + XOR_DY yvec15, yvec15, yvec15; + XOR_DY yvec13, yvec13, yvec13; + LD_DY 0*SIZE(ptrbb), yvec2; +@@ -805,7 +805,7 @@ ALIGN_5; + .L6_bodyB:; + # Computing kernel + +-#### Untoll time 1 #### ++//#### Untoll time 1 #### + LD_DY 4*SIZE(ptrba), yvec1; + MUL_DY yvec0, yvec2, yvec6; + ADD_DY yvec15, yvec6, yvec15; +@@ -821,7 +821,7 @@ VPERMILP_DY $0x05, yvec2, yvec3; + MUL_DY yvec0, yvec5, yvec7; + ADD_DY yvec9, yvec7, yvec9; + +-#### Untoll time 2 #### ++//#### Untoll time 2 #### + LD_DY 8*SIZE(ptrba), yvec0; + MUL_DY yvec1, yvec2, yvec6; + ADD_DY yvec15, yvec6, yvec15; +@@ -837,7 +837,7 @@ VPERMILP_DY $0x05, yvec2, yvec3; + MUL_DY yvec1, yvec5, yvec7; + ADD_DY yvec9, yvec7, yvec9; + +-#### Untoll time 3 #### ++//#### Untoll time 3 #### + LD_DY 12*SIZE(ptrba), yvec1; + MUL_DY yvec0, yvec2, yvec6; + ADD_DY yvec15, yvec6, yvec15; +@@ -855,7 +855,7 @@ ADDQ $16*SIZE, ptrbb; + MUL_DY yvec0, yvec5, yvec7; + ADD_DY yvec9, yvec7, yvec9; + +-#### Untoll time 4 #### ++//#### Untoll time 4 #### + LD_DY 0*SIZE(ptrba), yvec0; + MUL_DY yvec1, yvec2, yvec6; + ADD_DY yvec15, yvec6, yvec15; +@@ -883,7 +883,7 @@ TEST $2, %rax; + JLE .L7_loopE; + ALIGN_5 + .L7_bodyB:; +-#### Untoll time 1 #### ++//#### Untoll time 1 #### + LD_DY 4*SIZE(ptrba), yvec1; + MUL_DY yvec0, yvec2, yvec6; + ADD_DY yvec15, yvec6, yvec15; +@@ -901,7 +901,7 @@ ADDQ $8*SIZE, ptrbb; + MUL_DY yvec0, yvec5, yvec7; + ADD_DY yvec9, yvec7, yvec9; + +-#### Untoll time 2 #### ++//#### Untoll time 2 #### + LD_DY 0*SIZE(ptrba), yvec0; + MUL_DY yvec1, yvec2, yvec6; + ADD_DY yvec15, yvec6, yvec15; +@@ -927,7 +927,7 @@ TEST $1, %rax; + JLE .L8_loopE; + ALIGN_5 + .L8_bodyB:; +-#### Untoll time 1 #### ++//#### Untoll time 1 #### + MUL_DY yvec0, yvec2, yvec6; + ADD_DY yvec15, yvec6, yvec15; + SHUF_DY $0x03, yvec2, yvec2, yvec4; +@@ -943,27 +943,27 @@ MUL_DY yvec0, yvec5, yvec7; + ADD_DY yvec9, yvec7, yvec9; + + .L8_loopE:; +-#### Load Alpha #### ++//#### Load Alpha #### + BROAD_DY MEMALPHA, yvec7; +-#### Multiply Alpha #### ++//#### Multiply Alpha #### + MUL_DY yvec7,yvec15,yvec15; + MUL_DY yvec7,yvec13,yvec13; + MUL_DY yvec7,yvec11,yvec11; + MUL_DY yvec7,yvec9,yvec9; +-#### Reverse the Results #### ++//#### Reverse the Results #### + MOV_DY yvec15, yvec7; + REVS_DY $0x0a,yvec13,yvec15,yvec15; + REVS_DY $0x0a,yvec7,yvec13,yvec13; + MOV_DY yvec11,yvec7; + REVS_DY $0x0a,yvec9,yvec11,yvec11; + REVS_DY $0x0a,yvec7,yvec9,yvec9; +-#### Testing alignment #### ++//#### Testing alignment #### + MOVQ C0, %rax; + OR ldc, %rax; + TEST $15, %rax; + JNE .L8_loopEx; # Unalign part write back + ALIGN_5 +-#### Writing Back #### ++//#### Writing Back #### + EXTRA_DY $1,yvec15,xvec7; + EXTRA_DY $1,yvec13,xvec5; + EXTRA_DY $1,yvec11,xvec3; +@@ -1076,7 +1076,7 @@ LEAQ (, %rax, SIZE), %rax; + LEAQ (ptrba, %rax, 2), ptrba; + LEAQ (ptrbb, %rax, 4), ptrbb + #endif +-#### Initial Results Register #### ++//#### Initial Results Register #### + LD_DX 0*SIZE(ptrbb), xvec2; + XOR_DY yvec15, yvec15, yvec15; + LD_DX 2*SIZE(ptrbb), xvec3; +@@ -1106,7 +1106,7 @@ ALIGN_5; + .L10_bodyB:; + # Computing kernel + +-##### Unroll time 1 #### ++//#### Unroll time 1 #### + LD_DX 4*SIZE(ptrbb), xvec6; + SHUF_DX $0x4e, xvec3, xvec5; + MUL_DX xvec0, xvec2, xvec2; +@@ -1123,7 +1123,7 @@ SHUF_DX $0x4e, xvec6, xvec4; + MUL_DX xvec0, xvec5, xvec5; + ADD_DX xvec5, xvec9, xvec9; + +-#### Unroll time 2 #### ++//#### Unroll time 2 #### + LD_DX 8*SIZE(ptrbb), xvec2; + SHUF_DX $0x4e, xvec7, xvec5; + MUL_DX xvec1, xvec6, xvec6; +@@ -1140,7 +1140,7 @@ SHUF_DX $0x4e, xvec2, xvec4; + MUL_DX xvec1, xvec5, xvec5; + ADD_DX xvec5, xvec9, xvec9; + +-##### Unroll time 3 #### ++//#### Unroll time 3 #### + LD_DX 12*SIZE(ptrbb), xvec6; + SHUF_DX $0x4e, xvec3, xvec5; + MUL_DX xvec0, xvec2, xvec2; +@@ -1159,7 +1159,7 @@ ADDQ $8*SIZE, ptrba; + MUL_DX xvec0, xvec5, xvec5; + ADD_DX xvec5, xvec9, xvec9; + +-#### Unroll time 4 #### ++//#### Unroll time 4 #### + LD_DX 0*SIZE(ptrbb), xvec2; + SHUF_DX $0x4e, xvec7, xvec5; + MUL_DX xvec1, xvec6, xvec6; +@@ -1188,7 +1188,7 @@ TEST $2, %rax; + JLE .L11_loopE; + ALIGN_5 + .L11_bodyB:; +-##### Unroll time 1 #### ++//#### Unroll time 1 #### + LD_DX 4*SIZE(ptrbb), xvec6; + SHUF_DX $0x4e, xvec3, xvec5; + MUL_DX xvec0, xvec2, xvec2; +@@ -1208,7 +1208,7 @@ ADDQ $4*SIZE, ptrba; + MUL_DX xvec0, xvec5, xvec5; + ADD_DX xvec5, xvec9, xvec9; + +-#### Unroll time 2 #### ++//#### Unroll time 2 #### + LD_DX 0*SIZE(ptrbb), xvec2; + SHUF_DX $0x4e, xvec7, xvec5; + MUL_DX xvec1, xvec6, xvec6; +@@ -1251,27 +1251,27 @@ MUL_DX xvec0, xvec5, xvec5; + ADD_DX xvec5, xvec9, xvec9; + + .L12_loopE:; +-#### Load Alpha #### ++//#### Load Alpha #### + BROAD_DX MEMALPHA, xvec7; +-#### Multiply Alpha #### ++//#### Multiply Alpha #### + MUL_DX xvec7, xvec15, xvec15; + MUL_DX xvec7, xvec13, xvec13; + MUL_DX xvec7, xvec11, xvec11; + MUL_DX xvec7, xvec9, xvec9; +-#### Reverse the Results #### ++//#### Reverse the Results #### + MOV_DX xvec15, xvec6; + REVS_DX xvec13, xvec15, xvec15; + REVS_DX xvec6, xvec13, xvec13; + MOV_DX xvec11, xvec6; + REVS_DX xvec9, xvec11, xvec11; + REVS_DX xvec6, xvec9, xvec9; +-#### Testing Alignment #### ++//#### Testing Alignment #### + MOVQ C0, %rax; + OR ldc, %rax; + TEST $15, %rax; + JNE .L12_loopEx; + ALIGN_5 +-#### Writing Back #### ++//#### Writing Back #### + #ifndef TRMMKERNEL + ADD_DX 0*SIZE(C0), xvec13, xvec13; + ADD_DX 0*SIZE(C0, ldc, 1), xvec15, xvec15; +@@ -1345,7 +1345,7 @@ LEAQ (,%rax, SIZE), %rax; + ADDQ %rax, ptrba; + LEAQ (ptrbb, %rax, 4), ptrbb; + #endif +-#### Initial Results Register #### ++//#### Initial Results Register #### + XOR_DY yvec15, yvec15, yvec15; + #ifndef TRMMKERNEL + MOVQ bk, k; +@@ -1429,11 +1429,11 @@ ADDQ $1*SIZE, ptrba; + ADDQ $4*SIZE, ptrbb; + + .L16_loopE: +-#### Load Alpha #### ++//#### Load Alpha #### + BROAD_DY MEMALPHA, yvec7; +-#### Multiply Alpha #### ++//#### Multiply Alpha #### + MUL_DY yvec15, yvec7, yvec15; +-#### Writing Back #### ++//#### Writing Back #### + EXTRA_DY $1, yvec15, xvec7; + #ifndef TRMMKERNEL + LDL_DX 0*SIZE(C0), xvec0, xvec0; +@@ -1497,7 +1497,7 @@ LEAQ (, %rax, SIZE), %rax; + LEAQ (ptrba, %rax, 8), ptrba; + LEAQ (ptrbb, %rax, 2), ptrbb; + #endif +-#### Initial Results Register #### ++//#### Initial Results Register #### + XOR_DY yvec15, yvec15, yvec15; + XOR_DY yvec14, yvec14, yvec14; + XOR_DY yvec13, yvec13, yvec13; +@@ -1526,7 +1526,7 @@ JLE .L211_loopE; + ALIGN_5; + .L211_bodyB: + # Computing kernel +-#### Unroll time 1 #### ++//#### Unroll time 1 #### + LD_DX 0*SIZE(ptrba), xvec0; + LD_DX 0*SIZE(ptrbb), xvec4; + MOV_DX xvec4, xvec5; +@@ -1563,7 +1563,7 @@ ADD_DX xvec6, xvec9, xvec9; + MUL_DX xvec3, xvec7, xvec7; + ADD_DX xvec7, xvec8, xvec8; + +-#### Unroll time 2 #### ++//#### Unroll time 2 #### + LD_DX 8*SIZE(ptrba), xvec0; + LD_DX 2*SIZE(ptrbb), xvec4; + MOV_DX xvec4, xvec5; +@@ -1600,7 +1600,7 @@ ADD_DX xvec6, xvec9, xvec9; + MUL_DX xvec3, xvec7, xvec7; + ADD_DX xvec7, xvec8, xvec8; + +-#### Unroll time 3 #### ++//#### Unroll time 3 #### + LD_DX 16*SIZE(ptrba), xvec0; + LD_DX 4*SIZE(ptrbb), xvec4; + MOV_DX xvec4, xvec5; +@@ -1637,7 +1637,7 @@ ADD_DX xvec6, xvec9, xvec9; + MUL_DX xvec3, xvec7, xvec7; + ADD_DX xvec7, xvec8, xvec8; + +-#### Unroll time 4 #### ++//#### Unroll time 4 #### + LD_DX 24*SIZE(ptrba), xvec0; + LD_DX 6*SIZE(ptrbb), xvec4; + MOV_DX xvec4, xvec5; +@@ -1689,7 +1689,7 @@ JLE .L212_loopE; + ALIGN_5; + .L212_bodyB: + # Computing kernel +-#### Unroll time 1 #### ++//#### Unroll time 1 #### + LD_DX 0*SIZE(ptrba), xvec0; + LD_DX 0*SIZE(ptrbb), xvec4; + MOV_DX xvec4, xvec5; +@@ -1726,7 +1726,7 @@ ADD_DX xvec6, xvec9, xvec9; + MUL_DX xvec3, xvec7, xvec7; + ADD_DX xvec7, xvec8, xvec8; + +-#### Unroll time 2 #### ++//#### Unroll time 2 #### + LD_DX 8*SIZE(ptrba), xvec0; + LD_DX 2*SIZE(ptrbb), xvec4; + MOV_DX xvec4, xvec5; +@@ -1775,7 +1775,7 @@ TEST $1, %rax; + JLE .L213_loopE; + ALIGN_5 + .L213_bodyB: +-#### Unroll time 1 #### ++//#### Unroll time 1 #### + LD_DX 0*SIZE(ptrba), xvec0; + LD_DX 0*SIZE(ptrbb), xvec4; + MOV_DX xvec4, xvec5; +@@ -1815,7 +1815,7 @@ MUL_DX xvec3, xvec7, xvec7; + ADD_DX xvec7, xvec8, xvec8; + + .L213_loopE: +-#### Multiply Alpha #### ++//#### Multiply Alpha #### + BROAD_DX MEMALPHA, xvec7; + MUL_DX xvec7, xvec15, xvec15; + MUL_DX xvec7, xvec14, xvec14; +@@ -1825,7 +1825,7 @@ MUL_DX xvec7, xvec11, xvec11; + MUL_DX xvec7, xvec10, xvec10; + MUL_DX xvec7, xvec9, xvec9; + MUL_DX xvec7, xvec8, xvec8; +-#### Reverse ##### ++//#### Reverse #### + MOV_DX xvec15, xvec6; + REVS_DX xvec11, xvec15, xvec15; + REVS_DX xvec6, xvec11, xvec11; +@@ -1838,13 +1838,13 @@ REVS_DX xvec6, xvec9, xvec9; + MOV_DX xvec12, xvec6; + REVS_DX xvec8, xvec12, xvec12; + REVS_DX xvec6, xvec8, xvec8; +-#### Testing Alignment #### ++//#### Testing Alignment #### + MOVQ C0, %rax; + OR ldc, %rax; + TEST $15, %rax; + JNE .L213_loopEx; + ALIGN_5 +-#### Writing Back #### ++//#### Writing Back #### + #ifndef TRMMKERNEL + ADD_DX 0*SIZE(C0), xvec11, xvec11; + ADD_DX 2*SIZE(C0), xvec10, xvec10; +@@ -1952,7 +1952,7 @@ LEAQ (,%rax, SIZE), %rax; + LEAQ (ptrba, %rax, 4), ptrba; + LEAQ (ptrbb, %rax, 2), ptrbb; + #endif +-#### Initial Results Register #### ++//#### Initial Results Register #### + XOR_DY yvec15, yvec15, yvec15; + XOR_DY yvec14, yvec14, yvec14; + XOR_DY yvec11, yvec11, yvec11; +@@ -1977,7 +1977,7 @@ JLE .L221_loopE; + ALIGN_5 + .L221_bodyB:; + # Computing kernel +-#### Unroll time 1 #### ++//#### Unroll time 1 #### + LD_DX 0*SIZE(ptrba), xvec0; + LD_DX 0*SIZE(ptrbb), xvec4; + MOV_DX xvec4, xvec5; +@@ -1996,7 +1996,7 @@ ADD_DX xvec4, xvec11, xvec11; + MUL_DX xvec1, xvec5, xvec5; + ADD_DX xvec5, xvec10, xvec10; + +-#### Unroll time 2 #### ++//#### Unroll time 2 #### + LD_DX 4*SIZE(ptrba), xvec0; + LD_DX 2*SIZE(ptrbb), xvec4; + MOV_DX xvec4, xvec5; +@@ -2015,7 +2015,7 @@ ADD_DX xvec4, xvec11, xvec11; + MUL_DX xvec1, xvec5, xvec5; + ADD_DX xvec5, xvec10, xvec10; + +-#### Unroll time 3 #### ++//#### Unroll time 3 #### + LD_DX 8*SIZE(ptrba), xvec0; + LD_DX 4*SIZE(ptrbb), xvec4; + MOV_DX xvec4, xvec5; +@@ -2034,7 +2034,7 @@ ADD_DX xvec4, xvec11, xvec11; + MUL_DX xvec1, xvec5, xvec5; + ADD_DX xvec5, xvec10, xvec10; + +-#### Unroll time 4 #### ++//#### Unroll time 4 #### + LD_DX 12*SIZE(ptrba), xvec0; + LD_DX 6*SIZE(ptrbb), xvec4; + MOV_DX xvec4, xvec5; +@@ -2067,7 +2067,7 @@ TEST $2, %rax; + JLE .L222_loopE; + ALIGN_5 + .L222_bodyB: +-#### Unroll time 1 #### ++//#### Unroll time 1 #### + LD_DX 0*SIZE(ptrba), xvec0; + LD_DX 0*SIZE(ptrbb), xvec4; + MOV_DX xvec4, xvec5; +@@ -2086,7 +2086,7 @@ ADD_DX xvec4, xvec11, xvec11; + MUL_DX xvec1, xvec5, xvec5; + ADD_DX xvec5, xvec10, xvec10; + +-#### Unroll time 2 #### ++//#### Unroll time 2 #### + LD_DX 4*SIZE(ptrba), xvec0; + LD_DX 2*SIZE(ptrbb), xvec4; + MOV_DX xvec4, xvec5; +@@ -2116,7 +2116,7 @@ TEST $1, %rax; + JLE .L223_loopE; + ALIGN_5 + .L223_bodyB: +-#### Unroll time 1 #### ++//#### Unroll time 1 #### + LD_DX 0*SIZE(ptrba), xvec0; + LD_DX 0*SIZE(ptrbb), xvec4; + MOV_DX xvec4, xvec5; +@@ -2138,26 +2138,26 @@ MUL_DX xvec1, xvec5, xvec5; + ADD_DX xvec5, xvec10, xvec10; + + .L223_loopE: +-#### Multiply Alpha #### ++//#### Multiply Alpha #### + BROAD_DX MEMALPHA, xvec7; + MUL_DX xvec7, xvec15, xvec15; + MUL_DX xvec7, xvec14, xvec14; + MUL_DX xvec7, xvec11, xvec11; + MUL_DX xvec7, xvec10, xvec10; +-#### Reverse ##### ++//#### Reverse #### + MOV_DX xvec15, xvec6; + REVS_DX xvec11, xvec15, xvec15; + REVS_DX xvec6, xvec11, xvec11; + MOV_DX xvec14, xvec6; + REVS_DX xvec10, xvec14, xvec14; + REVS_DX xvec6, xvec10, xvec10; +-#### Testing Alignment #### ++//#### Testing Alignment #### + MOVQ C0, %rax; + OR ldc, %rax; + TEST $15, %rax; + JNE .L223_loopEx; + ALIGN_5 +-#### Writing Back #### ++//#### Writing Back #### + #ifndef TRMMKERNEL + ADD_DX 0*SIZE(C0), xvec11, xvec11; + ADD_DX 2*SIZE(C0), xvec10, xvec10; +@@ -2220,7 +2220,7 @@ ADDQ $4, kk + ADDQ $4*SIZE, C0; + ADDQ $4*SIZE, C1; + .L22_loopE:; +-TEST $2, bm; # Rm = 2 ++TEST $2, bm; // Rm = 2 + JLE .L23_loopE; + ALIGN_5; + .L23_bodyB: +@@ -2255,7 +2255,7 @@ JLE .L231_loopE; + ALIGN_5 + .L231_bodyB: + # Computing kernel +-#### Unroll time 1 #### ++//#### Unroll time 1 #### + LD_DX 0*SIZE(ptrba), xvec0; + LD_DX 0*SIZE(ptrbb), xvec4; + SHUF_DX $0x4e, xvec4, xvec5; +@@ -2264,7 +2264,7 @@ ADD_DX xvec4, xvec15, xvec15; + + MUL_DX xvec0, xvec5, xvec5; + ADD_DX xvec5, xvec11, xvec11; +-#### Unroll time 2 #### ++//#### Unroll time 2 #### + LD_DX 2*SIZE(ptrba), xvec0; + LD_DX 2*SIZE(ptrbb), xvec4; + SHUF_DX $0x4e, xvec4, xvec5; +@@ -2273,7 +2273,7 @@ ADD_DX xvec4, xvec15, xvec15; + + MUL_DX xvec0, xvec5, xvec5; + ADD_DX xvec5, xvec11, xvec11; +-#### Unroll time 3 #### ++//#### Unroll time 3 #### + LD_DX 4*SIZE(ptrba), xvec0; + LD_DX 4*SIZE(ptrbb), xvec4; + SHUF_DX $0x4e, xvec4, xvec5; +@@ -2282,7 +2282,7 @@ ADD_DX xvec4, xvec15, xvec15; + + MUL_DX xvec0, xvec5, xvec5; + ADD_DX xvec5, xvec11, xvec11; +-#### Unroll time 4 #### ++//#### Unroll time 4 #### + LD_DX 6*SIZE(ptrba), xvec0; + LD_DX 6*SIZE(ptrbb), xvec4; + SHUF_DX $0x4e, xvec4, xvec5; +@@ -2305,7 +2305,7 @@ TEST $2, %rax; + JLE .L232_loopE; + ALIGN_5 + .L232_bodyB: +-#### Unroll time 1 #### ++//#### Unroll time 1 #### + LD_DX 0*SIZE(ptrba), xvec0; + LD_DX 0*SIZE(ptrbb), xvec4; + SHUF_DX $0x4e, xvec4, xvec5; +@@ -2314,7 +2314,7 @@ ADD_DX xvec4, xvec15, xvec15; + + MUL_DX xvec0, xvec5, xvec5; + ADD_DX xvec5, xvec11, xvec11; +-#### Unroll time 2 #### ++//#### Unroll time 2 #### + LD_DX 2*SIZE(ptrba), xvec0; + LD_DX 2*SIZE(ptrbb), xvec4; + SHUF_DX $0x4e, xvec4, xvec5; +@@ -2334,7 +2334,7 @@ TEST $1, %rax; + JLE .L233_loopE; + ALIGN_5 + .L233_bodyB: +-#### Unroll time 1 #### ++//#### Unroll time 1 #### + LD_DX 0*SIZE(ptrba), xvec0; + LD_DX 0*SIZE(ptrbb), xvec4; + SHUF_DX $0x4e, xvec4, xvec5; +@@ -2345,21 +2345,21 @@ MUL_DX xvec0, xvec5, xvec5; + ADD_DX xvec5, xvec11, xvec11; + ADDQ $2*SIZE, ptrbb; + .L233_loopE: +-#### Multiply Alpha #### ++//#### Multiply Alpha #### + BROAD_DX MEMALPHA, xvec7; + MUL_DX xvec7, xvec15, xvec15; + MUL_DX xvec7, xvec11, xvec11; +-#### Reverse ##### ++//#### Reverse #### + MOV_DX xvec15, xvec6; + REVS_DX xvec11, xvec15, xvec15; + REVS_DX xvec6, xvec11, xvec11; +-#### Testing Alignment #### ++//#### Testing Alignment #### + MOVQ C0, %rax; + OR ldc, %rax; + TEST $15, %rax; + JNE .L233_loopEx; + ALIGN_5 +-#### Writing Back #### ++//#### Writing Back #### + #ifndef TRMMKERNEL + ADD_DX 0*SIZE(C0), xvec11, xvec11; + ADD_DX 0*SIZE(C1), xvec15, xvec15; +@@ -2408,7 +2408,7 @@ ADDQ $2, kk; + ADDQ $2*SIZE, C0; + ADDQ $2*SIZE, C1; + .L23_loopE: +-TEST $1, bm; # Rm = 1 ++TEST $1, bm; // Rm = 1 + JLE .L24_loopE; + ALIGN_5; + .L24_bodyB: +@@ -2534,7 +2534,7 @@ SALQ $4, k; + ADDQ k, bb; + LEAQ (C, ldc, 2), C; + .L20_loopE:; +-TEST $1, bn; # Rn = 1 ++TEST $1, bn; // Rn = 1 + JLE .L30_loopE; + ALIGN_5 + .L30_bodyB: +@@ -2558,7 +2558,7 @@ LEAQ (, %rax, SIZE), %rax; + LEAQ (ptrba, %rax, 8), ptrba; + ADDQ %rax, ptrbb; + #endif +-#### Initial Results Register #### ++//#### Initial Results Register #### + XOR_DY yvec15, yvec15, yvec15; + XOR_DY yvec14, yvec14, yvec14; + #ifndef TRMMKERNEL +@@ -2580,7 +2580,7 @@ SARQ $2, k; + JLE .L311_loopE; + ALIGN_5 + .L311_bodyB: +-#### Unroll time 1 #### ++//#### Unroll time 1 #### + LD_DY 0*SIZE(ptrba), yvec0; + LD_DY 4*SIZE(ptrba), yvec1; + BROAD_DY 0*SIZE(ptrbb), yvec2; +@@ -2589,7 +2589,7 @@ ADD_DY yvec0, yvec15, yvec15; + MUL_DY yvec2, yvec1, yvec1; + ADD_DY yvec1, yvec14, yvec14; + +-#### Unroll time 2 #### ++//#### Unroll time 2 #### + LD_DY 8*SIZE(ptrba), yvec3; + LD_DY 12*SIZE(ptrba), yvec4; + BROAD_DY 1*SIZE(ptrbb), yvec5; +@@ -2598,7 +2598,7 @@ ADD_DY yvec3, yvec15, yvec15; + MUL_DY yvec5, yvec4, yvec4 + ADD_DY yvec4, yvec14, yvec14; + +-#### Unroll time 3 #### ++//#### Unroll time 3 #### + LD_DY 16*SIZE(ptrba), yvec0; + LD_DY 20*SIZE(ptrba), yvec1; + BROAD_DY 2*SIZE(ptrbb), yvec2; +@@ -2607,7 +2607,7 @@ ADD_DY yvec0, yvec15, yvec15; + MUL_DY yvec2, yvec1, yvec1; + ADD_DY yvec1, yvec14, yvec14; + +-#### Unroll time 2 #### ++//#### Unroll time 2 #### + LD_DY 24*SIZE(ptrba), yvec3; + LD_DY 28*SIZE(ptrba), yvec4; + BROAD_DY 3*SIZE(ptrbb), yvec5; +@@ -2630,7 +2630,7 @@ TEST $2, %rax; + JLE .L312_loopE; + ALIGN_5 + .L312_bodyB: +-#### Unroll time 1 #### ++//#### Unroll time 1 #### + LD_DY 0*SIZE(ptrba), yvec0; + LD_DY 4*SIZE(ptrba), yvec1; + BROAD_DY 0*SIZE(ptrbb), yvec2; +@@ -2639,7 +2639,7 @@ ADD_DY yvec0, yvec15, yvec15; + MUL_DY yvec2, yvec1, yvec1; + ADD_DY yvec1, yvec14, yvec14; + +-#### Unroll time 2 #### ++//#### Unroll time 2 #### + LD_DY 8*SIZE(ptrba), yvec3; + LD_DY 12*SIZE(ptrba), yvec4; + BROAD_DY 1*SIZE(ptrbb), yvec5; +@@ -2660,7 +2660,7 @@ TEST $1, %rax; + JLE .L313_loopE; + ALIGN_5 + .L313_bodyB: +-#### Unroll time 1 #### ++//#### Unroll time 1 #### + LD_DY 0*SIZE(ptrba), yvec0; + LD_DY 4*SIZE(ptrba), yvec1; + BROAD_DY 0*SIZE(ptrbb), yvec2; +@@ -2672,17 +2672,17 @@ ADD_DY yvec1, yvec14, yvec14; + ADDQ $1*SIZE, ptrbb; + + .L313_loopE: +-#### Multiply Alpha #### ++//#### Multiply Alpha #### + BROAD_DY MEMALPHA, yvec7; + MUL_DY yvec7, yvec15, yvec15; + MUL_DY yvec7, yvec14, yvec14; +-#### Testing Alignment #### ++//#### Testing Alignment #### + MOVQ C0, %rax; + OR ldc, %rax; + TEST $15, %rax; + JNE .L313_loopEx; + ALIGN_5 +-#### Writing Back #### ++//#### Writing Back #### + EXTRA_DY $1, yvec15, xvec13; + EXTRA_DY $1, yvec14, xvec12; + #ifndef TRMMKERNEL +@@ -2762,7 +2762,7 @@ LEAQ (,%rax, SIZE), %rax; + LEAQ (ptrba, %rax, 4), ptrba; + ADDQ %rax, ptrbb; + #endif +-#### Initial Results Register #### ++//#### Initial Results Register #### + XOR_DY yvec15, yvec15, yvec15; + #ifndef TRMMKERNEL + MOVQ bk, k; +@@ -2847,16 +2847,16 @@ ADDQ $4*SIZE, ptrba; + ADDQ $1*SIZE, ptrbb; + + .L323_loopE: +-#### Multiply Alpha #### ++//#### Multiply Alpha #### + BROAD_DY MEMALPHA, yvec7; + MUL_DY yvec7, yvec15, yvec15; +-#### Testing Alignment #### ++//#### Testing Alignment #### + MOVQ C0, %rax; + OR ldc, %rax; + TEST $15, %rax; + JNE .L323_loopEx; + ALIGN_5 +-#### Writing Back #### ++//#### Writing Back #### + EXTRA_DY $1, yvec15, xvec14; + #ifndef TRMMKERNEL + ADD_DX 0*SIZE(C0), xvec15, xvec15; +@@ -2878,7 +2878,7 @@ ADDQ $4*SIZE, C0; + JMP .L32_loopE; + ALIGN_5 + .L323_loopEx: +-#### Writing Back #### ++//#### Writing Back #### + EXTRA_DY $1, yvec15, xvec14; + #ifndef TRMMKERNEL + LDL_DX 0*SIZE(C0), xvec13, xvec13; +@@ -2917,7 +2917,7 @@ LEAQ (, %rax, SIZE), %rax + LEAQ (ptrba, %rax, 2), ptrba + ADDQ %rax, ptrbb; + #endif +-#### Initial Result #### ++//#### Initial Result #### + XOR_DY yvec15, yvec15, yvec15; + #ifndef TRMMKERNEL + MOVQ bk, k; +@@ -3000,7 +3000,7 @@ ADD_DX xvec2, xvec15, xvec15; + ADDQ $2*SIZE, ptrba; + ADDQ $1*SIZE, ptrbb; + .L333_loopE: +-#### Multiply Alpha #### ++//#### Multiply Alpha #### + BROAD_DX MEMALPHA, xvec7; + MUL_DX xvec7, xvec15, xvec15; + #ifndef TRMMKERNEL +@@ -3119,7 +3119,7 @@ addq $1*SIZE, ptrba; + addq $1*SIZE, ptrbb; + + .L343_loopE: +-#### Writing Back #### ++//#### Writing Back #### + vmovsd MEMALPHA, xvec7; + vmulsd xvec7, xvec15, xvec15; + #ifndef TRMMKERNEL diff --git a/repos/forked/packages/openblas/openblas_append_lflags.patch b/repos/forked/packages/openblas/openblas_append_lflags.patch new file mode 100644 index 00000000..4ae1427c --- /dev/null +++ b/repos/forked/packages/openblas/openblas_append_lflags.patch @@ -0,0 +1,26 @@ +diff --git a/ctest/Makefile b/ctest/Makefile +index 0fb2450d28..9e85d23b96 100644 +--- a/ctest/Makefile ++++ b/ctest/Makefile +@@ -208,7 +208,7 @@ FLDFLAGS = $(FFLAGS:-fPIC=) $(LDFLAGS) + ifeq ($(USE_OPENMP), 1) + ifeq ($(F_COMPILER), GFORTRAN) + ifeq ($(C_COMPILER), CLANG) +-CEXTRALIB = -lomp ++CEXTRALIB += -lomp + endif + endif + ifeq ($(F_COMPILER), NAG) +diff --git a/test/Makefile b/test/Makefile +index 923f1537c2..46a7b11583 100644 +--- a/test/Makefile ++++ b/test/Makefile +@@ -265,7 +265,7 @@ FLDFLAGS = $(FFLAGS:-fPIC=) $(LDFLAGS) + ifeq ($(USE_OPENMP), 1) + ifeq ($(F_COMPILER), GFORTRAN) + ifeq ($(C_COMPILER), CLANG) +-CEXTRALIB = -lomp ++CEXTRALIB += -lomp + endif + endif + ifeq ($(F_COMPILER), NAG) \ No newline at end of file diff --git a/repos/forked/packages/openblas/openblas_appleclang11.patch b/repos/forked/packages/openblas/openblas_appleclang11.patch new file mode 100644 index 00000000..88fc14ae --- /dev/null +++ b/repos/forked/packages/openblas/openblas_appleclang11.patch @@ -0,0 +1,37 @@ +From 90dba9f71668c0de77b77f32462c78fbbd424db1 Mon Sep 17 00:00:00 2001 +From: Martin Kroeker +Date: Tue, 5 May 2020 10:44:50 +0200 +Subject: [PATCH] Duplicate earlier Clang 9.0.0 workaround for corresponding + Apple Clang version + +As discussed on the original PR #2329, the "Apple Clang 11.0.3" that appears to be based the same LLVM release produces the same miscompilation of this file. +--- + kernel/x86_64/dsymv_L_microk_skylakex-2.c | 7 ++++++- + 1 file changed, 6 insertions(+), 1 deletion(-) + +diff --git a/kernel/x86_64/dsymv_L_microk_skylakex-2.c b/kernel/x86_64/dsymv_L_microk_skylakex-2.c +index bdcd914fb..f0df5aaa8 100644 +--- a/kernel/x86_64/dsymv_L_microk_skylakex-2.c ++++ b/kernel/x86_64/dsymv_L_microk_skylakex-2.c +@@ -36,7 +36,9 @@ USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. + #if defined(__clang_patchlevel__) && __clang_major__ == 9 && __clang_minor__ == 0 && __clang_patchlevel__ == 0 + #pragma clang optimize off + #endif +- ++#if defined(__apple_build_version__) && __clang_major__ == 11 && __clang_minor__ == 0 && __clang_patchlevel__ == 3 ++#pragma clang optimize off ++#endif + static void dsymv_kernel_4x4(BLASLONG from, BLASLONG to, FLOAT **a, FLOAT *x, FLOAT *y, FLOAT *temp1, FLOAT *temp2) + { + +@@ -164,6 +166,9 @@ static void dsymv_kernel_4x4(BLASLONG from, BLASLONG to, FLOAT **a, FLOAT *x, FL + #if defined(__clang_patchlevel__) && __clang_major__ == 9 && __clang_minor__ == 0 && __clang_patchlevel__ == 0 + #pragma clang optimize on + #endif ++#if defined(__apple_build_version__) && __clang_major__ == 11 && __clang_minor__ == 0 && __clang_patchlevel__ == 3 ++#pragma clang optimize on ++#endif + + #else + #include "dsymv_L_microk_haswell-2.c" + diff --git a/repos/forked/packages/openblas/openblas_fujitsu.patch b/repos/forked/packages/openblas/openblas_fujitsu.patch new file mode 100644 index 00000000..2a2a9a34 --- /dev/null +++ b/repos/forked/packages/openblas/openblas_fujitsu.patch @@ -0,0 +1,14 @@ +--- OpenBLAS-0.3.6/f_check 2019-04-30 02:22:19.000000000 +0900 ++++ OpenBLAS-0.3.6/f_check_fix 2019-08-05 10:31:56.066962193 +0900 +@@ -69,7 +69,10 @@ + $bu = "_"; + } + +- if ($data =~ /GNU/) { ++ if ($data =~ /Fujitsu/) { ++ $vendor = FUJITSU; ++ $openmp = "-Kopenmp"; ++ } elsif ($data =~ /GNU/) { + + $data =~ /(\d)\.(\d).(\d)/; + $major = $1; diff --git a/repos/forked/packages/openblas/openblas_fujitsu2.patch b/repos/forked/packages/openblas/openblas_fujitsu2.patch new file mode 100644 index 00000000..bfda30cc --- /dev/null +++ b/repos/forked/packages/openblas/openblas_fujitsu2.patch @@ -0,0 +1,13 @@ +--- OpenBLAS-0.3.10/f_check 2020-07-04 00:02:19.000000000 +0900 ++++ OpenBLAS-0.3.10/f_check_fix 2020-07-04 00:00:52.000000000 +0900 +@@ -337,8 +337,8 @@ + && ($flags !~ /kernel32/) + && ($flags !~ /advapi32/) + && ($flags !~ /shell32/) +- && ($flags !~ /omp/ || ($vendor !~ /PGI/ && $flags =~ /omp/)) +- && ($flags !~ /[0-9]+/) ++ && ($flags !~ /omp/ || ($vendor !~ /PGI/ && $vendor !~ /FUJITSU/ && $flags =~ /omp/)) ++ && ($flags !~ /[0-9]+/ || ($vendor == FUJITSU && $flags =~ /^-lfj90/)) + && ($flags !~ /^\-l$/) + ) { + $linker_l .= $flags . " "; diff --git a/repos/forked/packages/openblas/openblas_fujitsu_v0.3.11.patch b/repos/forked/packages/openblas/openblas_fujitsu_v0.3.11.patch new file mode 100644 index 00000000..c23299fc --- /dev/null +++ b/repos/forked/packages/openblas/openblas_fujitsu_v0.3.11.patch @@ -0,0 +1,14 @@ +--- spack-src/f_check.org 2020-11-11 10:48:18.827643938 +0900 ++++ spack-src/f_check 2020-11-11 10:51:46.448618264 +0900 +@@ -69,7 +69,10 @@ + $bu = "_"; + } + +- if ($data =~ /GNU/ || $data =~ /GCC/ ) { ++ if ($data =~ /Fujitsu/) { ++ $vendor = FUJITSU; ++ $openmp = "-Kopenmp"; ++ } elsif ($data =~ /GNU/ || $data =~ /GCC/ ) { + + $data =~ /(\d+)\.(\d+).(\d+)/; + $major = $1; diff --git a/repos/forked/packages/openblas/openblas_icc.patch b/repos/forked/packages/openblas/openblas_icc.patch new file mode 100644 index 00000000..fb379aea --- /dev/null +++ b/repos/forked/packages/openblas/openblas_icc.patch @@ -0,0 +1,253 @@ +diff --git a/kernel/x86_64/cscal_microk_bulldozer-2.c b/kernel/x86_64/cscal_microk_bulldozer-2.c +index f470cf8..3abffc4 100644 +--- a/kernel/x86_64/cscal_microk_bulldozer-2.c ++++ b/kernel/x86_64/cscal_microk_bulldozer-2.c +@@ -120,7 +120,7 @@ static void cscal_kernel_16( BLASLONG n, FLOAT *alpha, FLOAT *x) + "r" (n), // 0 + "r" (x), // 1 + "r" (alpha) // 2 +- : "cc", "%0", "%1", ++ : "cc", //"%0", "%1", + "%xmm0", "%xmm1", "%xmm2", "%xmm3", + "%xmm4", "%xmm5", "%xmm6", "%xmm7", + "%xmm8", "%xmm9", "%xmm10", "%xmm11", +@@ -212,7 +212,7 @@ static void cscal_kernel_16_zero_r( BLASLONG n, FLOAT *alpha, FLOAT *x) + "r" (n), // 0 + "r" (x), // 1 + "r" (alpha) // 2 +- : "cc", "%0", "%1", ++ : "cc", //"%0", "%1", + "%xmm0", "%xmm1", "%xmm2", "%xmm3", + "%xmm4", "%xmm5", "%xmm6", "%xmm7", + "%xmm8", "%xmm9", "%xmm10", "%xmm11", +@@ -289,7 +289,7 @@ static void cscal_kernel_16_zero_i( BLASLONG n, FLOAT *alpha, FLOAT *x) + "r" (n), // 0 + "r" (x), // 1 + "r" (alpha) // 2 +- : "cc", "%0", "%1", ++ : "cc", //"%0", "%1", + "%xmm0", "%xmm1", "%xmm2", "%xmm3", + "%xmm4", "%xmm5", "%xmm6", "%xmm7", + "%xmm8", "%xmm9", "%xmm10", "%xmm11", +@@ -334,7 +334,7 @@ static void cscal_kernel_16_zero( BLASLONG n, FLOAT *alpha, FLOAT *x) + "r" (n), // 0 + "r" (x), // 1 + "r" (alpha) // 2 +- : "cc", "%0", "%1", ++ : "cc", //"%0", "%1", + "%xmm0", "%xmm1", "%xmm2", "%xmm3", + "%xmm4", "%xmm5", "%xmm6", "%xmm7", + "%xmm8", "%xmm9", "%xmm10", "%xmm11", +diff --git a/kernel/x86_64/cscal_microk_haswell-2.c b/kernel/x86_64/cscal_microk_haswell-2.c +index 0424de3..48e3395 100644 +--- a/kernel/x86_64/cscal_microk_haswell-2.c ++++ b/kernel/x86_64/cscal_microk_haswell-2.c +@@ -120,7 +120,7 @@ static void cscal_kernel_16( BLASLONG n, FLOAT *alpha, FLOAT *x) + "r" (n), // 0 + "r" (x), // 1 + "r" (alpha) // 2 +- : "cc", "0", "1", ++ : "cc", //"0", "1", + "%xmm0", "%xmm1", "%xmm2", "%xmm3", + "%xmm4", "%xmm5", "%xmm6", "%xmm7", + "%xmm8", "%xmm9", "%xmm10", "%xmm11", +@@ -212,7 +212,7 @@ static void cscal_kernel_16_zero_r( BLASLONG n, FLOAT *alpha, FLOAT *x) + "r" (n), // 0 + "r" (x), // 1 + "r" (alpha) // 2 +- : "cc", "0", "1", ++ : "cc", // "0", "1", + "%xmm0", "%xmm1", "%xmm2", "%xmm3", + "%xmm4", "%xmm5", "%xmm6", "%xmm7", + "%xmm8", "%xmm9", "%xmm10", "%xmm11", +@@ -289,7 +289,7 @@ static void cscal_kernel_16_zero_i( BLASLONG n, FLOAT *alpha, FLOAT *x) + "r" (n), // 0 + "r" (x), // 1 + "r" (alpha) // 2 +- : "cc", "%0", "%1", ++ : "cc", //"%0", "%1", + "%xmm0", "%xmm1", "%xmm2", "%xmm3", + "%xmm4", "%xmm5", "%xmm6", "%xmm7", + "%xmm8", "%xmm9", "%xmm10", "%xmm11", +@@ -334,7 +334,7 @@ static void cscal_kernel_16_zero( BLASLONG n, FLOAT *alpha, FLOAT *x) + "r" (n), // 0 + "r" (x), // 1 + "r" (alpha) // 2 +- : "cc", "0", "1", ++ : "cc", //"0", "1", + "%xmm0", "%xmm1", "%xmm2", "%xmm3", + "%xmm4", "%xmm5", "%xmm6", "%xmm7", + "%xmm8", "%xmm9", "%xmm10", "%xmm11", +diff --git a/kernel/x86_64/cscal_microk_steamroller-2.c b/kernel/x86_64/cscal_microk_steamroller-2.c +index 763e7ad..8346e17 100644 +--- a/kernel/x86_64/cscal_microk_steamroller-2.c ++++ b/kernel/x86_64/cscal_microk_steamroller-2.c +@@ -121,7 +121,7 @@ static void cscal_kernel_16( BLASLONG n, FLOAT *alpha, FLOAT *x) + "r" (n), // 0 + "r" (x), // 1 + "r" (alpha) // 2 +- : "cc", "0", "1", ++ : "cc", //"0", "1", + "%xmm0", "%xmm1", "%xmm2", "%xmm3", + "%xmm4", "%xmm5", "%xmm6", "%xmm7", + "%xmm8", "%xmm9", "%xmm10", "%xmm11", +@@ -213,7 +213,7 @@ static void cscal_kernel_16_zero_r( BLASLONG n, FLOAT *alpha, FLOAT *x) + "r" (n), // 0 + "r" (x), // 1 + "r" (alpha) // 2 +- : "cc", "0", "1", ++ : "cc", //"0", "1", + "%xmm0", "%xmm1", "%xmm2", "%xmm3", + "%xmm4", "%xmm5", "%xmm6", "%xmm7", + "%xmm8", "%xmm9", "%xmm10", "%xmm11", +@@ -290,7 +290,7 @@ static void cscal_kernel_16_zero_i( BLASLONG n, FLOAT *alpha, FLOAT *x) + "r" (n), // 0 + "r" (x), // 1 + "r" (alpha) // 2 +- : "cc", "%0", "%1", ++ : "cc", //"%0", "%1", + "%xmm0", "%xmm1", "%xmm2", "%xmm3", + "%xmm4", "%xmm5", "%xmm6", "%xmm7", + "%xmm8", "%xmm9", "%xmm10", "%xmm11", +@@ -335,7 +335,7 @@ static void cscal_kernel_16_zero( BLASLONG n, FLOAT *alpha, FLOAT *x) + "r" (n), // 0 + "r" (x), // 1 + "r" (alpha) // 2 +- : "cc", "0", "1", ++ : "cc", //"0", "1", + "%xmm0", "%xmm1", "%xmm2", "%xmm3", + "%xmm4", "%xmm5", "%xmm6", "%xmm7", + "%xmm8", "%xmm9", "%xmm10", "%xmm11", +diff --git a/kernel/x86_64/dscal.c b/kernel/x86_64/dscal.c +index bbc1c96..b6bde6c 100644 +--- a/kernel/x86_64/dscal.c ++++ b/kernel/x86_64/dscal.c +@@ -141,7 +141,7 @@ static void dscal_kernel_inc_8(BLASLONG n, FLOAT *alpha, FLOAT *x, BLASLONG inc_ + "r" (alpha), // 3 + "r" (inc_x), // 4 + "r" (inc_x3) // 5 +- : "cc", "%0", "%1", "%2", ++ : "cc", //"%0", "%1", "%2", + "%xmm0", "%xmm1", "%xmm2", "%xmm3", + "%xmm4", "%xmm5", "%xmm6", "%xmm7", + "%xmm8", "%xmm9", "%xmm10", "%xmm11", +diff --git a/kernel/x86_64/zscal_microk_bulldozer-2.c b/kernel/x86_64/zscal_microk_bulldozer-2.c +index 28fe734..03882d6 100644 +--- a/kernel/x86_64/zscal_microk_bulldozer-2.c ++++ b/kernel/x86_64/zscal_microk_bulldozer-2.c +@@ -120,7 +120,7 @@ static void zscal_kernel_8( BLASLONG n, FLOAT *alpha, FLOAT *x) + "r" (n), // 0 + "r" (x), // 1 + "r" (alpha) // 2 +- : "cc", "%0", "%1", ++ : "cc", //"%0", "%1", + "%xmm0", "%xmm1", "%xmm2", "%xmm3", + "%xmm4", "%xmm5", "%xmm6", "%xmm7", + "%xmm8", "%xmm9", "%xmm10", "%xmm11", +@@ -212,7 +212,7 @@ static void zscal_kernel_8_zero_r( BLASLONG n, FLOAT *alpha, FLOAT *x) + "r" (n), // 0 + "r" (x), // 1 + "r" (alpha) // 2 +- : "cc", "%0", "%1", ++ : "cc", //"%0", "%1", + "%xmm0", "%xmm1", "%xmm2", "%xmm3", + "%xmm4", "%xmm5", "%xmm6", "%xmm7", + "%xmm8", "%xmm9", "%xmm10", "%xmm11", +@@ -289,7 +289,7 @@ static void zscal_kernel_8_zero_i( BLASLONG n, FLOAT *alpha, FLOAT *x) + "r" (n), // 0 + "r" (x), // 1 + "r" (alpha) // 2 +- : "cc", "%0", "%1", ++ : "cc", //"%0", "%1", + "%xmm0", "%xmm1", "%xmm2", "%xmm3", + "%xmm4", "%xmm5", "%xmm6", "%xmm7", + "%xmm8", "%xmm9", "%xmm10", "%xmm11", +@@ -334,7 +334,7 @@ static void zscal_kernel_8_zero( BLASLONG n, FLOAT *alpha, FLOAT *x) + "r" (n), // 0 + "r" (x), // 1 + "r" (alpha) // 2 +- : "cc", "%0", "%1", ++ : "cc", //"%0", "%1", + "%xmm0", "%xmm1", "%xmm2", "%xmm3", + "%xmm4", "%xmm5", "%xmm6", "%xmm7", + "%xmm8", "%xmm9", "%xmm10", "%xmm11", +diff --git a/kernel/x86_64/zscal_microk_haswell-2.c b/kernel/x86_64/zscal_microk_haswell-2.c +index a93308e..b1a34c1 100644 +--- a/kernel/x86_64/zscal_microk_haswell-2.c ++++ b/kernel/x86_64/zscal_microk_haswell-2.c +@@ -120,7 +120,7 @@ static void zscal_kernel_8( BLASLONG n, FLOAT *alpha, FLOAT *x) + "r" (n), // 0 + "r" (x), // 1 + "r" (alpha) // 2 +- : "cc", "%0", "%1", ++ : "cc", //"%0", "%1", + "%xmm0", "%xmm1", "%xmm2", "%xmm3", + "%xmm4", "%xmm5", "%xmm6", "%xmm7", + "%xmm8", "%xmm9", "%xmm10", "%xmm11", +@@ -212,7 +212,7 @@ static void zscal_kernel_8_zero_r( BLASLONG n, FLOAT *alpha, FLOAT *x) + "r" (n), // 0 + "r" (x), // 1 + "r" (alpha) // 2 +- : "cc", "%0", "%1", ++ : "cc", //"%0", "%1", + "%xmm0", "%xmm1", "%xmm2", "%xmm3", + "%xmm4", "%xmm5", "%xmm6", "%xmm7", + "%xmm8", "%xmm9", "%xmm10", "%xmm11", +@@ -289,7 +289,7 @@ static void zscal_kernel_8_zero_i( BLASLONG n, FLOAT *alpha, FLOAT *x) + "r" (n), // 0 + "r" (x), // 1 + "r" (alpha) // 2 +- : "cc", "%0", "%1", ++ : "cc", //"%0", "%1", + "%xmm0", "%xmm1", "%xmm2", "%xmm3", + "%xmm4", "%xmm5", "%xmm6", "%xmm7", + "%xmm8", "%xmm9", "%xmm10", "%xmm11", +@@ -334,7 +334,7 @@ static void zscal_kernel_8_zero( BLASLONG n, FLOAT *alpha, FLOAT *x) + "r" (n), // 0 + "r" (x), // 1 + "r" (alpha) // 2 +- : "cc", "%0", "%1", ++ : "cc", //"%0", "%1", + "%xmm0", "%xmm1", "%xmm2", "%xmm3", + "%xmm4", "%xmm5", "%xmm6", "%xmm7", + "%xmm8", "%xmm9", "%xmm10", "%xmm11", +diff --git a/kernel/x86_64/zscal_microk_steamroller-2.c b/kernel/x86_64/zscal_microk_steamroller-2.c +index d611bf5..97b07ad 100644 +--- a/kernel/x86_64/zscal_microk_steamroller-2.c ++++ b/kernel/x86_64/zscal_microk_steamroller-2.c +@@ -121,7 +121,7 @@ static void zscal_kernel_8( BLASLONG n, FLOAT *alpha, FLOAT *x) + "r" (n), // 0 + "r" (x), // 1 + "r" (alpha) // 2 +- : "cc", "%0", "%1", ++ : "cc", //"%0", "%1", + "%xmm0", "%xmm1", "%xmm2", "%xmm3", + "%xmm4", "%xmm5", "%xmm6", "%xmm7", + "%xmm8", "%xmm9", "%xmm10", "%xmm11", +@@ -213,7 +213,7 @@ static void zscal_kernel_8_zero_r( BLASLONG n, FLOAT *alpha, FLOAT *x) + "r" (n), // 0 + "r" (x), // 1 + "r" (alpha) // 2 +- : "cc", "%0", "%1", ++ : "cc", //"%0", "%1", + "%xmm0", "%xmm1", "%xmm2", "%xmm3", + "%xmm4", "%xmm5", "%xmm6", "%xmm7", + "%xmm8", "%xmm9", "%xmm10", "%xmm11", +@@ -290,7 +290,7 @@ static void zscal_kernel_8_zero_i( BLASLONG n, FLOAT *alpha, FLOAT *x) + "r" (n), // 0 + "r" (x), // 1 + "r" (alpha) // 2 +- : "cc", "%0", "%1", ++ : "cc", //"%0", "%1", + "%xmm0", "%xmm1", "%xmm2", "%xmm3", + "%xmm4", "%xmm5", "%xmm6", "%xmm7", + "%xmm8", "%xmm9", "%xmm10", "%xmm11", +@@ -335,7 +335,7 @@ static void zscal_kernel_8_zero( BLASLONG n, FLOAT *alpha, FLOAT *x) + "r" (n), // 0 + "r" (x), // 1 + "r" (alpha) // 2 +- : "cc", "%0", "%1", ++ : "cc", //"%0", "%1", + "%xmm0", "%xmm1", "%xmm2", "%xmm3", + "%xmm4", "%xmm5", "%xmm6", "%xmm7", + "%xmm8", "%xmm9", "%xmm10", "%xmm11", diff --git a/repos/forked/packages/openblas/openblas_icc_fortran.patch b/repos/forked/packages/openblas/openblas_icc_fortran.patch new file mode 100644 index 00000000..54b38a29 --- /dev/null +++ b/repos/forked/packages/openblas/openblas_icc_fortran.patch @@ -0,0 +1,12 @@ +diff -Naur a/f_check b/f_check +--- a/f_check 2017-04-27 23:16:41.496684722 -0700 ++++ b/f_check 2017-04-27 23:22:38.330563534 -0700 +@@ -322,7 +322,7 @@ + } + + if ($vendor eq "INTEL"){ +- $linker_a .= "-lgfortran" ++ $linker_a .= "-lifcore" + } + + open(MAKEFILE, ">> $makefile") || die "Can't append $makefile"; diff --git a/repos/forked/packages/openblas/openblas_icc_fortran2.patch b/repos/forked/packages/openblas/openblas_icc_fortran2.patch new file mode 100644 index 00000000..64785d4f --- /dev/null +++ b/repos/forked/packages/openblas/openblas_icc_fortran2.patch @@ -0,0 +1,14 @@ +diff --git a/f_check b/f_check +index 79febfb..c9da6ed 100644 +--- a/f_check ++++ b/f_check +@@ -359,9 +359,6 @@ print MAKEFILE "NOFORTRAN=1\n" if $nofortran == 1; + + print CONFFILE "#define BUNDERSCORE\t$bu\n" if $bu ne ""; + print CONFFILE "#define NEEDBUNDERSCORE\t1\n" if $bu ne ""; +-print CONFFILE "#define NEED2UNDERSCORES\t1\n" if $need2bu ne ""; +- +-print MAKEFILE "NEED2UNDERSCORES=1\n" if $need2bu ne ""; + + if (($linker_l ne "") || ($linker_a ne "")) { + print MAKEFILE "FEXTRALIB=$linker_L $linker_l $linker_a\n"; diff --git a/repos/forked/packages/openblas/openblas_icc_openmp.patch b/repos/forked/packages/openblas/openblas_icc_openmp.patch new file mode 100644 index 00000000..f4f436c3 --- /dev/null +++ b/repos/forked/packages/openblas/openblas_icc_openmp.patch @@ -0,0 +1,27 @@ +diff -Naur a/Makefile.system b/Makefile.system +--- a/Makefile.system 2017-04-27 23:11:09.226514927 -0700 ++++ b/Makefile.system 2017-04-28 00:00:27.020649577 -0700 +@@ -415,7 +415,7 @@ + endif + + ifeq ($(C_COMPILER), INTEL) +-CCOMMON_OPT += -openmp ++CCOMMON_OPT += -qopenmp + endif + + ifeq ($(C_COMPILER), PGI) +@@ -639,13 +639,14 @@ + + ifeq ($(F_COMPILER), INTEL) + CCOMMON_OPT += -DF_INTERFACE_INTEL ++EXTRALIB += -lifcore + ifdef INTERFACE64 + ifneq ($(INTERFACE64), 0) + FCOMMON_OPT += -i8 + endif + endif + ifeq ($(USE_OPENMP), 1) +-FCOMMON_OPT += -openmp ++FCOMMON_OPT += -qopenmp + endif + endif diff --git a/repos/forked/packages/openblas/openblas_libomp_fork.patch b/repos/forked/packages/openblas/openblas_libomp_fork.patch new file mode 100644 index 00000000..b1f94da7 --- /dev/null +++ b/repos/forked/packages/openblas/openblas_libomp_fork.patch @@ -0,0 +1,13 @@ +diff --git a/utest/Makefile b/utest/Makefile +index f99035440c..eab9046574 100644 +--- a/utest/Makefile ++++ b/utest/Makefile +@@ -29,8 +29,11 @@ ifeq ($(OSNAME), $(filter $(OSNAME),Linux CYGWIN_NT)) + ifneq ($(USE_OPENMP), 1) + OBJS += test_fork.o + endif ++# LLVM's libomp throws an assertion when running the post fork test ++ifneq ($(C_COMPILER), CLANG) + OBJS += test_post_fork.o + endif ++endif diff --git a/repos/forked/packages/openblas/package.py b/repos/forked/packages/openblas/package.py new file mode 100644 index 00000000..3e5b9853 --- /dev/null +++ b/repos/forked/packages/openblas/package.py @@ -0,0 +1,632 @@ +# Copyright 2013-2024 Lawrence Livermore National Security, LLC and other +# Spack Project Developers. See the top-level COPYRIGHT file for details. +# +# SPDX-License-Identifier: (Apache-2.0 OR MIT) + +import os +import re + +import spack.build_systems.cmake +import spack.build_systems.makefile +from spack.package import * +from spack.package_test import compare_output_file, compile_c_and_execute + + +class Openblas(CMakePackage, MakefilePackage): + """OpenBLAS: An optimized BLAS library""" + + homepage = "https://www.openblas.net" + url = ( + "https://github.com/OpenMathLib/OpenBLAS/releases/download/v0.2.19/OpenBLAS-0.2.19.tar.gz" + ) + git = "https://github.com/OpenMathLib/OpenBLAS.git" + + libraries = ["libopenblas", "openblas"] + + license("BSD-3-Clause") + + version("develop", branch="develop") + version("0.3.28", sha256="f1003466ad074e9b0c8d421a204121100b0751c96fc6fcf3d1456bd12f8a00a1") + version("0.3.27", sha256="aa2d68b1564fe2b13bc292672608e9cdeeeb6dc34995512e65c3b10f4599e897") + version("0.3.26", sha256="4e6e4f5cb14c209262e33e6816d70221a2fe49eb69eaf0a06f065598ac602c68") + version("0.3.25", sha256="4c25cb30c4bb23eddca05d7d0a85997b8db6144f5464ba7f8c09ce91e2f35543") + version("0.3.24", sha256="ceadc5065da97bd92404cac7254da66cc6eb192679cf1002098688978d4d5132") + version("0.3.23", sha256="5d9491d07168a5d00116cdc068a40022c3455bf9293c7cb86a65b1054d7e5114") + version("0.3.22", sha256="7fa9685926ba4f27cfe513adbf9af64d6b6b63f9dcabb37baefad6a65ff347a7") + version("0.3.21", sha256="f36ba3d7a60e7c8bcc54cd9aaa9b1223dd42eaf02c811791c37e8ca707c241ca") + version("0.3.20", sha256="8495c9affc536253648e942908e88e097f2ec7753ede55aca52e5dead3029e3c") + version("0.3.19", sha256="947f51bfe50c2a0749304fbe373e00e7637600b0a47b78a51382aeb30ca08562") + version("0.3.18", sha256="1632c1e8cca62d8bed064b37747e331a1796fc46f688626337362bf0d16aeadb") + version("0.3.17", sha256="df2934fa33d04fd84d839ca698280df55c690c86a5a1133b3f7266fce1de279f") + version("0.3.16", sha256="fa19263c5732af46d40d3adeec0b2c77951b67687e670fb6ba52ea3950460d79") + version("0.3.15", sha256="30a99dec977594b387a17f49904523e6bc8dd88bd247266e83485803759e4bbe") + version("0.3.14", sha256="d381935d26f9cae8e4bbd7d7f278435adf8e3a90920edf284bb9ad789ee9ad60") + version("0.3.13", sha256="79197543b17cc314b7e43f7a33148c308b0807cd6381ee77f77e15acf3e6459e") + version("0.3.12", sha256="65a7d3a4010a4e3bd5c0baa41a234797cd3a1735449a4a5902129152601dc57b") + version("0.3.11", sha256="bc4617971179e037ae4e8ebcd837e46db88422f7b365325bd7aba31d1921a673") + version("0.3.10", sha256="0484d275f87e9b8641ff2eecaa9df2830cbe276ac79ad80494822721de6e1693") + version("0.3.9", sha256="17d4677264dfbc4433e97076220adc79b050e4f8a083ea3f853a53af253bc380") + version("0.3.8", sha256="8f86ade36f0dbed9ac90eb62575137388359d97d8f93093b38abe166ad7ef3a8") + version("0.3.7", sha256="bde136122cef3dd6efe2de1c6f65c10955bbb0cc01a520c2342f5287c28f9379") + version("0.3.6", sha256="e64c8fe083832ffbc1459ab6c72f71d53afd3b36e8497c922a15a06b72e9002f") + version("0.3.5", sha256="0950c14bd77c90a6427e26210d6dab422271bc86f9fc69126725833ecdaa0e85") + version("0.3.4", sha256="4b4b4453251e9edb5f57465bf2b3cf67b19d811d50c8588cdf2ea1f201bb834f") + version("0.3.3", sha256="49d88f4494ae780e3d7fa51769c00d982d7cdb73e696054ac3baa81d42f13bab") + version("0.3.2", sha256="e8ba64f6b103c511ae13736100347deb7121ba9b41ba82052b1a018a65c0cb15") + version("0.3.1", sha256="1f5e956f35f3acdd3c74516e955d797a320c2e0135e31d838cbdb3ea94d0eb33") + version("0.3.0", sha256="cf51543709abe364d8ecfb5c09a2b533d2b725ea1a66f203509b21a8e9d8f1a1") + version("0.2.20", sha256="5ef38b15d9c652985774869efd548b8e3e972e1e99475c673b25537ed7bcf394") + version("0.2.19", sha256="9c40b5e4970f27c5f6911cb0a28aa26b6c83f17418b69f8e5a116bb983ca8557") + version("0.2.18", sha256="7d9f8d4ea4a65ab68088f3bb557f03a7ac9cb5036ef2ba30546c3a28774a4112") + version("0.2.17", sha256="0fe836dfee219ff4cadcc3567fb2223d9e0da5f60c7382711fb9e2c35ecf0dbf") + version("0.2.16", sha256="766f350d0a4be614812d535cead8c816fc3ad3b9afcd93167ea5e4df9d61869b") + version("0.2.15", sha256="73c40ace5978282224e5e122a41c8388c5a19e65a6f2329c2b7c0b61bacc9044") + + variant( + "fortran", + default=True, + when="@0.3.21:", + description="w/o a Fortran compiler, OpenBLAS will build an f2c-converted LAPACK", + ) + + variant("ilp64", default=False, description="Force 64-bit Fortran native integers") + variant("pic", default=True, description="Build position independent code") + variant("shared", default=True, description="Build shared libraries") + variant( + "dynamic_dispatch", + default=True, + description="Enable runtime cpu detection for best kernel selection", + ) + variant( + "consistent_fpcsr", + default=False, + description="Synchronize FP CSR between threads (x86/x86_64 only)", + ) + variant( + "bignuma", + default=False, + description="Enable experimental support for up to 1024 CPUs/Cores and 128 numa nodes", + ) + variant("symbol_suffix", default="none", description="Set a symbol suffix") + + variant("locking", default=True, description="Build with thread safety") + variant( + "threads", + default="none", + description="Multithreading support", + values=("pthreads", "openmp", "none"), + multi=False, + ) + + # virtual dependency + provides("blas", "lapack") + provides("lapack@3.9.1:", when="@0.3.15:") + provides("lapack@3.7.0", when="@0.2.20") + + depends_on("c", type="build") + depends_on("cxx", type="build") + depends_on("fortran", type="build") + depends_on("perl", when="@:0.3.20", type="build") + + # https://github.com/OpenMathLib/OpenBLAS/pull/4879 + patch("openblas-0.3.28-thread-buffer.patch", when="@0.3.28") + + # https://github.com/OpenMathLib/OpenBLAS/pull/4328 + patch("xcode15-fortran.patch", when="@0.3.25 %apple-clang@15:") + + # https://github.com/xianyi/OpenBLAS/pull/2519/files + patch("ifort-msvc.patch", when="%msvc") + + # https://github.com/OpenMathLib/OpenBLAS/pull/3712 + patch("cce.patch", when="@0.3.20 %cce") + + # https://github.com/OpenMathLib/OpenBLAS/pull/3778 + patch("fix-cray-fortran-detection-pr3778.patch", when="@0.3.21") + + # https://github.com/spack/spack/issues/31732 + patch("f_check-oneapi.patch", when="@0.3.20 %oneapi") + patch("f_check-intel.patch", when="@0.3.21 %intel") + + # OpenBLAS >=3.0 has an official way to disable internal parallel builds + patch("make.patch", when="@0.2.16:0.2.20") + # This patch is in a pull request to OpenBLAS that has not been handled + # https://github.com/OpenMathLib/OpenBLAS/pull/915 + # UPD: the patch has been merged starting version 0.2.20 + patch("openblas_icc.patch", when="@:0.2.19%intel") + patch("openblas_icc_openmp.patch", when="@:0.2.20%intel@16.0:") + patch("openblas_icc_fortran.patch", when="@:0.3.14%intel@16.0:") + patch("openblas_icc_fortran2.patch", when="@:0.3.14%intel@18.0:") + # See https://github.com/spack/spack/issues/15385 + patch("lapack-0.3.9-xerbl.patch", when="@0.3.8:0.3.9 %intel") + + # Fixes compilation error on POWER8 with GCC 7 + # https://github.com/OpenMathLib/OpenBLAS/pull/1098 + patch("power8.patch", when="@0.2.18:0.2.19 %gcc@7.1.0: target=power8") + + # Change file comments to work around clang 3.9 assembler bug + # https://github.com/OpenMathLib/OpenBLAS/pull/982 + patch("openblas0.2.19.diff", when="@0.2.19") + + # Fix CMake export symbol error + # https://github.com/OpenMathLib/OpenBLAS/pull/1703 + patch("openblas-0.3.2-cmake.patch", when="@0.3.1:0.3.2") + + # Disable experimental TLS code that lead to many threading issues + # https://github.com/OpenMathLib/OpenBLAS/issues/1735#issuecomment-422954465 + # https://github.com/OpenMathLib/OpenBLAS/issues/1761#issuecomment-421039174 + # https://github.com/OpenMathLib/OpenBLAS/pull/1765 + patch( + "https://github.com/OpenMathLib/OpenBLAS/commit/4d183e5567346f80f2ef97eb98f8601c47f8cb56.patch?full_index=1", + sha256="9b02860bd78252ed9f09abb65a62fff22c0aeca002757d503f5b643a11b744bf", + when="@0.3.3", + ) + + # Fix parallel build issues on filesystems + # with missing sub-second timestamp resolution + patch( + "https://github.com/OpenMathLib/OpenBLAS/commit/79ea839b635d1fd84b6ce8a47e086f01d64198e6.patch?full_index=1", + sha256="1cbadd897d037e6015384aaad70efe0d9eac4382482ee01e3fbe89cde2a1ebea", + when="@0.3.0:0.3.3", + ) + + # Fix https://github.com/OpenMathLib/OpenBLAS/issues/2431 + # Patch derived from https://github.com/OpenMathLib/OpenBLAS/pull/2424 + patch("openblas-0.3.8-darwin.patch", when="@0.3.8 platform=darwin") + # Fix ICE in LLVM 9.0.0 https://github.com/OpenMathLib/OpenBLAS/pull/2329 + # Patch as in https://github.com/OpenMathLib/OpenBLAS/pull/2597 + patch("openblas_appleclang11.patch", when="@0.3.8:0.3.9 %apple-clang@11.0.3") + # There was an error in Reference-LAPACK that is triggeret by Xcode12 + # fixed upstream by https://github.com/OpenMathLib/OpenBLAS/pull/2808 and + # should be included in post 0.3.10 versions. Application to earlier + # versions was not tested. + # See also https://github.com/OpenMathLib/OpenBLAS/issues/2870 + patch( + "https://github.com/OpenMathLib/OpenBLAS/commit/f42e84d46c52f4ee1e05af8f365cd85de8a77b95.patch?full_index=1", + sha256="d38396ed602c3b655ad8cfc3d70b72726c567643578bf65466527f3a57bbd495", + when="@0.3.8:0.3.10 %apple-clang@12.0.0:", + ) + + # Add conditions to f_check to determine the Fujitsu compiler + # See https://github.com/OpenMathLib/OpenBLAS/pull/3010 + # UPD: the patch has been merged starting version 0.3.13 + patch("openblas_fujitsu.patch", when="@:0.3.10 %fj") + patch("openblas_fujitsu_v0.3.11.patch", when="@0.3.11:0.3.12 %fj") + patch("openblas_fujitsu2.patch", when="@0.3.10:0.3.12 %fj") + + # Use /usr/bin/env perl in build scripts + patch("0001-use-usr-bin-env-perl.patch", when="@:0.3.13") + + # Declare external functions in linktest + # See + patch("linktest.patch", when="@0.3.20") + + # Fix build on ARM Neoverse N1 when using gcc@:9. The 1st patch is context for the 2nd patch: + patch( + "https://github.com/OpenMathLib/OpenBLAS/commit/68277282df4adaafaf9b4a01c2eeb629eed99528.patch?full_index=1", + sha256="a4c642fbaeafbf4178558368212594e99c74a7b6c2a119fd0627f7b54f1ebfb3", + when="@0.3.21 %gcc@:9", + ) + # gcc@:9 doesn't support sve2 and bf16 architecture features, apply upstream fix: + patch( + "https://github.com/OpenMathLib/OpenBLAS/commit/c957ad684ed6b8ca64f332221b376f2ad0fdc51a.patch?full_index=1", + sha256="c20f5188a9145395c37c22ae5c1f72bfc24edfbccbb636cc8f9227345615daa8", + when="@0.3.21 %gcc@:9", + ) + + # Some installations of clang and libomp have non-standard locations for + # libomp. OpenBLAS adds the correct linker flags but overwrites the + # variables in a couple places, causing link-time failures. + patch("openblas_append_lflags.patch", when="@:0.3.23 threads=openmp") + + # Some builds of libomp on certain systems cause test failures related to + # forking, so disable the specific test that's failing. This is currently + # an open issue upstream: + # https://github.com/llvm/llvm-project/issues/63908 + patch("openblas_libomp_fork.patch", when="%clang@15:") + + # Fix build on A64FX for OpenBLAS v0.3.24 + patch( + "https://github.com/OpenMathLib/OpenBLAS/commit/90231bfc4e4afc51f67c248328fbef0cecdbd2c2.patch?full_index=1", + sha256="139e314f3408dc5c080d28887471f382e829d1bd06c8655eb72593e4e7b921cc", + when="@0.3.24 target=a64fx", + ) + + # Disable -fp-model=fast default on OneAPI (https://github.com/OpenMathLib/OpenBLAS/issues/4713) + patch( + "https://github.com/OpenMathLib/OpenBLAS/commit/834e633d796ba94ecb892acb32b6cdcee4e3771d.patch?full_index=1", + sha256="3e165d8cba4023cb2082b241eee41287dd6cbb66078c5e3cb5d246081b361ff3", + when="@0.3.27 %oneapi", + ) + + # See https://github.com/spack/spack/issues/19932#issuecomment-733452619 + # Notice: fixed on Amazon Linux GCC 7.3.1 (which is an unofficial version + # as GCC only has major.minor releases. But the bound :7.3.0 doesn't hurt) + conflicts("%gcc@7:7.3.0,8:8.2", when="@0.3.11:") + + # See https://github.com/OpenMathLib/OpenBLAS/issues/3074 + conflicts("%gcc@:10.1", when="@0.3.13 target=ppc64le:") + + # See https://github.com/spack/spack/issues/3036 + conflicts("%intel@16", when="@0.2.15:0.2.19") + + conflicts( + "+consistent_fpcsr", + when="threads=none", + msg="FPCSR consistency only applies to multithreading", + ) + + conflicts("threads=pthreads", when="~locking", msg="Pthread support requires +locking") + conflicts("threads=openmp", when="%apple-clang", msg="Apple's clang does not support OpenMP") + conflicts( + "threads=openmp @:0.2.19", + when="%clang", + msg="OpenBLAS @:0.2.19 does not support OpenMP with clang!", + ) + # See https://github.com/OpenMathLib/OpenBLAS/issues/2826#issuecomment-688399162 + conflicts( + "+dynamic_dispatch", + when="platform=windows", + msg="Visual Studio does not support OpenBLAS dynamic dispatch features", + ) + + conflicts("target=x86_64_v4:", when="%intel@2021") + + build_system("makefile", "cmake", default="makefile") + + def flag_handler(self, name, flags): + spec = self.spec + if name == "cflags": + if spec.satisfies("@0.3.20: %oneapi") or spec.satisfies("@0.3.20: %arm"): + flags.append("-Wno-error=implicit-function-declaration") + return (flags, None, None) + + @classmethod + def determine_version(cls, lib): + ver = None + for ext in library_extensions: + match = re.search(r"lib(\S*?)-r(\d+\.\d+\.\d+)\.%s" % ext, lib) + if match: + ver = match.group(2) + return ver + + @property + def parallel(self): + # unclear whether setting `-j N` externally was supported before 0.3 + return self.spec.version >= Version("0.3.0") + + @run_before("edit") + def check_compilers(self): + # As of 06/2016 there is no mechanism to specify that packages which + # depends on Blas/Lapack need C or/and Fortran symbols. For now + # require both. + # As of 08/2022 (0.3.21), we can build purely with a C compiler using + # a f2c translated LAPACK version + # https://github.com/xianyi/OpenBLAS/releases/tag/v0.3.21 + if self.compiler.fc is None and "~fortran" not in self.spec: + raise InstallError( + self.compiler.cc + + " has no Fortran compiler added in spack. Add it or use openblas~fortran!" + ) + + @property + def headers(self): + # The only public headers for cblas and lapacke in + # openblas are cblas.h and lapacke.h. The remaining headers are private + # headers either included in one of these two headers, or included in + # one of the source files implementing functions declared in these + # headers. + return find_headers(["cblas", "lapacke"], self.prefix.include) + + @property + def libs(self): + spec = self.spec + + # Look for openblas{symbol_suffix} + name = ["libopenblas", "openblas"] + search_shared = bool(spec.variants["shared"].value) + suffix = spec.variants["symbol_suffix"].value + if suffix != "none": + name = [x + suffix for x in name] + + return find_libraries(name, spec.prefix, shared=search_shared, recursive=True) + + +class MakefileBuilder(spack.build_systems.makefile.MakefileBuilder): + @staticmethod + def _read_targets(target_file): + """Parse a list of available targets from the OpenBLAS/TargetList.txt + file. + """ + micros = [] + re_target = re.compile(r"^[A-Z0-9_]+$") + for line in target_file: + match = re_target.match(line) + if match is not None: + micros.append(line.strip().lower()) + + return micros + + def _microarch_target_args(self): + """Given a spack microarchitecture and a list of targets found in + OpenBLAS' TargetList.txt, determine the best command-line arguments. + """ + # Read available openblas targets + targetlist_name = join_path(self.stage.source_path, "TargetList.txt") + if os.path.exists(targetlist_name): + with open(targetlist_name) as f: + available_targets = self._read_targets(f) + else: + available_targets = [] + + # Get our build microarchitecture + microarch = self.spec.target + + # We need to detect whether the target supports SVE before the magic for + # loop below which would change the value of `microarch`. + has_sve = ( + self.spec.satisfies("@0.3.19:") + and microarch.family == "aarch64" + and "sve" in microarch + # Exclude A64FX, which has its own special handling in OpenBLAS. + and microarch.name != "a64fx" + ) + + # List of arguments returned by this function + args = [] + + # List of available architectures, and possible aliases + openblas_arch = set( + ["alpha", "arm", "ia64", "mips", "mips64", "power", "riscv64", "sparc", "zarch"] + ) + openblas_arch_map = { + "amd64": "x86_64", + "powerpc64": "power", + "i386": "x86", + "aarch64": "arm64", + } + openblas_arch.update(openblas_arch_map.keys()) + openblas_arch.update(openblas_arch_map.values()) + + # Add spack-only microarchitectures to list + skylake = set(["skylake", "skylake_avx512"]) + available_targets = set(available_targets) | skylake | openblas_arch + + # Find closest ancestor that is known to build in blas + if microarch.name not in available_targets: + for microarch in microarch.ancestors: + if microarch.name in available_targets: + break + + if self.spec.version >= Version("0.3"): + # 'ARCH' argument causes build errors in older OpenBLAS + # see https://github.com/spack/spack/issues/15385 + arch_name = microarch.family.name + if arch_name in openblas_arch: + # Apply possible spack->openblas arch name mapping + arch_name = openblas_arch_map.get(arch_name, arch_name) + args.append("ARCH=" + arch_name) + + if has_sve: + # Check this before testing the value of `microarch`, which may have + # been altered by the magic for loop above. If SVE is available + # (but target isn't A64FX which is treated specially below), use the + # `ARMV8SVE` OpenBLAS target. + args.append("TARGET=ARMV8SVE") + + elif microarch.vendor == "generic" and microarch.name != "riscv64": + # User requested a generic platform, or we couldn't find a good + # match for the requested one. Allow OpenBLAS to determine + # an optimized kernel at run time, including older CPUs, while + # forcing it not to add flags for the current host compiler. + if self.spec.satisfies("target=x86_64_v2"): + args.append("TARGET=NEHALEM") + elif self.spec.satisfies("target=x86_64_v3"): + args.append("TARGET=HASWELL") + else: + args.append("DYNAMIC_ARCH=1") + if self.spec.version >= Version("0.3.12"): + # These are necessary to prevent OpenBLAS from targeting the + # host architecture on newer version of OpenBLAS, but they + # cause build errors on 0.3.5 . + args.extend(["DYNAMIC_OLDER=1", "TARGET=GENERIC"]) + + elif microarch.name in skylake: + # Special case for renaming skylake family + args.append("TARGET=SKYLAKEX") + if microarch.name == "skylake": + # Special case for disabling avx512 instructions + args.append("NO_AVX512=1") + + elif microarch.name == "riscv64": + # Special case for renaming the generic riscv64 uarch to the + # corresponding OpenBLAS target. riscv64 does not yet support + # DYNAMIC_ARCH or TARGET=GENERIC. Once it does, this special + # case can go away. + args.append("TARGET=" + "RISCV64_GENERIC") + + elif self.spec.satisfies("@0.3.19: target=a64fx"): + # Special case for Fujitsu's A64FX + if any(self.spec.satisfies(i) for i in ["%gcc@11:", "%clang", "%fj"]): + args.append("TARGET=A64FX") + else: + # fallback to armv8-a+sve without -mtune=a64fx flag + args.append("TARGET=ARMV8SVE") + + else: + args.append("TARGET=" + microarch.name.upper()) + + return args + + def setup_build_environment(self, env): + # When building OpenBLAS with threads=openmp, `make all` + # runs tests, so we set the max number of threads at runtime + # accordingly + if self.spec.satisfies("threads=openmp"): + env.set("OMP_NUM_THREADS", str(make_jobs)) + elif self.spec.satisfies("threads=pthreads"): + env.set("OPENBLAS_NUM_THREADS", str(make_jobs)) + + @property + def make_defs(self): + # Configure fails to pick up fortran from FC=/abs/path/to/fc, but + # works fine with FC=/abs/path/to/gfortran. + # When mixing compilers make sure that + # $SPACK_ROOT/lib/spack/env/ have symlinks with reasonable + # names and hack them inside lib/spack/spack/compilers/.py + make_defs = ["CC={0}".format(spack_cc)] + if "~fortran" not in self.spec: + make_defs += ["FC={0}".format(spack_fc)] + + # force OpenBLAS to use externally defined parallel build + if self.spec.version < Version("0.3"): + make_defs.append("MAKE_NO_J=1") # flag defined by our make.patch + else: + make_defs.append("MAKE_NB_JOBS=0") # flag provided by OpenBLAS + + # Add target and architecture flags + make_defs += self._microarch_target_args() + + if self.spec.satisfies("+dynamic_dispatch"): + make_defs += ["DYNAMIC_ARCH=1"] + + # Fortran-free compilation + if "~fortran" in self.spec: + make_defs += ["NOFORTRAN=1"] + + if "~shared" in self.spec: + if "+pic" in self.spec: + make_defs.append("CFLAGS={0}".format(self.pkg.compiler.cc_pic_flag)) + if "~fortran" not in self.spec: + make_defs.append("FFLAGS={0}".format(self.pkg.compiler.f77_pic_flag)) + make_defs += ["NO_SHARED=1"] + # fix missing _dggsvd_ and _sggsvd_ + if self.spec.satisfies("@0.2.16"): + make_defs += ["BUILD_LAPACK_DEPRECATED=1"] + + # serial, but still thread-safe version + if self.spec.satisfies("@0.3.7:"): + if "+locking" in self.spec: + make_defs += ["USE_LOCKING=1"] + else: + make_defs += ["USE_LOCKING=0"] + + # Add support for multithreading + if self.spec.satisfies("threads=openmp"): + make_defs += ["USE_OPENMP=1", "USE_THREAD=1"] + elif self.spec.satisfies("threads=pthreads"): + make_defs += ["USE_OPENMP=0", "USE_THREAD=1"] + else: + make_defs += ["USE_OPENMP=0", "USE_THREAD=0"] + + # 64bit ints + if "+ilp64" in self.spec: + make_defs += ["INTERFACE64=1"] + + suffix = self.spec.variants["symbol_suffix"].value + if suffix != "none": + make_defs += ["SYMBOLSUFFIX={0}".format(suffix)] + + # Synchronize floating-point control and status register (FPCSR) + # between threads (x86/x86_64 only). + if "+consistent_fpcsr" in self.spec: + make_defs += ["CONSISTENT_FPCSR=1"] + + # Flang/f18 does not provide ETIME as an intrinsic. + # Do not set TIMER variable if fortran is disabled. + if self.spec.satisfies("+fortran%clang"): + make_defs.append("TIMER=INT_CPU_TIME") + + # Prevent errors in `as` assembler from newer instructions + if self.spec.satisfies("%gcc@:4.8.4"): + make_defs.append("NO_AVX2=1") + + # Fujitsu Compiler dose not add Fortran runtime in rpath. + if self.spec.satisfies("%fj"): + make_defs.append("LDFLAGS=-lfj90i -lfj90f -lfjsrcinfo -lelf") + + # Newer versions of openblas will try to find ranlib in the compiler's + # prefix, for instance, .../lib/spack/env/gcc/ranlib, which will fail. + if self.spec.satisfies("@0.3.13:"): + make_defs.append("RANLIB=ranlib") + + if self.spec.satisfies("+bignuma"): + make_defs.append("BIGNUMA=1") + + if not self.spec.satisfies("target=x86_64_v4:"): + make_defs.append("NO_AVX512=1") + + # Avoid that NUM_THREADS gets initialized with the host's number of CPUs. + if self.spec.satisfies("threads=openmp") or self.spec.satisfies("threads=pthreads"): + make_defs.append("NUM_THREADS=512") + + return make_defs + + @property + def build_targets(self): + return ["-s"] + self.make_defs + ["all"] + + @run_after("build") + @on_package_attributes(run_tests=True) + def check_build(self): + make("tests", *self.make_defs, parallel=False) + + @property + def install_targets(self): + make_args = ["install", "PREFIX={0}".format(self.prefix)] + return make_args + self.make_defs + + @run_after("install") + @on_package_attributes(run_tests=True) + def check_install(self): + spec = self.spec + # Openblas may pass its own test but still fail to compile Lapack + # symbols. To make sure we get working Blas and Lapack, do a small + # test. + source_file = join_path(os.path.dirname(self.pkg.module.__file__), "test_cblas_dgemm.c") + blessed_file = join_path( + os.path.dirname(self.pkg.module.__file__), "test_cblas_dgemm.output" + ) + + include_flags = spec["openblas"].headers.cpp_flags + link_flags = spec["openblas"].libs.ld_flags + if self.pkg.compiler.name == "intel": + link_flags += " -lifcore" + if self.spec.satisfies("threads=pthreads"): + link_flags += " -lpthread" + if spec.satisfies("threads=openmp"): + link_flags += " -lpthread " + self.pkg.compiler.openmp_flag + + output = compile_c_and_execute(source_file, [include_flags], link_flags.split()) + compare_output_file(output, blessed_file) + + +class CMakeBuilder(spack.build_systems.cmake.CMakeBuilder): + def cmake_args(self): + cmake_defs = [ + self.define("TARGET", "GENERIC"), + # ensure MACOSX_RPATH is set + self.define("CMAKE_POLICY_DEFAULT_CMP0042", "NEW"), + ] + + if self.spec.satisfies("+dynamic_dispatch"): + cmake_defs += [self.define("DYNAMIC_ARCH", "ON")] + if self.spec.satisfies("platform=windows"): + cmake_defs += [ + self.define("DYNAMIC_ARCH", "OFF"), + self.define("BUILD_WITHOUT_LAPACK", "ON"), + ] + + if "~fortran" in self.spec: + cmake_defs += [self.define("NOFORTRAN", "ON")] + + if "+shared" in self.spec: + cmake_defs += [self.define("BUILD_SHARED_LIBS", "ON")] + + if self.spec.satisfies("threads=openmp"): + cmake_defs += [self.define("USE_OPENMP", "ON"), self.define("USE_THREAD", "ON")] + elif self.spec.satisfies("threads=pthreads"): + cmake_defs += [self.define("USE_OPENMP", "OFF"), self.define("USE_THREAD", "ON")] + else: + cmake_defs += [self.define("USE_OPENMP", "OFF"), self.define("USE_THREAD", "OFF")] + + return cmake_defs diff --git a/repos/forked/packages/openblas/power8.patch b/repos/forked/packages/openblas/power8.patch new file mode 100644 index 00000000..b89c044c --- /dev/null +++ b/repos/forked/packages/openblas/power8.patch @@ -0,0 +1,7809 @@ +diff --git a/kernel/power/casum.c b/kernel/power/casum.c +index aeed0ca78..d1108581d 100644 +--- a/kernel/power/casum.c ++++ b/kernel/power/casum.c +@@ -53,7 +53,7 @@ USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. + + #ifndef HAVE_KERNEL_16 + +-static void casum_kernel_16(BLASLONG n, FLOAT *x1, FLOAT *svec) ++static FLOAT casum_kernel_16(BLASLONG n, FLOAT *x1) + { + + BLASLONG i=0; +@@ -92,11 +92,7 @@ static void casum_kernel_16(BLASLONG n, FLOAT *x1, FLOAT *svec) + + } + +- svec[0] = sum0+sum1+sum2+sum3; +- svec[1] = 0.0; +- svec[2] = 0.0; +- svec[3] = 0.0; +- ++ return sum0+sum1+sum2+sum3; + } + + #endif +@@ -106,7 +102,6 @@ FLOAT CNAME(BLASLONG n, FLOAT *x, BLASLONG inc_x) + BLASLONG i=0; + BLASLONG ip=0; + FLOAT sumf = 0.0; +- FLOAT svec[4] __attribute__ ((aligned (16)));; + BLASLONG n1; + BLASLONG inc_x2; + +@@ -119,8 +114,7 @@ FLOAT CNAME(BLASLONG n, FLOAT *x, BLASLONG inc_x) + if ( n1 > 0 ) + { + +- casum_kernel_16(n1, x, svec); +- sumf = svec[0] + svec[1]+svec[2]+svec[3]; ++ sumf = casum_kernel_16(n1, x); + i=n1; + ip = 2 * n1; + } +diff --git a/kernel/power/casum_microk_power8.c b/kernel/power/casum_microk_power8.c +index cb50234ce..38a114326 100644 +--- a/kernel/power/casum_microk_power8.c ++++ b/kernel/power/casum_microk_power8.c +@@ -34,144 +34,145 @@ USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. + **************************************************************************************/ + + #define HAVE_KERNEL_16 1 +-static void casum_kernel_16( BLASLONG n, FLOAT *x, FLOAT *svec) __attribute__ ((noinline)); + +-static void casum_kernel_16( BLASLONG n, FLOAT *x, FLOAT *svec) ++static float casum_kernel_16 (long n, float *x) + { +- +- +- BLASLONG i = n; +- BLASLONG o16 = 16; +- BLASLONG o32 = 32; +- BLASLONG o48 = 48; +- BLASLONG o64 = 64; +- BLASLONG o80 = 80; +- BLASLONG o96 = 96; +- BLASLONG o112 = 112; +- FLOAT *x1=x; +- BLASLONG pre = 384; +- +- __asm__ __volatile__ +- ( +- +- "dcbt %2 , %4 \n\t" +- +- "xxlxor 32,32,32 \n\t" +- "xxlxor 33,33,33 \n\t" +- "xxlxor 34,34,34 \n\t" +- "xxlxor 35,35,35 \n\t" +- "xxlxor 36,36,36 \n\t" +- "xxlxor 37,37,37 \n\t" +- "xxlxor 38,38,38 \n\t" +- "xxlxor 39,39,39 \n\t" +- +- "lxvw4x 40, 0, %2 \n\t" +- "lxvw4x 41, %5, %2 \n\t" +- "lxvw4x 42, %6, %2 \n\t" +- "lxvw4x 43, %7, %2 \n\t" +- "lxvw4x 44, %8, %2 \n\t" +- "lxvw4x 45, %9, %2 \n\t" +- "lxvw4x 46, %10, %2 \n\t" +- "lxvw4x 47, %11, %2 \n\t" +- +- "addi %2, %2, 128 \n\t" +- +- "addic. %0 , %0 , -16 \n\t" +- "ble 2f \n\t" +- +- ".align 5 \n\t" +- "1: \n\t" +- +- "dcbt %2 , %4 \n\t" +- +- "xvabssp 48, 40 \n\t" +- "xvabssp 49, 41 \n\t" +- "xvabssp 50, 42 \n\t" +- "xvabssp 51, 43 \n\t" +- +- "lxvw4x 40, 0, %2 \n\t" +- "lxvw4x 41, %5, %2 \n\t" +- +- "xvabssp 52, 44 \n\t" +- "xvabssp 53, 45 \n\t" +- +- "lxvw4x 42, %6, %2 \n\t" +- "lxvw4x 43, %7, %2 \n\t" +- +- "xvabssp 54, 46 \n\t" +- "xvabssp 55, 47 \n\t" +- +- "lxvw4x 44, %8, %2 \n\t" +- "lxvw4x 45, %9, %2 \n\t" +- +- "xvaddsp 32, 32, 48 \n\t" +- "xvaddsp 33, 33, 49 \n\t" +- +- "lxvw4x 46, %10, %2 \n\t" +- "lxvw4x 47, %11, %2 \n\t" +- +- "xvaddsp 34, 34, 50 \n\t" +- "xvaddsp 35, 35, 51 \n\t" +- "addi %2, %2, 128 \n\t" +- "xvaddsp 36, 36, 52 \n\t" +- "xvaddsp 37, 37, 53 \n\t" +- "addic. %0 , %0 , -16 \n\t" +- "xvaddsp 38, 38, 54 \n\t" +- "xvaddsp 39, 39, 55 \n\t" +- +- "bgt 1b \n\t" +- +- "2: \n\t" +- +- +- "xvabssp 48, 40 \n\t" +- "xvabssp 49, 41 \n\t" +- "xvabssp 50, 42 \n\t" +- "xvabssp 51, 43 \n\t" +- "xvabssp 52, 44 \n\t" +- "xvabssp 53, 45 \n\t" +- "xvabssp 54, 46 \n\t" +- "xvabssp 55, 47 \n\t" +- +- "xvaddsp 32, 32, 48 \n\t" +- "xvaddsp 33, 33, 49 \n\t" +- "xvaddsp 34, 34, 50 \n\t" +- "xvaddsp 35, 35, 51 \n\t" +- "xvaddsp 36, 36, 52 \n\t" +- "xvaddsp 37, 37, 53 \n\t" +- "xvaddsp 38, 38, 54 \n\t" +- "xvaddsp 39, 39, 55 \n\t" +- +- "xvaddsp 32, 32, 33 \n\t" +- "xvaddsp 34, 34, 35 \n\t" +- "xvaddsp 36, 36, 37 \n\t" +- "xvaddsp 38, 38, 39 \n\t" +- +- "xvaddsp 32, 32, 34 \n\t" +- "xvaddsp 36, 36, 38 \n\t" +- +- "xvaddsp 32, 32, 36 \n\t" +- +- +- "stxvw4x 32, 0, %3 \n\t" +- +- : +- : +- "r" (i), // 0 +- "r" (n), // 1 +- "r" (x1), // 2 +- "r" (svec), // 3 +- "r" (pre), // 4 +- "r" (o16), // 5 +- "r" (o32), // 6 +- "r" (o48), // 7 +- "r" (o64), // 8 +- "r" (o80), // 9 +- "r" (o96), // 10 +- "r" (o112) // 11 +- : "cr0", "%0", "%2", "memory" +- ); +- +-} +- +- ++ float sum; ++ __vector float t0; ++ __vector float t1; ++ __vector float t2; ++ __vector float t3; ++ ++ __asm__ ++ ( ++ "dcbt 0, %2 \n\t" ++ ++ "xxlxor 32, 32, 32 \n\t" ++ "xxlxor 33, 33, 33 \n\t" ++ "xxlxor 34, 34, 34 \n\t" ++ "xxlxor 35, 35, 35 \n\t" ++ "xxlxor 36, 36, 36 \n\t" ++ "xxlxor 37, 37, 37 \n\t" ++ "xxlxor 38, 38, 38 \n\t" ++ "xxlxor 39, 39, 39 \n\t" ++ ++ "lxvw4x 40, 0, %2 \n\t" ++ "lxvw4x 41, %8, %2 \n\t" ++ "lxvw4x 42, %9, %2 \n\t" ++ "lxvw4x 43, %10, %2 \n\t" ++ "lxvw4x 44, %11, %2 \n\t" ++ "lxvw4x 45, %12, %2 \n\t" ++ "lxvw4x 46, %13, %2 \n\t" ++ "lxvw4x 47, %14, %2 \n\t" ++ ++ "addi %2, %2, 128 \n\t" ++ ++ "addic. %1, %1, -16 \n\t" ++ "ble 2f \n\t" ++ ++ ".p2align 5 \n" ++ "1: \n\t" ++ ++ "xvabssp 48, 40 \n\t" ++ "xvabssp 49, 41 \n\t" ++ "xvabssp 50, 42 \n\t" ++ "xvabssp 51, 43 \n\t" ++ ++ "lxvw4x 40, 0, %2 \n\t" ++ "lxvw4x 41, %8, %2 \n\t" ++ ++ "xvabssp %x3, 44 \n\t" ++ "xvabssp %x4, 45 \n\t" ++ ++ "lxvw4x 42, %9, %2 \n\t" ++ "lxvw4x 43, %10, %2 \n\t" ++ ++ "xvabssp %x5, 46 \n\t" ++ "xvabssp %x6, 47 \n\t" ++ ++ "lxvw4x 44, %11, %2 \n\t" ++ "lxvw4x 45, %12, %2 \n\t" ++ ++ "xvaddsp 32, 32, 48 \n\t" ++ "xvaddsp 33, 33, 49 \n\t" ++ ++ "lxvw4x 46, %13, %2 \n\t" ++ "lxvw4x 47, %14, %2 \n\t" ++ ++ "xvaddsp 34, 34, 50 \n\t" ++ "xvaddsp 35, 35, 51 \n\t" ++ "addi %2, %2, 128 \n\t" ++ "xvaddsp 36, 36, %x3 \n\t" ++ "xvaddsp 37, 37, %x4 \n\t" ++ "addic. %1, %1, -16 \n\t" ++ "xvaddsp 38, 38, %x5 \n\t" ++ "xvaddsp 39, 39, %x6 \n\t" ++ ++ "bgt 1b \n" ++ ++ "2: \n\t" ++ ++ "xvabssp 48, 40 \n\t" ++ "xvabssp 49, 41 \n\t" ++ "xvabssp 50, 42 \n\t" ++ "xvabssp 51, 43 \n\t" ++ "xvabssp %x3, 44 \n\t" ++ "xvabssp %x4, 45 \n\t" ++ "xvabssp %x5, 46 \n\t" ++ "xvabssp %x6, 47 \n\t" ++ ++ "xvaddsp 32, 32, 48 \n\t" ++ "xvaddsp 33, 33, 49 \n\t" ++ "xvaddsp 34, 34, 50 \n\t" ++ "xvaddsp 35, 35, 51 \n\t" ++ "xvaddsp 36, 36, %x3 \n\t" ++ "xvaddsp 37, 37, %x4 \n\t" ++ "xvaddsp 38, 38, %x5 \n\t" ++ "xvaddsp 39, 39, %x6 \n\t" ++ ++ "xvaddsp 32, 32, 33 \n\t" ++ "xvaddsp 34, 34, 35 \n\t" ++ "xvaddsp 36, 36, 37 \n\t" ++ "xvaddsp 38, 38, 39 \n\t" ++ ++ "xvaddsp 32, 32, 34 \n\t" ++ "xvaddsp 36, 36, 38 \n\t" ++ ++ "xvaddsp 32, 32, 36 \n\t" ++ ++ "xxsldwi 33, 32, 32, 2 \n\t" ++ "xvaddsp 32, 32, 33 \n\t" ++ ++ "xxsldwi 33, 32, 32, 1 \n\t" ++ "xvaddsp 32, 32, 33 \n\t" ++ ++ "xscvspdp %0, 32 \n" ++ ++ "#n=%1 x=%3=%2 sum=%0 o16=%8 o32=%9 o48=%10 o64=%11 o80=%12 o96=%13 o112=%14\n" ++ "#t0=%x3 t1=%x4 t2=%x5 t3=%x6" ++ : ++ "=f" (sum), // 0 ++ "+r" (n), // 1 ++ "+b" (x), // 2 ++ "=wa" (t0), // 3 ++ "=wa" (t1), // 4 ++ "=wa" (t2), // 5 ++ "=wa" (t3) // 6 ++ : ++ "m" (*x), ++ "b" (16), // 8 ++ "b" (32), // 9 ++ "b" (48), // 10 ++ "b" (64), // 11 ++ "b" (80), // 12 ++ "b" (96), // 13 ++ "b" (112) // 14 ++ : ++ "cr0", ++ "vs32","vs33","vs34","vs35","vs36","vs37","vs38","vs39", ++ "vs40","vs41","vs42","vs43","vs44","vs45","vs46","vs47", ++ "vs48","vs49","vs50","vs51" ++ ); ++ ++ return sum; ++} +diff --git a/kernel/power/ccopy_microk_power8.c b/kernel/power/ccopy_microk_power8.c +index 95b3559ba..b2b1bead1 100644 +--- a/kernel/power/ccopy_microk_power8.c ++++ b/kernel/power/ccopy_microk_power8.c +@@ -35,140 +35,121 @@ USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. + + #define HAVE_KERNEL_32 1 + +-static void ccopy_kernel_32( BLASLONG n, FLOAT *x, FLOAT *y) __attribute__ ((noinline)); +- +-static void ccopy_kernel_32( BLASLONG n, FLOAT *x, FLOAT *y) ++static void ccopy_kernel_32 (long n, float *x, float *y) + { +- +- +- BLASLONG i = n; +- BLASLONG o16 = 16; +- BLASLONG o32 = 32; +- BLASLONG o48 = 48; +- BLASLONG o64 = 64; +- BLASLONG o80 = 80; +- BLASLONG o96 = 96; +- BLASLONG o112 = 112; +- FLOAT *x1=x; +- FLOAT *y1=y; +- BLASLONG pre = 384; +- BLASLONG alpha=0; +- +- __asm__ __volatile__ +- ( +- +- "lxvw4x 40, 0, %2 \n\t" +- "lxvw4x 41, %5, %2 \n\t" +- "lxvw4x 42, %6, %2 \n\t" +- "lxvw4x 43, %7, %2 \n\t" +- "lxvw4x 44, %8, %2 \n\t" +- "lxvw4x 45, %9, %2 \n\t" +- "lxvw4x 46, %10, %2 \n\t" +- "lxvw4x 47, %11, %2 \n\t" +- +- "addi %2, %2, 128 \n\t" +- +- "lxvw4x 50, 0, %2 \n\t" +- "lxvw4x 51, %5, %2 \n\t" +- "lxvw4x 52, %6, %2 \n\t" +- "lxvw4x 53, %7, %2 \n\t" +- "lxvw4x 54, %8, %2 \n\t" +- "lxvw4x 55, %9, %2 \n\t" +- "lxvw4x 56, %10, %2 \n\t" +- "lxvw4x 57, %11, %2 \n\t" +- +- "addi %2, %2, 128 \n\t" +- +- "addic. %0 , %0 , -32 \n\t" +- "ble 2f \n\t" +- +- ".align 5 \n\t" +- "1: \n\t" +- +- "stxvw4x 40, 0, %1 \n\t" +- "stxvw4x 41, %5, %1 \n\t" +- "lxvw4x 40, 0, %2 \n\t" +- "lxvw4x 41, %5, %2 \n\t" +- "stxvw4x 42, %6, %1 \n\t" +- "stxvw4x 43, %7, %1 \n\t" +- "lxvw4x 42, %6, %2 \n\t" +- "lxvw4x 43, %7, %2 \n\t" +- "stxvw4x 44, %8, %1 \n\t" +- "stxvw4x 45, %9, %1 \n\t" +- "lxvw4x 44, %8, %2 \n\t" +- "lxvw4x 45, %9, %2 \n\t" +- "stxvw4x 46, %10, %1 \n\t" +- "stxvw4x 47, %11, %1 \n\t" +- "lxvw4x 46, %10, %2 \n\t" +- "lxvw4x 47, %11, %2 \n\t" +- +- +- "addi %1, %1, 128 \n\t" +- "addi %2, %2, 128 \n\t" +- +- "stxvw4x 50, 0, %1 \n\t" +- "stxvw4x 51, %5, %1 \n\t" +- "lxvw4x 50, 0, %2 \n\t" +- "lxvw4x 51, %5, %2 \n\t" +- "stxvw4x 52, %6, %1 \n\t" +- "stxvw4x 53, %7, %1 \n\t" +- "lxvw4x 52, %6, %2 \n\t" +- "lxvw4x 53, %7, %2 \n\t" +- "stxvw4x 54, %8, %1 \n\t" +- "stxvw4x 55, %9, %1 \n\t" +- "lxvw4x 54, %8, %2 \n\t" +- "lxvw4x 55, %9, %2 \n\t" +- "stxvw4x 56, %10, %1 \n\t" +- "stxvw4x 57, %11, %1 \n\t" +- "lxvw4x 56, %10, %2 \n\t" +- "lxvw4x 57, %11, %2 \n\t" +- +- "addi %1, %1, 128 \n\t" +- "addi %2, %2, 128 \n\t" +- +- "addic. %0 , %0 , -32 \n\t" +- "bgt 1b \n\t" +- +- "2: \n\t" +- +- "stxvw4x 40, 0, %1 \n\t" +- "stxvw4x 41, %5, %1 \n\t" +- "stxvw4x 42, %6, %1 \n\t" +- "stxvw4x 43, %7, %1 \n\t" +- "stxvw4x 44, %8, %1 \n\t" +- "stxvw4x 45, %9, %1 \n\t" +- "stxvw4x 46, %10, %1 \n\t" +- "stxvw4x 47, %11, %1 \n\t" +- +- "addi %1, %1, 128 \n\t" +- +- "stxvw4x 50, 0, %1 \n\t" +- "stxvw4x 51, %5, %1 \n\t" +- "stxvw4x 52, %6, %1 \n\t" +- "stxvw4x 53, %7, %1 \n\t" +- "stxvw4x 54, %8, %1 \n\t" +- "stxvw4x 55, %9, %1 \n\t" +- "stxvw4x 56, %10, %1 \n\t" +- "stxvw4x 57, %11, %1 \n\t" +- +- +- : +- : +- "r" (i), // 0 +- "r" (y1), // 1 +- "r" (x1), // 2 +- "r" (alpha), // 3 +- "r" (pre), // 4 +- "r" (o16), // 5 +- "r" (o32), // 6 +- "r" (o48), // 7 +- "r" (o64), // 8 +- "r" (o80), // 9 +- "r" (o96), // 10 +- "r" (o112) // 11 +- : "cr0", "%0", "%2" , "%1", "memory" +- ); +- +-} +- +- ++ __asm__ ++ ( ++ "lxvw4x 32, 0, %2 \n\t" ++ "lxvw4x 33, %5, %2 \n\t" ++ "lxvw4x 34, %6, %2 \n\t" ++ "lxvw4x 35, %7, %2 \n\t" ++ "lxvw4x 36, %8, %2 \n\t" ++ "lxvw4x 37, %9, %2 \n\t" ++ "lxvw4x 38, %10, %2 \n\t" ++ "lxvw4x 39, %11, %2 \n\t" ++ ++ "addi %2, %2, 128 \n\t" ++ ++ "lxvw4x 40, 0, %2 \n\t" ++ "lxvw4x 41, %5, %2 \n\t" ++ "lxvw4x 42, %6, %2 \n\t" ++ "lxvw4x 43, %7, %2 \n\t" ++ "lxvw4x 44, %8, %2 \n\t" ++ "lxvw4x 45, %9, %2 \n\t" ++ "lxvw4x 46, %10, %2 \n\t" ++ "lxvw4x 47, %11, %2 \n\t" ++ ++ "addi %2, %2, 128 \n\t" ++ ++ "addic. %1, %1, -32 \n\t" ++ "ble 2f \n\t" ++ ++ ".p2align 5 \n" ++ "1: \n\t" ++ ++ "stxvw4x 32, 0, %3 \n\t" ++ "stxvw4x 33, %5, %3 \n\t" ++ "lxvw4x 32, 0, %2 \n\t" ++ "lxvw4x 33, %5, %2 \n\t" ++ "stxvw4x 34, %6, %3 \n\t" ++ "stxvw4x 35, %7, %3 \n\t" ++ "lxvw4x 34, %6, %2 \n\t" ++ "lxvw4x 35, %7, %2 \n\t" ++ "stxvw4x 36, %8, %3 \n\t" ++ "stxvw4x 37, %9, %3 \n\t" ++ "lxvw4x 36, %8, %2 \n\t" ++ "lxvw4x 37, %9, %2 \n\t" ++ "stxvw4x 38, %10, %3 \n\t" ++ "stxvw4x 39, %11, %3 \n\t" ++ "lxvw4x 38, %10, %2 \n\t" ++ "lxvw4x 39, %11, %2 \n\t" ++ ++ "addi %3, %3, 128 \n\t" ++ "addi %2, %2, 128 \n\t" ++ ++ "stxvw4x 40, 0, %3 \n\t" ++ "stxvw4x 41, %5, %3 \n\t" ++ "lxvw4x 40, 0, %2 \n\t" ++ "lxvw4x 41, %5, %2 \n\t" ++ "stxvw4x 42, %6, %3 \n\t" ++ "stxvw4x 43, %7, %3 \n\t" ++ "lxvw4x 42, %6, %2 \n\t" ++ "lxvw4x 43, %7, %2 \n\t" ++ "stxvw4x 44, %8, %3 \n\t" ++ "stxvw4x 45, %9, %3 \n\t" ++ "lxvw4x 44, %8, %2 \n\t" ++ "lxvw4x 45, %9, %2 \n\t" ++ "stxvw4x 46, %10, %3 \n\t" ++ "stxvw4x 47, %11, %3 \n\t" ++ "lxvw4x 46, %10, %2 \n\t" ++ "lxvw4x 47, %11, %2 \n\t" ++ ++ "addi %3, %3, 128 \n\t" ++ "addi %2, %2, 128 \n\t" ++ ++ "addic. %1, %1, -32 \n\t" ++ "bgt 1b \n" ++ ++ "2: \n\t" ++ ++ "stxvw4x 32, 0, %3 \n\t" ++ "stxvw4x 33, %5, %3 \n\t" ++ "stxvw4x 34, %6, %3 \n\t" ++ "stxvw4x 35, %7, %3 \n\t" ++ "stxvw4x 36, %8, %3 \n\t" ++ "stxvw4x 37, %9, %3 \n\t" ++ "stxvw4x 38, %10, %3 \n\t" ++ "stxvw4x 39, %11, %3 \n\t" ++ ++ "addi %3, %3, 128 \n\t" ++ ++ "stxvw4x 40, 0, %3 \n\t" ++ "stxvw4x 41, %5, %3 \n\t" ++ "stxvw4x 42, %6, %3 \n\t" ++ "stxvw4x 43, %7, %3 \n\t" ++ "stxvw4x 44, %8, %3 \n\t" ++ "stxvw4x 45, %9, %3 \n\t" ++ "stxvw4x 46, %10, %3 \n\t" ++ "stxvw4x 47, %11, %3 \n" ++ ++ "#n=%1 x=%4=%2 y=%0=%3 o16=%5 o32=%6 o48=%7 o64=%8 o80=%9 o96=%10 o112=%11" ++ : ++ "=m" (*y), ++ "+r" (n), // 1 ++ "+b" (x), // 2 ++ "+b" (y) // 3 ++ : ++ "m" (*x), ++ "b" (16), // 5 ++ "b" (32), // 6 ++ "b" (48), // 7 ++ "b" (64), // 8 ++ "b" (80), // 9 ++ "b" (96), // 10 ++ "b" (112) // 11 ++ : ++ "cr0", ++ "vs32","vs33","vs34","vs35","vs36","vs37","vs38","vs39", ++ "vs40","vs41","vs42","vs43","vs44","vs45","vs46","vs47" ++ ); ++} +diff --git a/kernel/power/cswap_microk_power8.c b/kernel/power/cswap_microk_power8.c +index 90ab59c54..1dd03dc88 100644 +--- a/kernel/power/cswap_microk_power8.c ++++ b/kernel/power/cswap_microk_power8.c +@@ -35,146 +35,124 @@ USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. + + #define HAVE_KERNEL_32 1 + +-static void cswap_kernel_32( BLASLONG n, FLOAT *x, FLOAT *y) __attribute__ ((noinline)); +- +-static void cswap_kernel_32( BLASLONG n, FLOAT *x, FLOAT *y) ++static void cswap_kernel_32 (long n, float *x, float *y) + { +- +- +- BLASLONG i = n; +- BLASLONG o16 = 16; +- BLASLONG o32 = 32; +- BLASLONG o48 = 48; +- BLASLONG o64 = 64; +- BLASLONG o80 = 80; +- BLASLONG o96 = 96; +- BLASLONG o112 = 112; +- FLOAT *x1=x; +- FLOAT *y1=y; +- FLOAT *x2=x+1; +- FLOAT *y2=y+1; +- BLASLONG pre = 384; +- BLASLONG alpha=0; +- +- __asm__ __volatile__ +- ( +- +- "addi %3, %3, -4 \n\t" +- "addi %4, %4, -4 \n\t" +- +- ".align 5 \n\t" +- "1: \n\t" +- +- "lxvw4x 32, 0, %2 \n\t" +- "lxvw4x 33, %5, %2 \n\t" +- "lxvw4x 34, %6, %2 \n\t" +- "lxvw4x 35, %7, %2 \n\t" +- "lxvw4x 36, %8, %2 \n\t" +- "lxvw4x 37, %9, %2 \n\t" +- "lxvw4x 38, %10, %2 \n\t" +- "lxvw4x 39, %11, %2 \n\t" +- +- "addi %2, %2, 128 \n\t" +- +- "lxvw4x 40, 0, %2 \n\t" +- "lxvw4x 41, %5, %2 \n\t" +- "lxvw4x 42, %6, %2 \n\t" +- "lxvw4x 43, %7, %2 \n\t" +- "lxvw4x 44, %8, %2 \n\t" +- "lxvw4x 45, %9, %2 \n\t" +- "lxvw4x 46, %10, %2 \n\t" +- "lxvw4x 47, %11, %2 \n\t" +- +- "addi %2, %2, 128 \n\t" +- +- "lxvw4x 48, 0, %1 \n\t" +- "lxvw4x 49, %5, %1 \n\t" +- "lxvw4x 50, %6, %1 \n\t" +- "lxvw4x 51, %7, %1 \n\t" +- "lxvw4x 52, %8, %1 \n\t" +- "lxvw4x 53, %9, %1 \n\t" +- "lxvw4x 54, %10, %1 \n\t" +- "lxvw4x 55, %11, %1 \n\t" +- +- "addi %1, %1, 128 \n\t" +- +- "lxvw4x 56, 0, %1 \n\t" +- "lxvw4x 57, %5, %1 \n\t" +- "lxvw4x 58, %6, %1 \n\t" +- "lxvw4x 59, %7, %1 \n\t" +- "lxvw4x 60, %8, %1 \n\t" +- "lxvw4x 61, %9, %1 \n\t" +- "lxvw4x 62, %10, %1 \n\t" +- "lxvw4x 63, %11, %1 \n\t" +- +- "addi %1, %1, 128 \n\t" +- +- "stxvw4x 32, 0, %3 \n\t" +- "stxvw4x 33, %5, %3 \n\t" +- "stxvw4x 34, %6, %3 \n\t" +- "stxvw4x 35, %7, %3 \n\t" +- "stxvw4x 36, %8, %3 \n\t" +- "stxvw4x 37, %9, %3 \n\t" +- "stxvw4x 38, %10, %3 \n\t" +- "stxvw4x 39, %11, %3 \n\t" +- +- "addi %3, %3, 128 \n\t" +- +- "stxvw4x 40, 0, %3 \n\t" +- "stxvw4x 41, %5, %3 \n\t" +- "stxvw4x 42, %6, %3 \n\t" +- "stxvw4x 43, %7, %3 \n\t" +- "stxvw4x 44, %8, %3 \n\t" +- "stxvw4x 45, %9, %3 \n\t" +- "stxvw4x 46, %10, %3 \n\t" +- "stxvw4x 47, %11, %3 \n\t" +- +- "addi %3, %3, 128 \n\t" +- +- "stxvw4x 48, 0, %4 \n\t" +- "stxvw4x 49, %5, %4 \n\t" +- "stxvw4x 50, %6, %4 \n\t" +- "stxvw4x 51, %7, %4 \n\t" +- "stxvw4x 52, %8, %4 \n\t" +- "stxvw4x 53, %9, %4 \n\t" +- "stxvw4x 54, %10, %4 \n\t" +- "stxvw4x 55, %11, %4 \n\t" +- +- "addi %4, %4, 128 \n\t" +- +- "stxvw4x 56, 0, %4 \n\t" +- "stxvw4x 57, %5, %4 \n\t" +- "stxvw4x 58, %6, %4 \n\t" +- "stxvw4x 59, %7, %4 \n\t" +- "stxvw4x 60, %8, %4 \n\t" +- "stxvw4x 61, %9, %4 \n\t" +- "stxvw4x 62, %10, %4 \n\t" +- "stxvw4x 63, %11, %4 \n\t" +- +- "addi %4, %4, 128 \n\t" +- +- "addic. %0 , %0 , -32 \n\t" +- "bgt 1b \n\t" +- +- "2: \n\t" +- +- : +- : +- "r" (i), // 0 +- "r" (y1), // 1 +- "r" (x1), // 2 +- "r" (y2), // 3 +- "r" (x2), // 4 +- "r" (o16), // 5 +- "r" (o32), // 6 +- "r" (o48), // 7 +- "r" (o64), // 8 +- "r" (o80), // 9 +- "r" (o96), // 10 +- "r" (o112) // 11 +- : "cr0", "%0", "%2" , "%1", "%3", "%4", "memory" +- ); +- +-} +- +- ++ __asm__ ++ ( ++ ".p2align 5 \n" ++ "1: \n\t" ++ ++ "lxvw4x 32, 0, %4 \n\t" ++ "lxvw4x 33, %5, %4 \n\t" ++ "lxvw4x 34, %6, %4 \n\t" ++ "lxvw4x 35, %7, %4 \n\t" ++ "lxvw4x 36, %8, %4 \n\t" ++ "lxvw4x 37, %9, %4 \n\t" ++ "lxvw4x 38, %10, %4 \n\t" ++ "lxvw4x 39, %11, %4 \n\t" ++ ++ "addi %4, %4, 128 \n\t" ++ ++ "lxvw4x 40, 0, %4 \n\t" ++ "lxvw4x 41, %5, %4 \n\t" ++ "lxvw4x 42, %6, %4 \n\t" ++ "lxvw4x 43, %7, %4 \n\t" ++ "lxvw4x 44, %8, %4 \n\t" ++ "lxvw4x 45, %9, %4 \n\t" ++ "lxvw4x 46, %10, %4 \n\t" ++ "lxvw4x 47, %11, %4 \n\t" ++ ++ "addi %4, %4, -128 \n\t" ++ ++ "lxvw4x 48, 0, %3 \n\t" ++ "lxvw4x 49, %5, %3 \n\t" ++ "lxvw4x 50, %6, %3 \n\t" ++ "lxvw4x 51, %7, %3 \n\t" ++ "lxvw4x 0, %8, %3 \n\t" ++ "lxvw4x 1, %9, %3 \n\t" ++ "lxvw4x 2, %10, %3 \n\t" ++ "lxvw4x 3, %11, %3 \n\t" ++ ++ "addi %3, %3, 128 \n\t" ++ ++ "lxvw4x 4, 0, %3 \n\t" ++ "lxvw4x 5, %5, %3 \n\t" ++ "lxvw4x 6, %6, %3 \n\t" ++ "lxvw4x 7, %7, %3 \n\t" ++ "lxvw4x 8, %8, %3 \n\t" ++ "lxvw4x 9, %9, %3 \n\t" ++ "lxvw4x 10, %10, %3 \n\t" ++ "lxvw4x 11, %11, %3 \n\t" ++ ++ "addi %3, %3, -128 \n\t" ++ ++ "stxvw4x 32, 0, %3 \n\t" ++ "stxvw4x 33, %5, %3 \n\t" ++ "stxvw4x 34, %6, %3 \n\t" ++ "stxvw4x 35, %7, %3 \n\t" ++ "stxvw4x 36, %8, %3 \n\t" ++ "stxvw4x 37, %9, %3 \n\t" ++ "stxvw4x 38, %10, %3 \n\t" ++ "stxvw4x 39, %11, %3 \n\t" ++ ++ "addi %3, %3, 128 \n\t" ++ ++ "stxvw4x 40, 0, %3 \n\t" ++ "stxvw4x 41, %5, %3 \n\t" ++ "stxvw4x 42, %6, %3 \n\t" ++ "stxvw4x 43, %7, %3 \n\t" ++ "stxvw4x 44, %8, %3 \n\t" ++ "stxvw4x 45, %9, %3 \n\t" ++ "stxvw4x 46, %10, %3 \n\t" ++ "stxvw4x 47, %11, %3 \n\t" ++ ++ "addi %3, %3, 128 \n\t" ++ ++ "stxvw4x 48, 0, %4 \n\t" ++ "stxvw4x 49, %5, %4 \n\t" ++ "stxvw4x 50, %6, %4 \n\t" ++ "stxvw4x 51, %7, %4 \n\t" ++ "stxvw4x 0, %8, %4 \n\t" ++ "stxvw4x 1, %9, %4 \n\t" ++ "stxvw4x 2, %10, %4 \n\t" ++ "stxvw4x 3, %11, %4 \n\t" ++ ++ "addi %4, %4, 128 \n\t" ++ ++ "stxvw4x 4, 0, %4 \n\t" ++ "stxvw4x 5, %5, %4 \n\t" ++ "stxvw4x 6, %6, %4 \n\t" ++ "stxvw4x 7, %7, %4 \n\t" ++ "stxvw4x 8, %8, %4 \n\t" ++ "stxvw4x 9, %9, %4 \n\t" ++ "stxvw4x 10, %10, %4 \n\t" ++ "stxvw4x 11, %11, %4 \n\t" ++ ++ "addi %4, %4, 128 \n\t" ++ ++ "addic. %2, %2, -32 \n\t" ++ "bgt 1b \n" ++ ++ "#n=%2 x=%0=%3 y=%1=%4 o16=%5 o32=%6 o48=%7 o64=%8 o80=%9 o96=%10 o112=%11" ++ : ++ "+m" (*x), ++ "+m" (*y), ++ "+r" (n), // 2 ++ "+b" (x), // 3 ++ "+b" (y) // 4 ++ : ++ "b" (16), // 5 ++ "b" (32), // 6 ++ "b" (48), // 7 ++ "b" (64), // 8 ++ "b" (80), // 9 ++ "b" (96), // 10 ++ "b" (112) // 11 ++ : ++ "cr0", ++ "vs32","vs33","vs34","vs35","vs36","vs37","vs38","vs39", ++ "vs40","vs41","vs42","vs43","vs44","vs45","vs46","vs47", ++ "vs48","vs49","vs50","vs51","vs0","vs1","vs2","vs3", ++ "vs4","vs5","vs6","vs7","vs8","vs9","vs10","vs11" ++ ); ++} +diff --git a/kernel/power/dasum.c b/kernel/power/dasum.c +index 77f5345ba..73962c2f2 100644 +--- a/kernel/power/dasum.c ++++ b/kernel/power/dasum.c +@@ -42,7 +42,7 @@ USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. + + #else + +-#define ABS fabsf ++#error supports double only + + #endif + +@@ -53,7 +53,7 @@ USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. + + #ifndef HAVE_KERNEL_16 + +-static void dasum_kernel_16(BLASLONG n, FLOAT *x1, FLOAT *svec) ++static FLOAT dasum_kernel_16(BLASLONG n, FLOAT *x1) + { + + BLASLONG i=0; +@@ -92,9 +92,7 @@ static void dasum_kernel_16(BLASLONG n, FLOAT *x1, FLOAT *svec) + + } + +- svec[0] = sum0+sum1+sum2+sum3; +- svec[1] = 0.0; +- ++ return sum0+sum1+sum2+sum3; + } + + #endif +@@ -103,7 +101,6 @@ FLOAT CNAME(BLASLONG n, FLOAT *x, BLASLONG inc_x) + { + BLASLONG i=0; + FLOAT sumf = 0.0; +- FLOAT svec[2] __attribute__ ((aligned (16)));; + BLASLONG n1; + + if (n <= 0 || inc_x <= 0) return(sumf); +@@ -115,8 +112,7 @@ FLOAT CNAME(BLASLONG n, FLOAT *x, BLASLONG inc_x) + if ( n1 > 0 ) + { + +- dasum_kernel_16(n1, x, svec); +- sumf = svec[0] + svec[1]; ++ sumf = dasum_kernel_16(n1, x); + i=n1; + } + +diff --git a/kernel/power/dasum_microk_power8.c b/kernel/power/dasum_microk_power8.c +index cc38c4f7d..880d7d271 100644 +--- a/kernel/power/dasum_microk_power8.c ++++ b/kernel/power/dasum_microk_power8.c +@@ -34,144 +34,142 @@ USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. + **************************************************************************************/ + + #define HAVE_KERNEL_16 1 +-static void dasum_kernel_16( BLASLONG n, FLOAT *x, FLOAT *svec) __attribute__ ((noinline)); + +-static void dasum_kernel_16( BLASLONG n, FLOAT *x, FLOAT *svec) ++static double dasum_kernel_16 (long n, double *x) + { +- +- +- BLASLONG i = n; +- BLASLONG o16 = 16; +- BLASLONG o32 = 32; +- BLASLONG o48 = 48; +- BLASLONG o64 = 64; +- BLASLONG o80 = 80; +- BLASLONG o96 = 96; +- BLASLONG o112 = 112; +- FLOAT *x1=x; +- BLASLONG pre = 384; +- +- __asm__ __volatile__ +- ( +- +- "dcbt %2 , %4 \n\t" +- +- "xxlxor 32,32,32 \n\t" +- "xxlxor 33,33,33 \n\t" +- "xxlxor 34,34,34 \n\t" +- "xxlxor 35,35,35 \n\t" +- "xxlxor 36,36,36 \n\t" +- "xxlxor 37,37,37 \n\t" +- "xxlxor 38,38,38 \n\t" +- "xxlxor 39,39,39 \n\t" +- +- "lxvd2x 40, 0, %2 \n\t" +- "lxvd2x 41, %5, %2 \n\t" +- "lxvd2x 42, %6, %2 \n\t" +- "lxvd2x 43, %7, %2 \n\t" +- "lxvd2x 44, %8, %2 \n\t" +- "lxvd2x 45, %9, %2 \n\t" +- "lxvd2x 46, %10, %2 \n\t" +- "lxvd2x 47, %11, %2 \n\t" +- +- "addi %2, %2, 128 \n\t" +- +- "addic. %0 , %0 , -16 \n\t" +- "ble 2f \n\t" +- +- ".align 5 \n\t" +- "1: \n\t" +- +- "dcbt %2 , %4 \n\t" +- +- "xvabsdp 48, 40 \n\t" +- "xvabsdp 49, 41 \n\t" +- "xvabsdp 50, 42 \n\t" +- "xvabsdp 51, 43 \n\t" +- +- "lxvd2x 40, 0, %2 \n\t" +- "lxvd2x 41, %5, %2 \n\t" +- +- "xvabsdp 52, 44 \n\t" +- "xvabsdp 53, 45 \n\t" +- +- "lxvd2x 42, %6, %2 \n\t" +- "lxvd2x 43, %7, %2 \n\t" +- +- "xvabsdp 54, 46 \n\t" +- "xvabsdp 55, 47 \n\t" +- +- "lxvd2x 44, %8, %2 \n\t" +- "lxvd2x 45, %9, %2 \n\t" +- +- "xvadddp 32, 32, 48 \n\t" +- "xvadddp 33, 33, 49 \n\t" +- +- "lxvd2x 46, %10, %2 \n\t" +- "lxvd2x 47, %11, %2 \n\t" +- +- "xvadddp 34, 34, 50 \n\t" +- "xvadddp 35, 35, 51 \n\t" +- "addi %2, %2, 128 \n\t" +- "xvadddp 36, 36, 52 \n\t" +- "xvadddp 37, 37, 53 \n\t" +- "addic. %0 , %0 , -16 \n\t" +- "xvadddp 38, 38, 54 \n\t" +- "xvadddp 39, 39, 55 \n\t" +- +- "bgt 1b \n\t" +- +- "2: \n\t" +- +- +- "xvabsdp 48, 40 \n\t" +- "xvabsdp 49, 41 \n\t" +- "xvabsdp 50, 42 \n\t" +- "xvabsdp 51, 43 \n\t" +- "xvabsdp 52, 44 \n\t" +- "xvabsdp 53, 45 \n\t" +- "xvabsdp 54, 46 \n\t" +- "xvabsdp 55, 47 \n\t" +- +- "xvadddp 32, 32, 48 \n\t" +- "xvadddp 33, 33, 49 \n\t" +- "xvadddp 34, 34, 50 \n\t" +- "xvadddp 35, 35, 51 \n\t" +- "xvadddp 36, 36, 52 \n\t" +- "xvadddp 37, 37, 53 \n\t" +- "xvadddp 38, 38, 54 \n\t" +- "xvadddp 39, 39, 55 \n\t" +- +- "xvadddp 32, 32, 33 \n\t" +- "xvadddp 34, 34, 35 \n\t" +- "xvadddp 36, 36, 37 \n\t" +- "xvadddp 38, 38, 39 \n\t" +- +- "xvadddp 32, 32, 34 \n\t" +- "xvadddp 36, 36, 38 \n\t" +- +- "xvadddp 32, 32, 36 \n\t" +- +- +- "stxvd2x 32, 0, %3 \n\t" +- +- : +- : +- "r" (i), // 0 +- "r" (n), // 1 +- "r" (x1), // 2 +- "r" (svec), // 3 +- "r" (pre), // 4 +- "r" (o16), // 5 +- "r" (o32), // 6 +- "r" (o48), // 7 +- "r" (o64), // 8 +- "r" (o80), // 9 +- "r" (o96), // 10 +- "r" (o112) // 11 +- : "cr0", "%0", "%2", "memory" +- ); +- +-} ++ double sum; ++ __vector double t0; ++ __vector double t1; ++ __vector double t2; ++ __vector double t3; ++ ++ __asm__ ++ ( ++ "dcbt 0, %2 \n\t" ++ ++ "xxlxor 32, 32, 32 \n\t" ++ "xxlxor 33, 33, 33 \n\t" ++ "xxlxor 34, 34, 34 \n\t" ++ "xxlxor 35, 35, 35 \n\t" ++ "xxlxor 36, 36, 36 \n\t" ++ "xxlxor 37, 37, 37 \n\t" ++ "xxlxor 38, 38, 38 \n\t" ++ "xxlxor 39, 39, 39 \n\t" ++ ++ "lxvd2x 40, 0, %2 \n\t" ++ "lxvd2x 41, %8, %2 \n\t" ++ "lxvd2x 42, %9, %2 \n\t" ++ "lxvd2x 43, %10, %2 \n\t" ++ "lxvd2x 44, %11, %2 \n\t" ++ "lxvd2x 45, %12, %2 \n\t" ++ "lxvd2x 46, %13, %2 \n\t" ++ "lxvd2x 47, %14, %2 \n\t" ++ ++ "addi %2, %2, 128 \n\t" ++ ++ "addic. %1, %1, -16 \n\t" ++ "ble 2f \n\t" ++ ++ ".p2align 5 \n" ++ "1: \n\t" ++ ++ "xvabsdp 48, 40 \n\t" ++ "xvabsdp 49, 41 \n\t" ++ "xvabsdp 50, 42 \n\t" ++ "xvabsdp 51, 43 \n\t" ++ ++ "lxvd2x 40, 0, %2 \n\t" ++ "lxvd2x 41, %8, %2 \n\t" ++ ++ "xvabsdp %x3, 44 \n\t" ++ "xvabsdp %x4, 45 \n\t" ++ ++ "lxvd2x 42, %9, %2 \n\t" ++ "lxvd2x 43, %10, %2 \n\t" ++ ++ "xvabsdp %x5, 46 \n\t" ++ "xvabsdp %x6, 47 \n\t" ++ ++ "lxvd2x 44, %11, %2 \n\t" ++ "lxvd2x 45, %12, %2 \n\t" ++ ++ "xvadddp 32, 32, 48 \n\t" ++ "xvadddp 33, 33, 49 \n\t" ++ ++ "lxvd2x 46, %13, %2 \n\t" ++ "lxvd2x 47, %14, %2 \n\t" ++ ++ "xvadddp 34, 34, 50 \n\t" ++ "xvadddp 35, 35, 51 \n\t" ++ "addi %2, %2, 128 \n\t" ++ "xvadddp 36, 36, %x3 \n\t" ++ "xvadddp 37, 37, %x4 \n\t" ++ "addic. %1, %1, -16 \n\t" ++ "xvadddp 38, 38, %x5 \n\t" ++ "xvadddp 39, 39, %x6 \n\t" ++ ++ "bgt 1b \n" ++ ++ "2: \n\t" ++ ++ "xvabsdp 48, 40 \n\t" ++ "xvabsdp 49, 41 \n\t" ++ "xvabsdp 50, 42 \n\t" ++ "xvabsdp 51, 43 \n\t" ++ "xvabsdp %x3, 44 \n\t" ++ "xvabsdp %x4, 45 \n\t" ++ "xvabsdp %x5, 46 \n\t" ++ "xvabsdp %x6, 47 \n\t" ++ ++ "xvadddp 32, 32, 48 \n\t" ++ "xvadddp 33, 33, 49 \n\t" ++ "xvadddp 34, 34, 50 \n\t" ++ "xvadddp 35, 35, 51 \n\t" ++ "xvadddp 36, 36, %x3 \n\t" ++ "xvadddp 37, 37, %x4 \n\t" ++ "xvadddp 38, 38, %x5 \n\t" ++ "xvadddp 39, 39, %x6 \n\t" ++ ++ "xvadddp 32, 32, 33 \n\t" ++ "xvadddp 34, 34, 35 \n\t" ++ "xvadddp 36, 36, 37 \n\t" ++ "xvadddp 38, 38, 39 \n\t" ++ ++ "xvadddp 32, 32, 34 \n\t" ++ "xvadddp 36, 36, 38 \n\t" ++ ++ "xvadddp 32, 32, 36 \n\t" ++ ++ "xxswapd 33, 32 \n\t" ++ "xsadddp %x0, 32, 33 \n" ++ ++ "#n=%1 x=%3=%2 sum=%0 o16=%8 o32=%9 o48=%10 o64=%11 o80=%12 o96=%13 o112=%14\n" ++ "#t0=%x3 t1=%x4 t2=%x5 t3=%x6" ++ : ++ "=d" (sum), // 0 ++ "+r" (n), // 1 ++ "+b" (x), // 2 ++ "=wa" (t0), // 3 ++ "=wa" (t1), // 4 ++ "=wa" (t2), // 5 ++ "=wa" (t3) // 6 ++ : ++ "m" (*x), ++ "b" (16), // 8 ++ "b" (32), // 9 ++ "b" (48), // 10 ++ "b" (64), // 11 ++ "b" (80), // 12 ++ "b" (96), // 13 ++ "b" (112) // 14 ++ : ++ "cr0", ++ "vs32","vs33","vs34","vs35","vs36","vs37","vs38","vs39", ++ "vs40","vs41","vs42","vs43","vs44","vs45","vs46","vs47", ++ "vs48","vs49","vs50","vs51" ++ ); ++ ++ return sum; ++} + + +diff --git a/kernel/power/daxpy.c b/kernel/power/daxpy.c +index 4365bd88d..df0572e8e 100644 +--- a/kernel/power/daxpy.c ++++ b/kernel/power/daxpy.c +@@ -43,21 +43,20 @@ USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. + + #ifndef HAVE_KERNEL_8 + +-static void daxpy_kernel_8(BLASLONG n, FLOAT *x, FLOAT *y, FLOAT *alpha) ++static void daxpy_kernel_8(BLASLONG n, FLOAT *x, FLOAT *y, FLOAT alpha) + { + BLASLONG register i = 0; +- FLOAT a = *alpha; + + while(i < n) + { +- y[i] += a * x[i]; +- y[i+1] += a * x[i+1]; +- y[i+2] += a * x[i+2]; +- y[i+3] += a * x[i+3]; +- y[i+4] += a * x[i+4]; +- y[i+5] += a * x[i+5]; +- y[i+6] += a * x[i+6]; +- y[i+7] += a * x[i+7]; ++ y[i] += alpha * x[i]; ++ y[i+1] += alpha * x[i+1]; ++ y[i+2] += alpha * x[i+2]; ++ y[i+3] += alpha * x[i+3]; ++ y[i+4] += alpha * x[i+4]; ++ y[i+5] += alpha * x[i+5]; ++ y[i+6] += alpha * x[i+6]; ++ y[i+7] += alpha * x[i+7]; + i+=8 ; + + } +@@ -70,11 +69,6 @@ int CNAME(BLASLONG n, BLASLONG dummy0, BLASLONG dummy1, FLOAT da, FLOAT *x, BLAS + { + BLASLONG i=0; + BLASLONG ix=0,iy=0; +- FLOAT a2[4]; +- a2[0]=da; +- a2[1]=da; +- a2[2]=da; +- a2[3]=da; + + if ( n <= 0 ) return(0); + +@@ -84,7 +78,7 @@ int CNAME(BLASLONG n, BLASLONG dummy0, BLASLONG dummy1, FLOAT da, FLOAT *x, BLAS + BLASLONG n1 = n & -16; + + if ( n1 ) +- daxpy_kernel_8(n1, x, y , a2 ); ++ daxpy_kernel_8(n1, x, y, da); + + i = n1; + while(i < n) +diff --git a/kernel/power/daxpy_microk_power8.c b/kernel/power/daxpy_microk_power8.c +index bb3f73aca..fb714a3f9 100644 +--- a/kernel/power/daxpy_microk_power8.c ++++ b/kernel/power/daxpy_microk_power8.c +@@ -35,167 +35,183 @@ USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. + + + #define HAVE_KERNEL_8 1 +-static void daxpy_kernel_8( BLASLONG n, FLOAT *x, FLOAT *y , FLOAT *alpha) __attribute__ ((noinline)); + +-static void daxpy_kernel_8( BLASLONG n, FLOAT *x, FLOAT *y, FLOAT *alpha) ++static void daxpy_kernel_8 (long n, double *x, double *y, double alpha) + { ++ __vector double t0; ++ __vector double t1; ++ __vector double t2; ++ __vector double t3; ++ __vector double t4; ++ __vector double t5; ++ __vector double t6; ++ __vector double t7; ++ __vector double t8; ++ __vector double t9; ++ __vector double t10; ++ __vector double t11; ++ __vector double t12; ++ __vector double t13; ++ __vector double t14; ++ __vector double t15; ++ __vector double t16; + ++ __asm__ ++ ( ++ "xxspltd %x4, %x22, 0 \n\t" + +- BLASLONG i = n; +- BLASLONG o16 = 16; +- BLASLONG o32 = 32; +- BLASLONG o48 = 48; +- FLOAT *x1=x; +- FLOAT *y1=y; +- FLOAT *y2=y+1; +- BLASLONG pre = 384; ++ "dcbt 0, %2 \n\t" ++ "dcbt 0, %3 \n\t" + +- __asm__ __volatile__ +- ( ++ "lxvd2x %x5, 0, %2 \n\t" ++ "lxvd2x %x6, %23, %2 \n\t" ++ "lxvd2x %x7, %24, %2 \n\t" ++ "lxvd2x %x8, %25, %2 \n\t" + +- "lxsdx 33, %5, %4 \n\t" +- "xxspltd 32, 33, 0 \n\t" +- "addi %8, %8, -8 \n\t" ++ "lxvd2x %x13, 0, %3 \n\t" ++ "lxvd2x %x14, %23, %3 \n\t" ++ "lxvd2x %x15, %24, %3 \n\t" ++ "lxvd2x %x16, %25, %3 \n\t" + +- "dcbt %2, %9 \n\t" +- "dcbt %3, %9 \n\t" ++ "addi %2, %2, 64 \n\t" ++ "addi %3, %3, 64 \n\t" + +- "lxvd2x 40, 0, %2 \n\t" +- "lxvd2x 41, %5, %2 \n\t" +- "lxvd2x 42, %6, %2 \n\t" +- "lxvd2x 43, %7, %2 \n\t" ++ "lxvd2x %x9, 0, %2 \n\t" ++ "lxvd2x %x10, %23, %2 \n\t" ++ "lxvd2x %x11, %24, %2 \n\t" ++ "lxvd2x %x12, %25, %2 \n\t" + +- "lxvd2x 48, 0, %3 \n\t" +- "lxvd2x 49, %5, %3 \n\t" +- "lxvd2x 50, %6, %3 \n\t" +- "lxvd2x 51, %7, %3 \n\t" +- +- "addi %2, %2, 64 \n\t" +- "addi %3, %3, 64 \n\t" +- +- "lxvd2x 44, 0, %2 \n\t" +- "lxvd2x 45, %5, %2 \n\t" +- "lxvd2x 46, %6, %2 \n\t" +- "lxvd2x 47, %7, %2 \n\t" +- +- "lxvd2x 52, 0, %3 \n\t" +- "lxvd2x 53, %5, %3 \n\t" +- "lxvd2x 54, %6, %3 \n\t" +- "lxvd2x 55, %7, %3 \n\t" +- +- "addi %2, %2, 64 \n\t" +- "addi %3, %3, 64 \n\t" +- +- "addic. %0 , %0 , -16 \n\t" +- "ble 2f \n\t" +- +- ".align 5 \n\t" +- "1: \n\t" +- +- "dcbt %2, %9 \n\t" +- "dcbt %3, %9 \n\t" +- +- "xvmaddadp 48, 40, 32 \n\t" +- "xvmaddadp 49, 41, 32 \n\t" +- +- "lxvd2x 40, 0, %2 \n\t" +- "lxvd2x 41, %5, %2 \n\t" +- +- "stxvd2x 48, 0, %8 \n\t" +- "stxvd2x 49, %5, %8 \n\t" +- +- "xvmaddadp 50, 42, 32 \n\t" +- "xvmaddadp 51, 43, 32 \n\t" +- +- "lxvd2x 42, %6, %2 \n\t" +- "lxvd2x 43, %7, %2 \n\t" +- +- "stxvd2x 50, %6, %8 \n\t" +- "stxvd2x 51, %7, %8 \n\t" +- +- "lxvd2x 48, 0, %3 \n\t" +- "lxvd2x 49, %5, %3 \n\t" +- "lxvd2x 50, %6, %3 \n\t" +- "lxvd2x 51, %7, %3 \n\t" +- +- "addi %2, %2, 64 \n\t" +- "addi %8, %8, 64 \n\t" +- +- "xvmaddadp 52, 44, 32 \n\t" +- "addi %3, %3, 64 \n\t" +- "xvmaddadp 53, 45, 32 \n\t" +- +- "lxvd2x 44, 0, %2 \n\t" +- "lxvd2x 45, %5, %2 \n\t" +- +- "stxvd2x 52, 0, %8 \n\t" +- "stxvd2x 53, %5, %8 \n\t" +- +- "xvmaddadp 54, 46, 32 \n\t" +- "xvmaddadp 55, 47, 32 \n\t" +- +- "lxvd2x 46, %6, %2 \n\t" +- "lxvd2x 47, %7, %2 \n\t" +- +- "stxvd2x 54, %6, %8 \n\t" +- "stxvd2x 55, %7, %8 \n\t" +- +- "addi %2, %2, 64 \n\t" +- "addi %8, %8, 64 \n\t" +- +- "lxvd2x 52, 0, %3 \n\t" +- "lxvd2x 53, %5, %3 \n\t" +- "lxvd2x 54, %6, %3 \n\t" +- "lxvd2x 55, %7, %3 \n\t" +- +- "addi %3, %3, 64 \n\t" +- +- +- "addic. %0 , %0 , -16 \n\t" +- "bgt 1b \n\t" +- +- "2: \n\t" +- +- +- "xvmaddadp 48, 40, 32 \n\t" +- "xvmaddadp 49, 41, 32 \n\t" +- "xvmaddadp 50, 42, 32 \n\t" +- "xvmaddadp 51, 43, 32 \n\t" +- +- "xvmaddadp 52, 44, 32 \n\t" +- "xvmaddadp 53, 45, 32 \n\t" +- "xvmaddadp 54, 46, 32 \n\t" +- "xvmaddadp 55, 47, 32 \n\t" +- +- "stxvd2x 48, 0, %8 \n\t" +- "stxvd2x 49, %5, %8 \n\t" +- "stxvd2x 50, %6, %8 \n\t" +- "stxvd2x 51, %7, %8 \n\t" +- +- "addi %8, %8, 64 \n\t" +- +- "stxvd2x 52, 0, %8 \n\t" +- "stxvd2x 53, %5, %8 \n\t" +- "stxvd2x 54, %6, %8 \n\t" +- "stxvd2x 55, %7, %8 \n\t" +- +- "addi %8, %8, 64 \n\t" +- +- : +- : +- "r" (i), // 0 +- "r" (n), // 1 +- "r" (x1), // 2 +- "r" (y1), // 3 +- "r" (alpha), // 4 +- "r" (o16), // 5 +- "r" (o32), // 6 +- "r" (o48), // 7 +- "r" (y2), // 8 +- "r" (pre) // 9 +- : "cr0", "%0", "%2" , "%3", "%8", "memory" +- ); +- +-} ++ "lxvd2x %x17, 0, %3 \n\t" ++ "lxvd2x %x18, %23, %3 \n\t" ++ "lxvd2x %x19, %24, %3 \n\t" ++ "lxvd2x %x20, %25, %3 \n\t" ++ ++ "addi %2, %2, 64 \n\t" ++ "addi %3, %3, -64 \n\t" ++ ++ "addic. %1, %1, -16 \n\t" ++ "ble 2f \n\t" ++ ++ ".align 5 \n" ++ "1: \n\t" ++ ++ "xvmaddadp %x13, %x5, %x4 \n\t" ++ "xvmaddadp %x14, %x6, %x4 \n\t" ++ ++ "lxvd2x %x5, 0, %2 \n\t" ++ "lxvd2x %x6, %23, %2 \n\t" ++ ++ "stxvd2x %x13, 0, %3 \n\t" ++ "stxvd2x %x14, %23, %3 \n\t" ++ ++ "xvmaddadp %x15, %x7, %x4 \n\t" ++ "xvmaddadp %x16, %x8, %x4 \n\t" ++ ++ "lxvd2x %x7, %24, %2 \n\t" ++ "lxvd2x %x8, %25, %2 \n\t" ++ ++ "stxvd2x %x15, %24, %3 \n\t" ++ "stxvd2x %x16, %25, %3 \n\t" ++ ++ "addi %2, %2, 64 \n\t" ++ "addi %3, %3, 128 \n\t" ++ ++ "lxvd2x %x13, 0, %3 \n\t" ++ "lxvd2x %x14, %23, %3 \n\t" ++ "lxvd2x %x15, %24, %3 \n\t" ++ "lxvd2x %x16, %25, %3 \n\t" ++ ++ "addi %3, %3, -64 \n\t" ++ ++ "xvmaddadp %x17, %x9, %x4 \n\t" ++ "xvmaddadp %x18, %x10, %x4 \n\t" ++ ++ "lxvd2x %x9, 0, %2 \n\t" ++ "lxvd2x %x10, %23, %2 \n\t" ++ ++ "stxvd2x %x17, 0, %3 \n\t" ++ "stxvd2x %x18, %23, %3 \n\t" ++ ++ "xvmaddadp %x19, %x11, %x4 \n\t" ++ "xvmaddadp %x20, %x12, %x4 \n\t" ++ ++ "lxvd2x %x11, %24, %2 \n\t" ++ "lxvd2x %x12, %25, %2 \n\t" ++ ++ "stxvd2x %x19, %24, %3 \n\t" ++ "stxvd2x %x20, %25, %3 \n\t" ++ ++ "addi %2, %2, 64 \n\t" ++ "addi %3, %3, 128 \n\t" ++ ++ "lxvd2x %x17, 0, %3 \n\t" ++ "lxvd2x %x18, %23, %3 \n\t" ++ "lxvd2x %x19, %24, %3 \n\t" ++ "lxvd2x %x20, %25, %3 \n\t" ++ ++ "addi %3, %3, -64 \n\t" ++ ++ "addic. %1, %1, -16 \n\t" ++ "bgt 1b \n" ++ ++ "2: \n\t" ++ ++ "xvmaddadp %x13, %x5, %x4 \n\t" ++ "xvmaddadp %x14, %x6, %x4 \n\t" ++ "xvmaddadp %x15, %x7, %x4 \n\t" ++ "xvmaddadp %x16, %x8, %x4 \n\t" ++ ++ "xvmaddadp %x17, %x9, %x4 \n\t" ++ "xvmaddadp %x18, %x10, %x4 \n\t" ++ "xvmaddadp %x19, %x11, %x4 \n\t" ++ "xvmaddadp %x20, %x12, %x4 \n\t" ++ ++ "stxvd2x %x13, 0, %3 \n\t" ++ "stxvd2x %x14, %23, %3 \n\t" ++ "stxvd2x %x15, %24, %3 \n\t" ++ "stxvd2x %x16, %25, %3 \n\t" ++ ++ "addi %3, %3, 64 \n\t" ++ ++ "stxvd2x %x17, 0, %3 \n\t" ++ "stxvd2x %x18, %23, %3 \n\t" ++ "stxvd2x %x19, %24, %3 \n\t" ++ "stxvd2x %x20, %25, %3 \n" ++ ++ "#n=%1 x=%21=%2 y=%0=%3 alpha=%22 o16=%23 o32=%24 o48=%25\n" ++ "#t0=%x4 t1=%x5 t2=%x6 t3=%x7 t4=%x8 t5=%x9 t6=%x10 t7=%x11 t8=%x12 t9=%x13 t10=%x14 t11=%x15 t12=%x16 t13=%x17 t14=%x18 t15=%x19 t16=%x20" ++ : ++ "+m" (*y), ++ "+r" (n), // 1 ++ "+b" (x), // 2 ++ "+b" (y), // 3 ++ "=wa" (t0), // 4 ++ "=wa" (t1), // 5 ++ "=wa" (t2), // 6 ++ "=wa" (t3), // 7 ++ "=wa" (t4), // 8 ++ "=wa" (t5), // 9 ++ "=wa" (t6), // 10 ++ "=wa" (t7), // 11 ++ "=wa" (t8), // 12 ++ "=wa" (t9), // 13 ++ "=wa" (t10), // 14 ++ "=wa" (t11), // 15 ++ "=wa" (t12), // 16 ++ "=wa" (t13), // 17 ++ "=wa" (t14), // 18 ++ "=wa" (t15), // 19 ++ "=wa" (t16) // 20 ++ : ++ "m" (*x), ++ "d" (alpha), // 22 ++ "b" (16), // 23 ++ "b" (32), // 24 ++ "b" (48) // 25 ++ : ++ "cr0" ++ ); ++ ++} + + +diff --git a/kernel/power/dcopy_microk_power8.c b/kernel/power/dcopy_microk_power8.c +index 04f7db556..261dc04de 100644 +--- a/kernel/power/dcopy_microk_power8.c ++++ b/kernel/power/dcopy_microk_power8.c +@@ -35,140 +35,121 @@ USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. + + #define HAVE_KERNEL_32 1 + +-static void dcopy_kernel_32( BLASLONG n, FLOAT *x, FLOAT *y) __attribute__ ((noinline)); +- +-static void dcopy_kernel_32( BLASLONG n, FLOAT *x, FLOAT *y) ++static void dcopy_kernel_32 (long n, double *x, double *y) + { +- +- +- BLASLONG i = n; +- BLASLONG o16 = 16; +- BLASLONG o32 = 32; +- BLASLONG o48 = 48; +- BLASLONG o64 = 64; +- BLASLONG o80 = 80; +- BLASLONG o96 = 96; +- BLASLONG o112 = 112; +- FLOAT *x1=x; +- FLOAT *y1=y; +- BLASLONG pre = 384; +- BLASLONG alpha=0; +- +- __asm__ __volatile__ +- ( +- +- "lxvd2x 40, 0, %2 \n\t" +- "lxvd2x 41, %5, %2 \n\t" +- "lxvd2x 42, %6, %2 \n\t" +- "lxvd2x 43, %7, %2 \n\t" +- "lxvd2x 44, %8, %2 \n\t" +- "lxvd2x 45, %9, %2 \n\t" +- "lxvd2x 46, %10, %2 \n\t" +- "lxvd2x 47, %11, %2 \n\t" +- +- "addi %2, %2, 128 \n\t" +- +- "lxvd2x 50, 0, %2 \n\t" +- "lxvd2x 51, %5, %2 \n\t" +- "lxvd2x 52, %6, %2 \n\t" +- "lxvd2x 53, %7, %2 \n\t" +- "lxvd2x 54, %8, %2 \n\t" +- "lxvd2x 55, %9, %2 \n\t" +- "lxvd2x 56, %10, %2 \n\t" +- "lxvd2x 57, %11, %2 \n\t" +- +- "addi %2, %2, 128 \n\t" +- +- "addic. %0 , %0 , -32 \n\t" +- "ble 2f \n\t" +- +- ".align 5 \n\t" +- "1: \n\t" +- +- "stxvd2x 40, 0, %1 \n\t" +- "stxvd2x 41, %5, %1 \n\t" +- "lxvd2x 40, 0, %2 \n\t" +- "lxvd2x 41, %5, %2 \n\t" +- "stxvd2x 42, %6, %1 \n\t" +- "stxvd2x 43, %7, %1 \n\t" +- "lxvd2x 42, %6, %2 \n\t" +- "lxvd2x 43, %7, %2 \n\t" +- "stxvd2x 44, %8, %1 \n\t" +- "stxvd2x 45, %9, %1 \n\t" +- "lxvd2x 44, %8, %2 \n\t" +- "lxvd2x 45, %9, %2 \n\t" +- "stxvd2x 46, %10, %1 \n\t" +- "stxvd2x 47, %11, %1 \n\t" +- "lxvd2x 46, %10, %2 \n\t" +- "lxvd2x 47, %11, %2 \n\t" +- +- +- "addi %1, %1, 128 \n\t" +- "addi %2, %2, 128 \n\t" +- +- "stxvd2x 50, 0, %1 \n\t" +- "stxvd2x 51, %5, %1 \n\t" +- "lxvd2x 50, 0, %2 \n\t" +- "lxvd2x 51, %5, %2 \n\t" +- "stxvd2x 52, %6, %1 \n\t" +- "stxvd2x 53, %7, %1 \n\t" +- "lxvd2x 52, %6, %2 \n\t" +- "lxvd2x 53, %7, %2 \n\t" +- "stxvd2x 54, %8, %1 \n\t" +- "stxvd2x 55, %9, %1 \n\t" +- "lxvd2x 54, %8, %2 \n\t" +- "lxvd2x 55, %9, %2 \n\t" +- "stxvd2x 56, %10, %1 \n\t" +- "stxvd2x 57, %11, %1 \n\t" +- "lxvd2x 56, %10, %2 \n\t" +- "lxvd2x 57, %11, %2 \n\t" +- +- "addi %1, %1, 128 \n\t" +- "addi %2, %2, 128 \n\t" +- +- "addic. %0 , %0 , -32 \n\t" +- "bgt 1b \n\t" +- +- "2: \n\t" +- +- "stxvd2x 40, 0, %1 \n\t" +- "stxvd2x 41, %5, %1 \n\t" +- "stxvd2x 42, %6, %1 \n\t" +- "stxvd2x 43, %7, %1 \n\t" +- "stxvd2x 44, %8, %1 \n\t" +- "stxvd2x 45, %9, %1 \n\t" +- "stxvd2x 46, %10, %1 \n\t" +- "stxvd2x 47, %11, %1 \n\t" +- +- "addi %1, %1, 128 \n\t" +- +- "stxvd2x 50, 0, %1 \n\t" +- "stxvd2x 51, %5, %1 \n\t" +- "stxvd2x 52, %6, %1 \n\t" +- "stxvd2x 53, %7, %1 \n\t" +- "stxvd2x 54, %8, %1 \n\t" +- "stxvd2x 55, %9, %1 \n\t" +- "stxvd2x 56, %10, %1 \n\t" +- "stxvd2x 57, %11, %1 \n\t" +- +- +- : +- : +- "r" (i), // 0 +- "r" (y1), // 1 +- "r" (x1), // 2 +- "r" (alpha), // 3 +- "r" (pre), // 4 +- "r" (o16), // 5 +- "r" (o32), // 6 +- "r" (o48), // 7 +- "r" (o64), // 8 +- "r" (o80), // 9 +- "r" (o96), // 10 +- "r" (o112) // 11 +- : "cr0", "%0", "%2" , "%1", "memory" +- ); +- +-} +- +- ++ __asm__ ++ ( ++ "lxvd2x 32, 0, %2 \n\t" ++ "lxvd2x 33, %5, %2 \n\t" ++ "lxvd2x 34, %6, %2 \n\t" ++ "lxvd2x 35, %7, %2 \n\t" ++ "lxvd2x 36, %8, %2 \n\t" ++ "lxvd2x 37, %9, %2 \n\t" ++ "lxvd2x 38, %10, %2 \n\t" ++ "lxvd2x 39, %11, %2 \n\t" ++ ++ "addi %2, %2, 128 \n\t" ++ ++ "lxvd2x 40, 0, %2 \n\t" ++ "lxvd2x 41, %5, %2 \n\t" ++ "lxvd2x 42, %6, %2 \n\t" ++ "lxvd2x 43, %7, %2 \n\t" ++ "lxvd2x 44, %8, %2 \n\t" ++ "lxvd2x 45, %9, %2 \n\t" ++ "lxvd2x 46, %10, %2 \n\t" ++ "lxvd2x 47, %11, %2 \n\t" ++ ++ "addi %2, %2, 128 \n\t" ++ ++ "addic. %1, %1, -32 \n\t" ++ "ble 2f \n\t" ++ ++ ".p2align 5 \n" ++ "1: \n\t" ++ ++ "stxvd2x 32, 0, %3 \n\t" ++ "stxvd2x 33, %5, %3 \n\t" ++ "lxvd2x 32, 0, %2 \n\t" ++ "lxvd2x 33, %5, %2 \n\t" ++ "stxvd2x 34, %6, %3 \n\t" ++ "stxvd2x 35, %7, %3 \n\t" ++ "lxvd2x 34, %6, %2 \n\t" ++ "lxvd2x 35, %7, %2 \n\t" ++ "stxvd2x 36, %8, %3 \n\t" ++ "stxvd2x 37, %9, %3 \n\t" ++ "lxvd2x 36, %8, %2 \n\t" ++ "lxvd2x 37, %9, %2 \n\t" ++ "stxvd2x 38, %10, %3 \n\t" ++ "stxvd2x 39, %11, %3 \n\t" ++ "lxvd2x 38, %10, %2 \n\t" ++ "lxvd2x 39, %11, %2 \n\t" ++ ++ "addi %3, %3, 128 \n\t" ++ "addi %2, %2, 128 \n\t" ++ ++ "stxvd2x 40, 0, %3 \n\t" ++ "stxvd2x 41, %5, %3 \n\t" ++ "lxvd2x 40, 0, %2 \n\t" ++ "lxvd2x 41, %5, %2 \n\t" ++ "stxvd2x 42, %6, %3 \n\t" ++ "stxvd2x 43, %7, %3 \n\t" ++ "lxvd2x 42, %6, %2 \n\t" ++ "lxvd2x 43, %7, %2 \n\t" ++ "stxvd2x 44, %8, %3 \n\t" ++ "stxvd2x 45, %9, %3 \n\t" ++ "lxvd2x 44, %8, %2 \n\t" ++ "lxvd2x 45, %9, %2 \n\t" ++ "stxvd2x 46, %10, %3 \n\t" ++ "stxvd2x 47, %11, %3 \n\t" ++ "lxvd2x 46, %10, %2 \n\t" ++ "lxvd2x 47, %11, %2 \n\t" ++ ++ "addi %3, %3, 128 \n\t" ++ "addi %2, %2, 128 \n\t" ++ ++ "addic. %1, %1, -32 \n\t" ++ "bgt 1b \n" ++ ++ "2: \n\t" ++ ++ "stxvd2x 32, 0, %3 \n\t" ++ "stxvd2x 33, %5, %3 \n\t" ++ "stxvd2x 34, %6, %3 \n\t" ++ "stxvd2x 35, %7, %3 \n\t" ++ "stxvd2x 36, %8, %3 \n\t" ++ "stxvd2x 37, %9, %3 \n\t" ++ "stxvd2x 38, %10, %3 \n\t" ++ "stxvd2x 39, %11, %3 \n\t" ++ ++ "addi %3, %3, 128 \n\t" ++ ++ "stxvd2x 40, 0, %3 \n\t" ++ "stxvd2x 41, %5, %3 \n\t" ++ "stxvd2x 42, %6, %3 \n\t" ++ "stxvd2x 43, %7, %3 \n\t" ++ "stxvd2x 44, %8, %3 \n\t" ++ "stxvd2x 45, %9, %3 \n\t" ++ "stxvd2x 46, %10, %3 \n\t" ++ "stxvd2x 47, %11, %3 \n" ++ ++ "#n=%1 x=%4=%2 y=%0=%3 o16=%5 o32=%6 o48=%7 o64=%8 o80=%9 o96=%10 o112=%11" ++ : ++ "=m" (*y), ++ "+r" (n), // 1 ++ "+b" (x), // 2 ++ "+b" (y) // 3 ++ : ++ "m" (*x), ++ "b" (16), // 5 ++ "b" (32), // 6 ++ "b" (48), // 7 ++ "b" (64), // 8 ++ "b" (80), // 9 ++ "b" (96), // 10 ++ "b" (112) // 11 ++ : ++ "cr0", ++ "vs32","vs33","vs34","vs35","vs36","vs37","vs38","vs39", ++ "vs40","vs41","vs42","vs43","vs44","vs45","vs46","vs47" ++ ); ++} +diff --git a/kernel/power/ddot.c b/kernel/power/ddot.c +index cef60a2e5..e43470e23 100644 +--- a/kernel/power/ddot.c ++++ b/kernel/power/ddot.c +@@ -43,7 +43,7 @@ USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. + + #ifndef HAVE_KERNEL_8 + +-static void ddot_kernel_8(BLASLONG n, FLOAT *x, FLOAT *y, FLOAT *d) ++static FLOAT ddot_kernel_8 (BLASLONG n, FLOAT *x, FLOAT *y) + { + BLASLONG register i = 0; + FLOAT dot = 0.0; +@@ -62,8 +62,7 @@ static void ddot_kernel_8(BLASLONG n, FLOAT *x, FLOAT *y, FLOAT *d) + i+=8 ; + + } +- *d += dot; +- ++ return dot; + } + + #endif +@@ -83,7 +82,7 @@ FLOAT CNAME(BLASLONG n, FLOAT *x, BLASLONG inc_x, FLOAT *y, BLASLONG inc_y) + BLASLONG n1 = n & -16; + + if ( n1 ) +- ddot_kernel_8(n1, x, y , &dot ); ++ dot = ddot_kernel_8(n1, x, y); + + i = n1; + while(i < n) +diff --git a/kernel/power/ddot_microk_power8.c b/kernel/power/ddot_microk_power8.c +index b88049212..4e6bc29c9 100644 +--- a/kernel/power/ddot_microk_power8.c ++++ b/kernel/power/ddot_microk_power8.c +@@ -34,145 +34,138 @@ USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. + **************************************************************************************/ + + #define HAVE_KERNEL_8 1 +-static void ddot_kernel_8( BLASLONG n, FLOAT *x, FLOAT *y , FLOAT *dot) __attribute__ ((noinline)); + +-static void ddot_kernel_8( BLASLONG n, FLOAT *x, FLOAT *y, FLOAT *dot) ++static double ddot_kernel_8 (long n, double *x, double *y) + { +- +- +- BLASLONG i = n; +- BLASLONG o16 = 16; +- BLASLONG o32 = 32; +- BLASLONG o48 = 48; +- BLASLONG o64 = 64; +- BLASLONG o80 = 80; +- BLASLONG o96 = 96; +- BLASLONG o112 = 112; +- FLOAT *x1=x; +- FLOAT *y1=y; +- BLASLONG pre = 384; +- +- __asm__ __volatile__ +- ( +- "xxlxor 32,32,32 \n\t" +- "xxlxor 33,33,33 \n\t" +- "xxlxor 34,34,34 \n\t" +- "xxlxor 35,35,35 \n\t" +- "xxlxor 36,36,36 \n\t" +- "xxlxor 37,37,37 \n\t" +- "xxlxor 38,38,38 \n\t" +- "xxlxor 39,39,39 \n\t" +- +- "dcbt %2, %12 \n\t" +- "dcbt %3, %12 \n\t" +- +- "lxvd2x 40, 0, %2 \n\t" +- "lxvd2x 48, 0, %3 \n\t" +- "lxvd2x 41, %5, %2 \n\t" +- "lxvd2x 49, %5, %3 \n\t" +- "lxvd2x 42, %6, %2 \n\t" +- "lxvd2x 50, %6, %3 \n\t" +- "lxvd2x 43, %7, %2 \n\t" +- "lxvd2x 51, %7, %3 \n\t" +- "lxvd2x 44, %8, %2 \n\t" +- "lxvd2x 52, %8, %3 \n\t" +- "lxvd2x 45, %9, %2 \n\t" +- "lxvd2x 53, %9, %3 \n\t" +- "lxvd2x 46, %10, %2 \n\t" +- "lxvd2x 54, %10, %3 \n\t" +- "lxvd2x 47, %11, %2 \n\t" +- "lxvd2x 55, %11, %3 \n\t" +- +- "addi %2, %2, 128 \n\t" +- "addi %3, %3, 128 \n\t" +- +- "addic. %0 , %0 , -16 \n\t" +- "ble 2f \n\t" +- +- ".align 5 \n\t" +- "1: \n\t" +- +- "dcbt %2, %12 \n\t" +- "dcbt %3, %12 \n\t" +- +- "xvmaddadp 32, 40, 48 \n\t" +- "lxvd2x 40, 0, %2 \n\t" +- "lxvd2x 48, 0, %3 \n\t" +- "xvmaddadp 33, 41, 49 \n\t" +- "lxvd2x 41, %5, %2 \n\t" +- "lxvd2x 49, %5, %3 \n\t" +- "xvmaddadp 34, 42, 50 \n\t" +- "lxvd2x 42, %6, %2 \n\t" +- "lxvd2x 50, %6, %3 \n\t" +- "xvmaddadp 35, 43, 51 \n\t" +- "lxvd2x 43, %7, %2 \n\t" +- "lxvd2x 51, %7, %3 \n\t" +- "xvmaddadp 36, 44, 52 \n\t" +- "lxvd2x 44, %8, %2 \n\t" +- "lxvd2x 52, %8, %3 \n\t" +- "xvmaddadp 37, 45, 53 \n\t" +- "lxvd2x 45, %9, %2 \n\t" +- "lxvd2x 53, %9, %3 \n\t" +- "xvmaddadp 38, 46, 54 \n\t" +- "lxvd2x 46, %10, %2 \n\t" +- "lxvd2x 54, %10, %3 \n\t" +- "xvmaddadp 39, 47, 55 \n\t" +- +- "lxvd2x 47, %11, %2 \n\t" +- "lxvd2x 55, %11, %3 \n\t" +- +- +- "addi %2, %2, 128 \n\t" +- "addi %3, %3, 128 \n\t" +- +- "addic. %0 , %0 , -16 \n\t" +- "bgt 1b \n\t" +- +- "2: \n\t" +- +- "xvmaddadp 32, 40, 48 \n\t" +- "xvmaddadp 33, 41, 49 \n\t" +- "xvmaddadp 34, 42, 50 \n\t" +- "xvmaddadp 35, 43, 51 \n\t" +- "xvmaddadp 36, 44, 52 \n\t" +- "xvmaddadp 37, 45, 53 \n\t" +- "xvmaddadp 38, 46, 54 \n\t" +- "xvmaddadp 39, 47, 55 \n\t" +- +- "xvadddp 32, 32, 33 \n\t" +- "xvadddp 34, 34, 35 \n\t" +- "xvadddp 36, 36, 37 \n\t" +- "xvadddp 38, 38, 39 \n\t" +- +- "xvadddp 32, 32, 34 \n\t" +- "xvadddp 36, 36, 38 \n\t" +- +- "xvadddp 32, 32, 36 \n\t" +- +- "xxswapd 33, 32 \n\t" +- +- "xsadddp 32, 32, 33 \n\t" +- +- "stxsdx 32, 0, %4 \n\t" +- +- : +- : +- "r" (i), // 0 +- "r" (n), // 1 +- "r" (x1), // 2 +- "r" (y1), // 3 +- "r" (dot), // 4 +- "r" (o16), // 5 +- "r" (o32), // 6 +- "r" (o48), // 7 +- "r" (o64), // 8 +- "r" (o80), // 9 +- "r" (o96), // 10 +- "r" (o112), // 11 +- "r" (pre) // 12 +- : "cr0", "%0", "%2" , "%3", "memory" +- ); +- +-} +- +- ++ double dot; ++ __vector double t0; ++ __vector double t1; ++ __vector double t2; ++ __vector double t3; ++ ++ __asm__ ++ ( ++ "dcbt 0, %2 \n\t" ++ "dcbt 0, %3 \n\t" ++ ++ "xxlxor 32, 32, 32 \n\t" ++ "xxlxor 33, 33, 33 \n\t" ++ "xxlxor 34, 34, 34 \n\t" ++ "xxlxor 35, 35, 35 \n\t" ++ "xxlxor 36, 36, 36 \n\t" ++ "xxlxor 37, 37, 37 \n\t" ++ "xxlxor 38, 38, 38 \n\t" ++ "xxlxor 39, 39, 39 \n\t" ++ ++ "lxvd2x 40, 0, %2 \n\t" ++ "lxvd2x 48, 0, %3 \n\t" ++ "lxvd2x 41, %10, %2 \n\t" ++ "lxvd2x 49, %10, %3 \n\t" ++ "lxvd2x 42, %11, %2 \n\t" ++ "lxvd2x 50, %11, %3 \n\t" ++ "lxvd2x 43, %12, %2 \n\t" ++ "lxvd2x 51, %12, %3 \n\t" ++ "lxvd2x 44, %13, %2 \n\t" ++ "lxvd2x %x4, %13, %3 \n\t" ++ "lxvd2x 45, %14, %2 \n\t" ++ "lxvd2x %x5, %14, %3 \n\t" ++ "lxvd2x 46, %15, %2 \n\t" ++ "lxvd2x %x6, %15, %3 \n\t" ++ "lxvd2x 47, %16, %2 \n\t" ++ "lxvd2x %x7, %16, %3 \n\t" ++ ++ "addi %2, %2, 128 \n\t" ++ "addi %3, %3, 128 \n\t" ++ ++ "addic. %1, %1, -16 \n\t" ++ "ble 2f \n\t" ++ ++ ".p2align 5 \n" ++ "1: \n\t" ++ ++ "xvmaddadp 32, 40, 48 \n\t" ++ "lxvd2x 40, 0, %2 \n\t" ++ "lxvd2x 48, 0, %3 \n\t" ++ "xvmaddadp 33, 41, 49 \n\t" ++ "lxvd2x 41, %10, %2 \n\t" ++ "lxvd2x 49, %10, %3 \n\t" ++ "xvmaddadp 34, 42, 50 \n\t" ++ "lxvd2x 42, %11, %2 \n\t" ++ "lxvd2x 50, %11, %3 \n\t" ++ "xvmaddadp 35, 43, 51 \n\t" ++ "lxvd2x 43, %12, %2 \n\t" ++ "lxvd2x 51, %12, %3 \n\t" ++ "xvmaddadp 36, 44, %x4 \n\t" ++ "lxvd2x 44, %13, %2 \n\t" ++ "lxvd2x %x4, %13, %3 \n\t" ++ "xvmaddadp 37, 45, %x5 \n\t" ++ "lxvd2x 45, %14, %2 \n\t" ++ "lxvd2x %x5, %14, %3 \n\t" ++ "xvmaddadp 38, 46, %x6 \n\t" ++ "lxvd2x 46, %15, %2 \n\t" ++ "lxvd2x %x6, %15, %3 \n\t" ++ "xvmaddadp 39, 47, %x7 \n\t" ++ "lxvd2x 47, %16, %2 \n\t" ++ "lxvd2x %x7, %16, %3 \n\t" ++ ++ "addi %2, %2, 128 \n\t" ++ "addi %3, %3, 128 \n\t" ++ ++ "addic. %1, %1, -16 \n\t" ++ "bgt 1b \n" ++ ++ "2: \n\t" ++ ++ "xvmaddadp 32, 40, 48 \n\t" ++ "xvmaddadp 33, 41, 49 \n\t" ++ "xvmaddadp 34, 42, 50 \n\t" ++ "xvmaddadp 35, 43, 51 \n\t" ++ "xvmaddadp 36, 44, %x4 \n\t" ++ "xvmaddadp 37, 45, %x5 \n\t" ++ "xvmaddadp 38, 46, %x6 \n\t" ++ "xvmaddadp 39, 47, %x7 \n\t" ++ ++ "xvadddp 32, 32, 33 \n\t" ++ "xvadddp 34, 34, 35 \n\t" ++ "xvadddp 36, 36, 37 \n\t" ++ "xvadddp 38, 38, 39 \n\t" ++ ++ "xvadddp 32, 32, 34 \n\t" ++ "xvadddp 36, 36, 38 \n\t" ++ ++ "xvadddp 32, 32, 36 \n\t" ++ ++ "xxswapd 33, 32 \n\t" ++ ++ "xsadddp %x0, 32, 33 \n" ++ ++ "#dot=%0 n=%1 x=%8=%2 y=%9=%3 o16=%10 o32=%11 o48=%12 o64=%13 o80=%14 o96=%15 o122=%16\n" ++ "#t0=%x4 t1=%x5 t2=%x6 t3=%x7" ++ : ++ "=d" (dot), // 0 ++ "+r" (n), // 1 ++ "+b" (x), // 2 ++ "+b" (y), // 3 ++ "=wa" (t0), // 4 ++ "=wa" (t1), // 5 ++ "=wa" (t2), // 6 ++ "=wa" (t3) // 7 ++ : ++ "m" (*x), ++ "m" (*y), ++ "b" (16), // 10 ++ "b" (32), // 11 ++ "b" (48), // 12 ++ "b" (64), // 13 ++ "b" (80), // 14 ++ "b" (96), // 15 ++ "b" (112) // 16 ++ : ++ "cr0", ++ "vs32","vs33","vs34","vs35","vs36","vs37","vs38","vs39", ++ "vs40","vs41","vs42","vs43","vs44","vs45","vs46","vs47", ++ "vs48","vs49","vs50","vs51" ++ ); ++ ++ return dot; ++} +diff --git a/kernel/power/dgemv_n.c b/kernel/power/dgemv_n.c +index 812d09d15..57f9f9e72 100644 +--- a/kernel/power/dgemv_n.c ++++ b/kernel/power/dgemv_n.c +@@ -47,18 +47,18 @@ USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. + + #ifndef HAVE_KERNEL_4x4 + +-static void dgemv_kernel_4x4(BLASLONG n, FLOAT **ap, FLOAT *xo, FLOAT *y, FLOAT *alpha) ++static void dgemv_kernel_4x4(BLASLONG n, FLOAT *a_ptr, BLASLONG lda, FLOAT *xo, FLOAT *y, FLOAT alpha) + { + BLASLONG i; +- FLOAT *a0,*a1,*a2,*a3; + FLOAT x[4] __attribute__ ((aligned (16)));; +- a0 = ap[0]; +- a1 = ap[1]; +- a2 = ap[2]; +- a3 = ap[3]; ++ FLOAT *a0 = a_ptr; ++ FLOAT *a1 = a0 + lda; ++ FLOAT *a2 = a1 + lda; ++ FLOAT *a3 = a2 + lda; ++ + + for ( i=0; i<4; i++) +- x[i] = xo[i] * *alpha; ++ x[i] = xo[i] * alpha; + + for ( i=0; i< n; i+=4 ) + { +@@ -73,16 +73,13 @@ static void dgemv_kernel_4x4(BLASLONG n, FLOAT **ap, FLOAT *xo, FLOAT *y, FLOAT + + #ifndef HAVE_KERNEL_4x2 + +-static void dgemv_kernel_4x2(BLASLONG n, FLOAT **ap, FLOAT *xo, FLOAT *y, FLOAT *alpha) ++static void dgemv_kernel_4x2(BLASLONG n, FLOAT *a0, FLOAT *a1, FLOAT *xo, FLOAT *y, FLOAT alpha) + { + BLASLONG i; +- FLOAT *a0,*a1; + FLOAT x[4] __attribute__ ((aligned (16)));; +- a0 = ap[0]; +- a1 = ap[1]; + + for ( i=0; i<2; i++) +- x[i] = xo[i] * *alpha; ++ x[i] = xo[i] * alpha; + + for ( i=0; i< n; i+=4 ) + { +@@ -98,15 +95,13 @@ static void dgemv_kernel_4x2(BLASLONG n, FLOAT **ap, FLOAT *xo, FLOAT *y, FLOAT + + #ifndef HAVE_KERNEL_4x1 + +-static void dgemv_kernel_4x1(BLASLONG n, FLOAT *ap, FLOAT *xo, FLOAT *y, FLOAT *alpha) ++static void dgemv_kernel_4x1(BLASLONG n, FLOAT *a0, FLOAT *xo, FLOAT *y, FLOAT alpha) + { + BLASLONG i; +- FLOAT *a0; + FLOAT x[4] __attribute__ ((aligned (16)));; +- a0 = ap; + + for ( i=0; i<1; i++) +- x[i] = xo[i] * *alpha; ++ x[i] = xo[i] * alpha; + + for ( i=0; i< n; i+=4 ) + { +@@ -141,7 +136,6 @@ int CNAME(BLASLONG m, BLASLONG n, BLASLONG dummy1, FLOAT alpha, FLOAT *a, BLASLO + { + + BLASLONG i; +- BLASLONG j; + FLOAT *a_ptr; + FLOAT *x_ptr; + FLOAT *y_ptr; +@@ -151,13 +145,9 @@ int CNAME(BLASLONG m, BLASLONG n, BLASLONG dummy1, FLOAT alpha, FLOAT *a, BLASLO + BLASLONG m3; + BLASLONG n2; + BLASLONG lda4 = lda << 2; +- FLOAT *ap[4] __attribute__ ((aligned (16)));; + FLOAT xbuffer[8] __attribute__ ((aligned (16)));; +- FLOAT alpha_r[4] __attribute__ ((aligned (16)));; + FLOAT *ybuffer; + +- alpha_r[0] = alpha; +- + if ( m < 1 ) return(0); + if ( n < 1 ) return(0); + +@@ -187,11 +177,6 @@ int CNAME(BLASLONG m, BLASLONG n, BLASLONG dummy1, FLOAT alpha, FLOAT *a, BLASLO + a_ptr = a; + x_ptr = x; + +- ap[0] = a_ptr; +- ap[1] = a_ptr + lda; +- ap[2] = ap[1] + lda; +- ap[3] = ap[2] + lda; +- + if ( inc_y != 1 ) + memset(ybuffer,0,NB*8); + else +@@ -203,18 +188,14 @@ int CNAME(BLASLONG m, BLASLONG n, BLASLONG dummy1, FLOAT alpha, FLOAT *a, BLASLO + + for( i = 0; i < n1 ; i++) + { +- dgemv_kernel_4x4(NB,ap,x_ptr,ybuffer,alpha_r); +- ap[0] += lda4; +- ap[1] += lda4; +- ap[2] += lda4; +- ap[3] += lda4; ++ dgemv_kernel_4x4(NB,a_ptr,lda,x_ptr,ybuffer,alpha); + a_ptr += lda4; + x_ptr += 4; + } + + if ( n2 & 2 ) + { +- dgemv_kernel_4x2(NB,ap,x_ptr,ybuffer,alpha_r); ++ dgemv_kernel_4x2(NB,a_ptr,a_ptr+lda,x_ptr,ybuffer,alpha); + a_ptr += lda*2; + x_ptr += 2; + } +@@ -222,7 +203,7 @@ int CNAME(BLASLONG m, BLASLONG n, BLASLONG dummy1, FLOAT alpha, FLOAT *a, BLASLO + + if ( n2 & 1 ) + { +- dgemv_kernel_4x1(NB,a_ptr,x_ptr,ybuffer,alpha_r); ++ dgemv_kernel_4x1(NB,a_ptr,x_ptr,ybuffer,alpha); + a_ptr += lda; + x_ptr += 1; + +@@ -243,11 +224,7 @@ int CNAME(BLASLONG m, BLASLONG n, BLASLONG dummy1, FLOAT alpha, FLOAT *a, BLASLO + x_ptr += inc_x; + xbuffer[3] = x_ptr[0]; + x_ptr += inc_x; +- dgemv_kernel_4x4(NB,ap,xbuffer,ybuffer,alpha_r); +- ap[0] += lda4; +- ap[1] += lda4; +- ap[2] += lda4; +- ap[3] += lda4; ++ dgemv_kernel_4x4(NB,a_ptr,lda,xbuffer,ybuffer,alpha); + a_ptr += lda4; + } + +@@ -255,7 +232,7 @@ int CNAME(BLASLONG m, BLASLONG n, BLASLONG dummy1, FLOAT alpha, FLOAT *a, BLASLO + { + xbuffer[0] = x_ptr[0]; + x_ptr += inc_x; +- dgemv_kernel_4x1(NB,a_ptr,xbuffer,ybuffer,alpha_r); ++ dgemv_kernel_4x1(NB,a_ptr,xbuffer,ybuffer,alpha); + a_ptr += lda; + + } +diff --git a/kernel/power/dgemv_n_microk_power8.c b/kernel/power/dgemv_n_microk_power8.c +index 9eabe555c..5b42bbb38 100644 +--- a/kernel/power/dgemv_n_microk_power8.c ++++ b/kernel/power/dgemv_n_microk_power8.c +@@ -35,267 +35,264 @@ USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. + + #define HAVE_KERNEL_4x4 1 + +-static void dgemv_kernel_4x4(BLASLONG n, FLOAT **ap, FLOAT *xo, FLOAT *y, FLOAT *alpha) __attribute__ ((noinline)); +- +-static void dgemv_kernel_4x4(BLASLONG n, FLOAT **ap, FLOAT *xo, FLOAT *y, FLOAT *alpha) ++static void dgemv_kernel_4x4 (long n, double *ap, long lda, double *x, double *y, double alpha) + { +- BLASLONG i=n; +- BLASLONG o8 = 8; +- BLASLONG o16 = 16; +- BLASLONG o24 = 24; +- BLASLONG pre = 384; +- +- FLOAT *a0,*a1,*a2,*a3; +- FLOAT *y1=y+1; +- FLOAT x[4] __attribute__ ((aligned (16)));; +- a0 = ap[0]+1; +- a1 = ap[1]+1; +- a2 = ap[2]+1; +- a3 = ap[3]+1; +- +- x[0]=xo[0] * *alpha; +- x[1]=xo[1] * *alpha; +- x[2]=xo[2] * *alpha; +- x[3]=xo[3] * *alpha; ++ double *a0; ++ double *a1; ++ double *a2; ++ double *a3; ++ ++ __asm__ ++ ( ++ "lxvd2x 34, 0, %9 \n\t" // x0, x1 ++ "lxvd2x 35, %10, %9 \n\t" // x2, x3 ++ "xxspltd 32, %x8, 0 \n\t" // alpha, alpha ++ ++ "sldi %6, %4, 3 \n\t" // lda * sizeof (double) ++ ++ "xvmuldp 34, 34, 32 \n\t" // x0 * alpha, x1 * alpha ++ "xvmuldp 35, 35, 32 \n\t" // x2 * alpha, x3 * alpha ++ ++ "add %4, %3, %6 \n\t" // a1 = a0 + lda ++ "add %6, %6, %6 \n\t" // 2 * lda ++ ++ "xxspltd 32, 34, 0 \n\t" // x0 * alpha, x0 * alpha ++ "xxspltd 33, 34, 1 \n\t" // x1 * alpha, x1 * alpha ++ "xxspltd 34, 35, 0 \n\t" // x2 * alpha, x2 * alpha ++ "xxspltd 35, 35, 1 \n\t" // x3 * alpha, x3 * alpha ++ ++ "add %5, %3, %6 \n\t" // a2 = a0 + 2 * lda ++ "add %6, %4, %6 \n\t" // a3 = a1 + 2 * lda ++ ++ "dcbt 0, %3 \n\t" ++ "dcbt 0, %4 \n\t" ++ "dcbt 0, %5 \n\t" ++ "dcbt 0, %6 \n\t" + ++ "lxvd2x 40, 0, %3 \n\t" // a0[0], a0[1] ++ "lxvd2x 41, %10, %3 \n\t" // a0[2], a0[3] + +- __asm__ __volatile__ +- ( +- "lxvdsx 32, 0 , %1 \n\t" // x0 +- "lxvdsx 33,%3 , %1 \n\t" // x1 +- "lxvdsx 34,%4 , %1 \n\t" // x2 +- "lxvdsx 35,%5 , %1 \n\t" // x3 +- "addi %2 , %2 , -8 \n\t" +- "addi %6 , %6 , -8 \n\t" +- "addi %7 , %7 , -8 \n\t" +- "addi %8 , %8 , -8 \n\t" +- "addi %9 , %9 , -8 \n\t" +- +- "lxvd2x 48, 0, %6 \n\t" // a0[0], a0[1] +- "lxvd2x 49,%4, %6 \n\t" // a0[2], a0[3] +- +- "lxvd2x 50, 0, %7 \n\t" // a1[0], a1[1] +- "lxvd2x 51,%4, %7 \n\t" // a1[2], a1[3] ++ "lxvd2x 42, 0, %4 \n\t" // a1[0], a1[1] ++ "lxvd2x 43, %10, %4 \n\t" // a1[2], a1[3] + +- "lxvd2x 52, 0, %8 \n\t" // a2[0], a2[1] +- "lxvd2x 53,%4, %8 \n\t" // a2[2], a2[3] ++ "lxvd2x 44, 0, %5 \n\t" // a2[0], a2[1] ++ "lxvd2x 45, %10, %5 \n\t" // a2[2], a2[3] + +- "lxvd2x 54, 0, %9 \n\t" // a3[0], a3[1] +- "lxvd2x 55,%4, %9 \n\t" // a3[2], a3[3] ++ "lxvd2x 46, 0, %6 \n\t" // a3[0], a3[1] ++ "lxvd2x 47, %10, %6 \n\t" // a3[2], a3[3] + +- "addi %6, %6, 32 \n\t" +- "addi %7, %7, 32 \n\t" +- "addi %8, %8, 32 \n\t" +- "addi %9, %9, 32 \n\t" ++ "dcbt 0, %2 \n\t" + +- "addic. %0 , %0 , -4 \n\t" +- "ble 2f \n\t" ++ "addi %3, %3, 32 \n\t" ++ "addi %4, %4, 32 \n\t" ++ "addi %5, %5, 32 \n\t" ++ "addi %6, %6, 32 \n\t" + +- ".align 5 \n\t" +- "1: \n\t" ++ "addic. %1, %1, -4 \n\t" ++ "ble 2f \n\t" + +- "dcbt %2, %10 \n\t" ++ ".p2align 5 \n" ++ "1: \n\t" + +- "lxvd2x 40, 0, %2 \n\t" // y0, y1 +- "lxvd2x 41,%4, %2 \n\t" // y2, y3 +- +- "dcbt %6, %10 \n\t" +- "dcbt %7, %10 \n\t" +- "dcbt %8, %10 \n\t" +- "dcbt %9, %10 \n\t" ++ "lxvd2x 36, 0, %2 \n\t" // y0, y1 ++ "lxvd2x 37, %10, %2 \n\t" // y2, y3 + +- "xvmaddadp 40, 48, 32 \n\t" +- "xvmaddadp 41, 49, 32 \n\t" ++ "xvmaddadp 36, 40, 32 \n\t" ++ "xvmaddadp 37, 41, 32 \n\t" + +- "lxvd2x 48, 0, %6 \n\t" // a0[0], a0[1] +- "lxvd2x 49,%4, %6 \n\t" // a0[2], a0[3] ++ "lxvd2x 40, 0, %3 \n\t" // a0[0], a0[1] ++ "lxvd2x 41, %10, %3 \n\t" // a0[2], a0[3] + +- "xvmaddadp 40, 50, 33 \n\t" +- "addi %6, %6, 32 \n\t" +- "xvmaddadp 41, 51, 33 \n\t" ++ "xvmaddadp 36, 42, 33 \n\t" ++ "addi %3, %3, 32 \n\t" ++ "xvmaddadp 37, 43, 33 \n\t" + +- "lxvd2x 50, 0, %7 \n\t" // a1[0], a1[1] +- "lxvd2x 51,%4, %7 \n\t" // a1[2], a1[3] ++ "lxvd2x 42, 0, %4 \n\t" // a1[0], a1[1] ++ "lxvd2x 43, %10, %4 \n\t" // a1[2], a1[3] + +- "xvmaddadp 40, 52, 34 \n\t" +- "addi %7, %7, 32 \n\t" +- "xvmaddadp 41, 53, 34 \n\t" ++ "xvmaddadp 36, 44, 34 \n\t" ++ "addi %4, %4, 32 \n\t" ++ "xvmaddadp 37, 45, 34 \n\t" + +- "lxvd2x 52, 0, %8 \n\t" // a2[0], a2[1] +- "lxvd2x 53,%4, %8 \n\t" // a2[2], a2[3] ++ "lxvd2x 44, 0, %5 \n\t" // a2[0], a2[1] ++ "lxvd2x 45, %10, %5 \n\t" // a2[2], a2[3] + +- "xvmaddadp 40, 54, 35 \n\t" +- "addi %8, %8, 32 \n\t" +- "xvmaddadp 41, 55, 35 \n\t" ++ "xvmaddadp 36, 46, 35 \n\t" ++ "addi %5, %5, 32 \n\t" ++ "xvmaddadp 37, 47, 35 \n\t" + +- "stxvd2x 40, 0, %2 \n\t" // y0, y1 +- "stxvd2x 41,%4, %2 \n\t" // y2, y3 ++ "stxvd2x 36, 0, %2 \n\t" // y0, y1 ++ "stxvd2x 37, %10, %2 \n\t" // y2, y3 + +- "lxvd2x 54, 0, %9 \n\t" // a3[0], a3[1] +- "lxvd2x 55,%4, %9 \n\t" // a3[2], a3[3] ++ "lxvd2x 46, 0, %6 \n\t" // a3[0], a3[1] ++ "lxvd2x 47, %10, %6 \n\t" // a3[2], a3[3] + +- "addi %9, %9, 32 \n\t" +- "addi %2, %2, 32 \n\t" ++ "addi %6, %6, 32 \n\t" ++ "addi %2, %2, 32 \n\t" + +- "addic. %0 , %0 , -4 \n\t" +- "ble 2f \n\t" ++ "addic. %1, %1, -4 \n\t" ++ "ble 2f \n\t" + + +- "lxvd2x 40, 0, %2 \n\t" // y0, y1 +- "lxvd2x 41,%4, %2 \n\t" // y2, y3 +- +- "xvmaddadp 40, 48, 32 \n\t" +- "xvmaddadp 41, 49, 32 \n\t" ++ "lxvd2x 36, 0, %2 \n\t" // y0, y1 ++ "lxvd2x 37, %10, %2 \n\t" // y2, y3 + +- "lxvd2x 48, 0, %6 \n\t" // a0[0], a0[1] +- "lxvd2x 49,%4, %6 \n\t" // a0[2], a0[3] ++ "xvmaddadp 36, 40, 32 \n\t" ++ "xvmaddadp 37, 41, 32 \n\t" + +- "xvmaddadp 40, 50, 33 \n\t" +- "addi %6, %6, 32 \n\t" +- "xvmaddadp 41, 51, 33 \n\t" ++ "lxvd2x 40, 0, %3 \n\t" // a0[0], a0[1] ++ "lxvd2x 41, %10, %3 \n\t" // a0[2], a0[3] + +- "lxvd2x 50, 0, %7 \n\t" // a1[0], a1[1] +- "lxvd2x 51,%4, %7 \n\t" // a1[2], a1[3] ++ "xvmaddadp 36, 42, 33 \n\t" ++ "addi %3, %3, 32 \n\t" ++ "xvmaddadp 37, 43, 33 \n\t" + +- "xvmaddadp 40, 52, 34 \n\t" +- "addi %7, %7, 32 \n\t" +- "xvmaddadp 41, 53, 34 \n\t" ++ "lxvd2x 42, 0, %4 \n\t" // a1[0], a1[1] ++ "lxvd2x 43, %10, %4 \n\t" // a1[2], a1[3] + +- "lxvd2x 52, 0, %8 \n\t" // a2[0], a2[1] +- "lxvd2x 53,%4, %8 \n\t" // a2[2], a2[3] ++ "xvmaddadp 36, 44, 34 \n\t" ++ "addi %4, %4, 32 \n\t" ++ "xvmaddadp 37, 45, 34 \n\t" + +- "xvmaddadp 40, 54, 35 \n\t" +- "addi %8, %8, 32 \n\t" +- "xvmaddadp 41, 55, 35 \n\t" ++ "lxvd2x 44, 0, %5 \n\t" // a2[0], a2[1] ++ "lxvd2x 45, %10, %5 \n\t" // a2[2], a2[3] + +- "stxvd2x 40, 0, %2 \n\t" // y0, y1 +- "stxvd2x 41,%4, %2 \n\t" // y2, y3 ++ "xvmaddadp 36, 46, 35 \n\t" ++ "addi %5, %5, 32 \n\t" ++ "xvmaddadp 37, 47, 35 \n\t" + +- "lxvd2x 54, 0, %9 \n\t" // a3[0], a3[1] +- "lxvd2x 55,%4, %9 \n\t" // a3[2], a3[3] ++ "stxvd2x 36, 0, %2 \n\t" // y0, y1 ++ "stxvd2x 37, %10, %2 \n\t" // y2, y3 + +- "addi %9, %9, 32 \n\t" +- "addi %2, %2, 32 \n\t" ++ "lxvd2x 46, 0, %6 \n\t" // a3[0], a3[1] ++ "lxvd2x 47, %10, %6 \n\t" // a3[2], a3[3] + +- "addic. %0 , %0 , -4 \n\t" +- "ble 2f \n\t" ++ "addi %6, %6, 32 \n\t" ++ "addi %2, %2, 32 \n\t" + ++ "addic. %1, %1, -4 \n\t" ++ "ble 2f \n\t" + +- "lxvd2x 40, 0, %2 \n\t" // y0, y1 +- "lxvd2x 41,%4, %2 \n\t" // y2, y3 +- +- "xvmaddadp 40, 48, 32 \n\t" +- "xvmaddadp 41, 49, 32 \n\t" + +- "lxvd2x 48, 0, %6 \n\t" // a0[0], a0[1] +- "lxvd2x 49,%4, %6 \n\t" // a0[2], a0[3] ++ "lxvd2x 36, 0, %2 \n\t" // y0, y1 ++ "lxvd2x 37, %10, %2 \n\t" // y2, y3 + +- "xvmaddadp 40, 50, 33 \n\t" +- "addi %6, %6, 32 \n\t" +- "xvmaddadp 41, 51, 33 \n\t" ++ "xvmaddadp 36, 40, 32 \n\t" ++ "xvmaddadp 37, 41, 32 \n\t" + +- "lxvd2x 50, 0, %7 \n\t" // a1[0], a1[1] +- "lxvd2x 51,%4, %7 \n\t" // a1[2], a1[3] ++ "lxvd2x 40, 0, %3 \n\t" // a0[0], a0[1] ++ "lxvd2x 41, %10, %3 \n\t" // a0[2], a0[3] + +- "xvmaddadp 40, 52, 34 \n\t" +- "addi %7, %7, 32 \n\t" +- "xvmaddadp 41, 53, 34 \n\t" ++ "xvmaddadp 36, 42, 33 \n\t" ++ "addi %3, %3, 32 \n\t" ++ "xvmaddadp 37, 43, 33 \n\t" + +- "lxvd2x 52, 0, %8 \n\t" // a2[0], a2[1] +- "lxvd2x 53,%4, %8 \n\t" // a2[2], a2[3] ++ "lxvd2x 42, 0, %4 \n\t" // a1[0], a1[1] ++ "lxvd2x 43, %10, %4 \n\t" // a1[2], a1[3] + +- "xvmaddadp 40, 54, 35 \n\t" +- "addi %8, %8, 32 \n\t" +- "xvmaddadp 41, 55, 35 \n\t" ++ "xvmaddadp 36, 44, 34 \n\t" ++ "addi %4, %4, 32 \n\t" ++ "xvmaddadp 37, 45, 34 \n\t" + +- "stxvd2x 40, 0, %2 \n\t" // y0, y1 +- "stxvd2x 41,%4, %2 \n\t" // y2, y3 ++ "lxvd2x 44, 0, %5 \n\t" // a2[0], a2[1] ++ "lxvd2x 45, %10, %5 \n\t" // a2[2], a2[3] + +- "lxvd2x 54, 0, %9 \n\t" // a3[0], a3[1] +- "lxvd2x 55,%4, %9 \n\t" // a3[2], a3[3] ++ "xvmaddadp 36, 46, 35 \n\t" ++ "addi %5, %5, 32 \n\t" ++ "xvmaddadp 37, 47, 35 \n\t" + +- "addi %9, %9, 32 \n\t" +- "addi %2, %2, 32 \n\t" ++ "stxvd2x 36, 0, %2 \n\t" // y0, y1 ++ "stxvd2x 37, %10, %2 \n\t" // y2, y3 + +- "addic. %0 , %0 , -4 \n\t" +- "ble 2f \n\t" ++ "lxvd2x 46, 0, %6 \n\t" // a3[0], a3[1] ++ "lxvd2x 47, %10, %6 \n\t" // a3[2], a3[3] + ++ "addi %6, %6, 32 \n\t" ++ "addi %2, %2, 32 \n\t" + +- "lxvd2x 40, 0, %2 \n\t" // y0, y1 +- "lxvd2x 41,%4, %2 \n\t" // y2, y3 +- +- "xvmaddadp 40, 48, 32 \n\t" +- "xvmaddadp 41, 49, 32 \n\t" ++ "addic. %1, %1, -4 \n\t" ++ "ble 2f \n\t" + +- "lxvd2x 48, 0, %6 \n\t" // a0[0], a0[1] +- "lxvd2x 49,%4, %6 \n\t" // a0[2], a0[3] + +- "xvmaddadp 40, 50, 33 \n\t" +- "addi %6, %6, 32 \n\t" +- "xvmaddadp 41, 51, 33 \n\t" ++ "lxvd2x 36, 0, %2 \n\t" // y0, y1 ++ "lxvd2x 37, %10, %2 \n\t" // y2, y3 + +- "lxvd2x 50, 0, %7 \n\t" // a1[0], a1[1] +- "lxvd2x 51,%4, %7 \n\t" // a1[2], a1[3] ++ "xvmaddadp 36, 40, 32 \n\t" ++ "xvmaddadp 37, 41, 32 \n\t" + +- "xvmaddadp 40, 52, 34 \n\t" +- "addi %7, %7, 32 \n\t" +- "xvmaddadp 41, 53, 34 \n\t" ++ "lxvd2x 40, 0, %3 \n\t" // a0[0], a0[1] ++ "lxvd2x 41, %10, %3 \n\t" // a0[2], a0[3] + +- "lxvd2x 52, 0, %8 \n\t" // a2[0], a2[1] +- "lxvd2x 53,%4, %8 \n\t" // a2[2], a2[3] ++ "xvmaddadp 36, 42, 33 \n\t" ++ "addi %3, %3, 32 \n\t" ++ "xvmaddadp 37, 43, 33 \n\t" + +- "xvmaddadp 40, 54, 35 \n\t" +- "addi %8, %8, 32 \n\t" +- "xvmaddadp 41, 55, 35 \n\t" ++ "lxvd2x 42, 0, %4 \n\t" // a1[0], a1[1] ++ "lxvd2x 43, %10, %4 \n\t" // a1[2], a1[3] + +- "stxvd2x 40, 0, %2 \n\t" // y0, y1 +- "stxvd2x 41,%4, %2 \n\t" // y2, y3 ++ "xvmaddadp 36, 44, 34 \n\t" ++ "addi %4, %4, 32 \n\t" ++ "xvmaddadp 37, 45, 34 \n\t" + +- "lxvd2x 54, 0, %9 \n\t" // a3[0], a3[1] +- "lxvd2x 55,%4, %9 \n\t" // a3[2], a3[3] ++ "lxvd2x 44, 0, %5 \n\t" // a2[0], a2[1] ++ "lxvd2x 45, %10, %5 \n\t" // a2[2], a2[3] + +- "addi %9, %9, 32 \n\t" +- "addi %2, %2, 32 \n\t" ++ "xvmaddadp 36, 46, 35 \n\t" ++ "addi %5, %5, 32 \n\t" ++ "xvmaddadp 37, 47, 35 \n\t" + +- "addic. %0 , %0 , -4 \n\t" +- "bgt 1b \n\t" ++ "stxvd2x 36, 0, %2 \n\t" // y0, y1 ++ "stxvd2x 37, %10, %2 \n\t" // y2, y3 + +- "2: \n\t" ++ "lxvd2x 46, 0, %6 \n\t" // a3[0], a3[1] ++ "lxvd2x 47, %10, %6 \n\t" // a3[2], a3[3] + +- "lxvd2x 40, 0, %2 \n\t" // y0, y1 +- "lxvd2x 41,%4, %2 \n\t" // y2, y3 ++ "addi %6, %6, 32 \n\t" ++ "addi %2, %2, 32 \n\t" + +- "xvmaddadp 40, 48, 32 \n\t" +- "xvmaddadp 41, 49, 32 \n\t" ++ "addic. %1, %1, -4 \n\t" ++ "bgt 1b \n" + +- "xvmaddadp 40, 50, 33 \n\t" +- "xvmaddadp 41, 51, 33 \n\t" ++ "2: \n\t" + +- "xvmaddadp 40, 52, 34 \n\t" +- "xvmaddadp 41, 53, 34 \n\t" ++ "lxvd2x 36, 0, %2 \n\t" // y0, y1 ++ "lxvd2x 37, %10, %2 \n\t" // y2, y3 + +- "xvmaddadp 40, 54, 35 \n\t" +- "xvmaddadp 41, 55, 35 \n\t" ++ "xvmaddadp 36, 40, 32 \n\t" ++ "xvmaddadp 37, 41, 32 \n\t" + +- "stxvd2x 40, 0, %2 \n\t" // y0, y1 +- "stxvd2x 41,%4, %2 \n\t" // y2, y3 ++ "xvmaddadp 36, 42, 33 \n\t" ++ "xvmaddadp 37, 43, 33 \n\t" + +- : +- : +- "r" (i), // 0 +- "r" (x), // 1 +- "r" (y1), // 2 +- "r" (o8), // 3 +- "r" (o16), // 4 +- "r" (o24), // 5 +- "r" (a0), // 6 +- "r" (a1), // 7 +- "r" (a2), // 8 +- "r" (a3), // 9 +- "r" (pre) // 10 +- : "cr0", "%0", "%2" , "%6", "%7", "%8", "%9", "memory" +- ); ++ "xvmaddadp 36, 44, 34 \n\t" ++ "xvmaddadp 37, 45, 34 \n\t" + +-} ++ "xvmaddadp 36, 46, 35 \n\t" ++ "xvmaddadp 37, 47, 35 \n\t" + ++ "stxvd2x 36, 0, %2 \n\t" // y0, y1 ++ "stxvd2x 37, %10, %2 \n" // y2, y3 + ++ "#n=%1 ap=%11 lda=%12 x=%7=%9 y=%0=%2 alpha=%8 o16=%10\n" ++ "#a0=%3 a1=%4 a2=%5 a3=%6" ++ : ++ "=m" (*y), ++ "+r" (n), // 1 ++ "+b" (y), // 2 ++ "=b" (a0), // 3 ++ "=b" (a1), // 4 ++ "=&b" (a2), // 5 ++ "=&b" (a3) // 6 ++ : ++ "m" (*x), ++ "d" (alpha), // 8 ++ "r" (x), // 9 ++ "b" (16), // 10 ++ "3" (ap), // 11 ++ "4" (lda) // 12 ++ : ++ "cr0", ++ "vs32","vs33","vs34","vs35","vs36","vs37", ++ "vs40","vs41","vs42","vs43","vs44","vs45","vs46","vs47" ++ ); ++} +diff --git a/kernel/power/drot.c b/kernel/power/drot.c +index c93f69b12..3e107486f 100644 +--- a/kernel/power/drot.c ++++ b/kernel/power/drot.c +@@ -46,7 +46,7 @@ USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. + + #ifndef HAVE_KERNEL_16 + +-static void drot_kernel_16(BLASLONG n, FLOAT *x, FLOAT *y, FLOAT *c, FLOAT *s) ++static void drot_kernel_16(BLASLONG n, FLOAT *x, FLOAT *y, FLOAT c, FLOAT s) + { + + BLASLONG i=0; +@@ -56,8 +56,6 @@ static void drot_kernel_16(BLASLONG n, FLOAT *x, FLOAT *y, FLOAT *c, FLOAT *s) + FLOAT y00, y01, y02, y03; + FLOAT *x1=x; + FLOAT *y1=y; +- FLOAT c1=*c; +- FLOAT s1=*s; + + while ( i 0 ) + { +- c1[0]=c; +- c1[1]=c; +- c1[2]=c; +- c1[3]=c; +- s1[0]=s; +- s1[1]=s; +- s1[2]=s; +- s1[3]=s; +- drot_kernel_16(n1, x1, y1, c1, s1); ++ drot_kernel_16(n1, x1, y1, c, s); + i=n1; + } + +diff --git a/kernel/power/drot_microk_power8.c b/kernel/power/drot_microk_power8.c +index 4444ac7eb..016b7764d 100644 +--- a/kernel/power/drot_microk_power8.c ++++ b/kernel/power/drot_microk_power8.c +@@ -38,174 +38,176 @@ USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. + + #define HAVE_KERNEL_16 1 + +-static void drot_kernel_16( BLASLONG n, FLOAT *x, FLOAT *y, FLOAT *c, FLOAT *s) __attribute__ ((noinline)); +- +-static void drot_kernel_16( BLASLONG n, FLOAT *x, FLOAT *y, FLOAT *c, FLOAT *s) ++static void drot_kernel_16 (long n, double *x, double *y, double c, double s) + { ++ __vector double t0; ++ __vector double t1; ++ __vector double t2; ++ __vector double t3; ++ __vector double t4; ++ __vector double t5; ++ __vector double t6; ++ __vector double t7; + ++ __asm__ ++ ( ++ "xxspltd 36, %x13, 0 \n\t" // load c to both dwords ++ "xxspltd 37, %x14, 0 \n\t" // load s to both dwords + +- BLASLONG i = n; +- BLASLONG o16 = 16; +- BLASLONG o32 = 32; +- BLASLONG o48 = 48; +- FLOAT *x1=x; +- FLOAT *y1=y; +- FLOAT *x2=x+1; +- FLOAT *y2=y+1; +- +- __asm__ __volatile__ +- ( +- +- "lxsdx 36 , %5, %3 \n\t" // load c +- "lxsdx 37 , %5, %4 \n\t" // load s +- "addi %8 , %8, -8 \n\t" +- "addi %9 , %9, -8 \n\t" +- +- "xxspltd 36 , 36, 0 \n\t" +- "xxspltd 37 , 37, 0 \n\t" +- +- "lxvd2x 32, 0, %1 \n\t" // load x +- "lxvd2x 33, %5, %1 \n\t" +- "lxvd2x 34, %6, %1 \n\t" +- "lxvd2x 35, %7, %1 \n\t" +- +- "lxvd2x 40, 0, %2 \n\t" // load y +- "lxvd2x 41, %5, %2 \n\t" +- "lxvd2x 42, %6, %2 \n\t" +- "lxvd2x 43, %7, %2 \n\t" +- +- "addi %1, %1, 64 \n\t" +- "addi %2, %2, 64 \n\t" +- +- "addic. %0 , %0 , -8 \n\t" +- "ble 2f \n\t" +- +- ".align 5 \n\t" +- "1: \n\t" +- +- "xvmuldp 48, 32, 36 \n\t" // c * x +- "xvmuldp 49, 33, 36 \n\t" +- "xvmuldp 50, 34, 36 \n\t" +- "xvmuldp 51, 35, 36 \n\t" +- +- "xvmuldp 56, 40, 36 \n\t" // c * y +- "xvmuldp 57, 41, 36 \n\t" +- "xvmuldp 58, 42, 36 \n\t" +- "xvmuldp 59, 43, 36 \n\t" +- +- "xvmuldp 52, 32, 37 \n\t" // s * x +- "xvmuldp 53, 33, 37 \n\t" +- +- "lxvd2x 32, 0, %1 \n\t" // load x +- "lxvd2x 33, %5, %1 \n\t" +- +- "xvmuldp 54, 34, 37 \n\t" +- "xvmuldp 55, 35, 37 \n\t" +- +- "lxvd2x 34, %6, %1 \n\t" +- "lxvd2x 35, %7, %1 \n\t" +- +- "xvmuldp 60, 40, 37 \n\t" // s * y +- "xvmuldp 61, 41, 37 \n\t" +- +- "lxvd2x 40, 0, %2 \n\t" // load y +- "lxvd2x 41, %5, %2 \n\t" +- +- "xvmuldp 62, 42, 37 \n\t" +- "xvmuldp 63, 43, 37 \n\t" +- +- "lxvd2x 42, %6, %2 \n\t" +- "lxvd2x 43, %7, %2 \n\t" +- +- "xvadddp 48, 48 , 60 \n\t" // c * x + s * y +- "xvadddp 49, 49 , 61 \n\t" // c * x + s * y +- +- "addi %1, %1, 64 \n\t" +- "addi %2, %2, 64 \n\t" +- +- "xvadddp 50, 50 , 62 \n\t" // c * x + s * y +- "xvadddp 51, 51 , 63 \n\t" // c * x + s * y +- +- "xvsubdp 56, 56 , 52 \n\t" // c * y - s * x +- "xvsubdp 57, 57 , 53 \n\t" // c * y - s * x +- "xvsubdp 58, 58 , 54 \n\t" // c * y - s * x +- "xvsubdp 59, 59 , 55 \n\t" // c * y - s * x +- +- "stxvd2x 48, 0, %8 \n\t" // store x +- "stxvd2x 49, %5, %8 \n\t" +- "stxvd2x 50, %6, %8 \n\t" +- "stxvd2x 51, %7, %8 \n\t" +- +- "stxvd2x 56, 0, %9 \n\t" // store y +- "stxvd2x 57, %5, %9 \n\t" +- "stxvd2x 58, %6, %9 \n\t" +- "stxvd2x 59, %7, %9 \n\t" +- +- "addi %8, %8, 64 \n\t" +- "addi %9, %9, 64 \n\t" +- +- "addic. %0 , %0 , -8 \n\t" +- "bgt 1b \n\t" +- +- "2: \n\t" +- +- "xvmuldp 48, 32, 36 \n\t" // c * x +- "xvmuldp 49, 33, 36 \n\t" +- "xvmuldp 50, 34, 36 \n\t" +- "xvmuldp 51, 35, 36 \n\t" +- +- "xvmuldp 56, 40, 36 \n\t" // c * y +- "xvmuldp 57, 41, 36 \n\t" +- "xvmuldp 58, 42, 36 \n\t" +- "xvmuldp 59, 43, 36 \n\t" +- +- "xvmuldp 52, 32, 37 \n\t" // s * x +- "xvmuldp 53, 33, 37 \n\t" +- "xvmuldp 54, 34, 37 \n\t" +- "xvmuldp 55, 35, 37 \n\t" +- +- "xvmuldp 60, 40, 37 \n\t" // s * y +- "xvmuldp 61, 41, 37 \n\t" +- "xvmuldp 62, 42, 37 \n\t" +- "xvmuldp 63, 43, 37 \n\t" +- +- "xvadddp 48, 48 , 60 \n\t" // c * x + s * y +- "xvadddp 49, 49 , 61 \n\t" // c * x + s * y +- "xvadddp 50, 50 , 62 \n\t" // c * x + s * y +- "xvadddp 51, 51 , 63 \n\t" // c * x + s * y +- +- "xvsubdp 56, 56 , 52 \n\t" // c * y - s * x +- "xvsubdp 57, 57 , 53 \n\t" // c * y - s * x +- "xvsubdp 58, 58 , 54 \n\t" // c * y - s * x +- "xvsubdp 59, 59 , 55 \n\t" // c * y - s * x +- +- "stxvd2x 48, 0, %8 \n\t" // store x +- "stxvd2x 49, %5, %8 \n\t" +- "stxvd2x 50, %6, %8 \n\t" +- "stxvd2x 51, %7, %8 \n\t" ++ "lxvd2x 32, 0, %3 \n\t" // load x ++ "lxvd2x 33, %15, %3 \n\t" ++ "lxvd2x 34, %16, %3 \n\t" ++ "lxvd2x 35, %17, %3 \n\t" + +- "stxvd2x 56, 0, %9 \n\t" // store y +- "stxvd2x 57, %5, %9 \n\t" +- "stxvd2x 58, %6, %9 \n\t" +- "stxvd2x 59, %7, %9 \n\t" ++ "lxvd2x 48, 0, %4 \n\t" // load y ++ "lxvd2x 49, %15, %4 \n\t" ++ "lxvd2x 50, %16, %4 \n\t" ++ "lxvd2x 51, %17, %4 \n\t" + ++ "addi %3, %3, 64 \n\t" ++ "addi %4, %4, 64 \n\t" + ++ "addic. %2, %2, -8 \n\t" ++ "ble 2f \n\t" + +- : +- : +- "r" (i), // 0 +- "r" (x1), // 1 +- "r" (y1), // 2 +- "r" (c), // 3 +- "r" (s), // 4 +- "r" (o16), // 5 +- "r" (o32), // 6 +- "r" (o48), // 7 +- "r" (x2), // 8 +- "r" (y2) // 9 +- : "cr0", "%0", "%1" , "%2", "%8", "%9", "memory" +- ); ++ ".p2align 5 \n" ++ "1: \n\t" + +-} ++ "xvmuldp 40, 32, 36 \n\t" // c * x ++ "xvmuldp 41, 33, 36 \n\t" ++ "xvmuldp 42, 34, 36 \n\t" ++ "xvmuldp 43, 35, 36 \n\t" + ++ "xvmuldp %x5, 48, 36 \n\t" // c * y ++ "xvmuldp %x6, 49, 36 \n\t" ++ "xvmuldp %x7, 50, 36 \n\t" ++ "xvmuldp %x8, 51, 36 \n\t" + ++ "xvmuldp 44, 32, 37 \n\t" // s * x ++ "xvmuldp 45, 33, 37 \n\t" ++ ++ "lxvd2x 32, 0, %3 \n\t" // load x ++ "lxvd2x 33, %15, %3 \n\t" ++ ++ "xvmuldp 46, 34, 37 \n\t" ++ "xvmuldp 47, 35, 37 \n\t" ++ ++ "lxvd2x 34, %16, %3 \n\t" ++ "lxvd2x 35, %17, %3 \n\t" ++ ++ "xvmuldp %x9, 48, 37 \n\t" // s * y ++ "xvmuldp %x10, 49, 37 \n\t" ++ ++ "lxvd2x 48, 0, %4 \n\t" // load y ++ "lxvd2x 49, %15, %4 \n\t" ++ ++ "xvmuldp %x11, 50, 37 \n\t" ++ "xvmuldp %x12, 51, 37 \n\t" ++ ++ "lxvd2x 50, %16, %4 \n\t" ++ "lxvd2x 51, %17, %4 \n\t" ++ ++ "xvadddp 40, 40, %x9 \n\t" // c * x + s * y ++ "xvadddp 41, 41, %x10 \n\t" // c * x + s * y ++ ++ "addi %3, %3, -64 \n\t" ++ "addi %4, %4, -64 \n\t" ++ ++ "xvadddp 42, 42, %x11 \n\t" // c * x + s * y ++ "xvadddp 43, 43, %x12 \n\t" // c * x + s * y ++ ++ "xvsubdp %x5, %x5, 44 \n\t" // c * y - s * x ++ "xvsubdp %x6, %x6, 45 \n\t" // c * y - s * x ++ "xvsubdp %x7, %x7, 46 \n\t" // c * y - s * x ++ "xvsubdp %x8, %x8, 47 \n\t" // c * y - s * x ++ ++ "stxvd2x 40, 0, %3 \n\t" // store x ++ "stxvd2x 41, %15, %3 \n\t" ++ "stxvd2x 42, %16, %3 \n\t" ++ "stxvd2x 43, %17, %3 \n\t" ++ ++ "stxvd2x %x5, 0, %4 \n\t" // store y ++ "stxvd2x %x6, %15, %4 \n\t" ++ "stxvd2x %x7, %16, %4 \n\t" ++ "stxvd2x %x8, %17, %4 \n\t" ++ ++ "addi %3, %3, 128 \n\t" ++ "addi %4, %4, 128 \n\t" ++ ++ "addic. %2, %2, -8 \n\t" ++ "bgt 1b \n" ++ ++ "2: \n\t" ++ ++ "xvmuldp 40, 32, 36 \n\t" // c * x ++ "xvmuldp 41, 33, 36 \n\t" ++ "xvmuldp 42, 34, 36 \n\t" ++ "xvmuldp 43, 35, 36 \n\t" ++ ++ "xvmuldp %x5, 48, 36 \n\t" // c * y ++ "xvmuldp %x6, 49, 36 \n\t" ++ "xvmuldp %x7, 50, 36 \n\t" ++ "xvmuldp %x8, 51, 36 \n\t" ++ ++ "xvmuldp 44, 32, 37 \n\t" // s * x ++ "xvmuldp 45, 33, 37 \n\t" ++ "xvmuldp 46, 34, 37 \n\t" ++ "xvmuldp 47, 35, 37 \n\t" ++ ++ "xvmuldp %x9, 48, 37 \n\t" // s * y ++ "xvmuldp %x10, 49, 37 \n\t" ++ "xvmuldp %x11, 50, 37 \n\t" ++ "xvmuldp %x12, 51, 37 \n\t" ++ ++ "addi %3, %3, -64 \n\t" ++ "addi %4, %4, -64 \n\t" ++ ++ "xvadddp 40, 40, %x9 \n\t" // c * x + s * y ++ "xvadddp 41, 41, %x10 \n\t" // c * x + s * y ++ "xvadddp 42, 42, %x11 \n\t" // c * x + s * y ++ "xvadddp 43, 43, %x12 \n\t" // c * x + s * y ++ ++ "xvsubdp %x5, %x5, 44 \n\t" // c * y - s * x ++ "xvsubdp %x6, %x6, 45 \n\t" // c * y - s * x ++ "xvsubdp %x7, %x7, 46 \n\t" // c * y - s * x ++ "xvsubdp %x8, %x8, 47 \n\t" // c * y - s * x ++ ++ "stxvd2x 40, 0, %3 \n\t" // store x ++ "stxvd2x 41, %15, %3 \n\t" ++ "stxvd2x 42, %16, %3 \n\t" ++ "stxvd2x 43, %17, %3 \n\t" ++ ++ "stxvd2x %x5, 0, %4 \n\t" // store y ++ "stxvd2x %x6, %15, %4 \n\t" ++ "stxvd2x %x7, %16, %4 \n\t" ++ "stxvd2x %x8, %17, %4 \n" ++ ++ "#n=%2 x=%0=%3 y=%1=%4 c=%13 s=%14 o16=%15 o32=%16 o48=%17\n" ++ "#t0=%x5 t1=%x6 t2=%x7 t3=%x8 t4=%x9 t5=%x10 t6=%x11 t7=%x12" ++ : ++ "+m" (*x), ++ "+m" (*y), ++ "+r" (n), // 2 ++ "+b" (x), // 3 ++ "+b" (y), // 4 ++ "=wa" (t0), // 5 ++ "=wa" (t1), // 6 ++ "=wa" (t2), // 7 ++ "=wa" (t3), // 8 ++ "=wa" (t4), // 9 ++ "=wa" (t5), // 10 ++ "=wa" (t6), // 11 ++ "=wa" (t7) // 12 ++ : ++ "d" (c), // 13 ++ "d" (s), // 14 ++ "b" (16), // 15 ++ "b" (32), // 16 ++ "b" (48) // 17 ++ : ++ "cr0", ++ "vs32","vs33","vs34","vs35","vs36","vs37", ++ "vs40","vs41","vs42","vs43","vs44","vs45","vs46","vs47", ++ "vs48","vs49","vs50","vs51" ++ ); ++} +diff --git a/kernel/power/dscal.c b/kernel/power/dscal.c +index c62a56315..f32dc4bad 100644 +--- a/kernel/power/dscal.c ++++ b/kernel/power/dscal.c +@@ -41,11 +41,10 @@ USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. + + #if !defined(HAVE_KERNEL_8) + +-static void dscal_kernel_8( BLASLONG n, FLOAT *da , FLOAT *x ) ++static void dscal_kernel_8 (BLASLONG n, FLOAT *x, FLOAT alpha) + { + + BLASLONG i; +- FLOAT alpha = *da; + + for( i=0; i 0 ) + { +- FLOAT alpha[2]; +- alpha[0]=da; +- alpha[1]=da; +- dscal_kernel_8_zero(n1 , alpha , x); ++ dscal_kernel_8_zero(n1, x); + j=n1; + } + +@@ -123,10 +119,7 @@ int CNAME(BLASLONG n, BLASLONG dummy0, BLASLONG dummy1, FLOAT da, FLOAT *x, BLAS + BLASLONG n1 = n & -16; + if ( n1 > 0 ) + { +- FLOAT alpha[2]; +- alpha[0]=da; +- alpha[1]=da; +- dscal_kernel_8(n1 , alpha , x); ++ dscal_kernel_8(n1, x, da); + j=n1; + } + while(j < n) +diff --git a/kernel/power/dscal_microk_power8.c b/kernel/power/dscal_microk_power8.c +index d90c3d80c..04898eb3d 100644 +--- a/kernel/power/dscal_microk_power8.c ++++ b/kernel/power/dscal_microk_power8.c +@@ -35,185 +35,149 @@ USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. + + #define HAVE_KERNEL_8 1 + +-static void dscal_kernel_8( BLASLONG n, FLOAT *alpha, FLOAT *x) __attribute__ ((noinline)); +- +-static void dscal_kernel_8( BLASLONG n, FLOAT *alpha, FLOAT *x) ++static void dscal_kernel_8 (long n, double *x, double alpha) + { +- +- +- BLASLONG i = n; +- BLASLONG o16 = 16; +- BLASLONG o32 = 32; +- BLASLONG o48 = 48; +- BLASLONG o64 = 64; +- BLASLONG o80 = 80; +- BLASLONG o96 = 96; +- BLASLONG o112 = 112; +- FLOAT *x1=x; +- FLOAT *x2=x+1; +- BLASLONG pre = 384; +- +- __asm__ __volatile__ +- ( +- +- "lxsdx 33, 0, %3 \n\t" +- "xxspltd 32, 33, 0 \n\t" +- "addi %1, %1, -8 \n\t" +- +- "dcbt %2, %4 \n\t" +- +- "lxvd2x 40, 0, %2 \n\t" +- "lxvd2x 41, %5, %2 \n\t" +- "lxvd2x 42, %6, %2 \n\t" +- "lxvd2x 43, %7, %2 \n\t" +- "lxvd2x 44, %8, %2 \n\t" +- "lxvd2x 45, %9, %2 \n\t" +- "lxvd2x 46, %10, %2 \n\t" +- "lxvd2x 47, %11, %2 \n\t" +- +- "addi %2, %2, 128 \n\t" +- +- "addic. %0 , %0 , -16 \n\t" +- "ble 2f \n\t" +- +- ".align 5 \n\t" +- "1: \n\t" +- +- "dcbt %2, %4 \n\t" +- +- "xvmuldp 48, 40, 32 \n\t" +- "xvmuldp 49, 41, 32 \n\t" +- "lxvd2x 40, 0, %2 \n\t" +- "lxvd2x 41, %5, %2 \n\t" +- "xvmuldp 50, 42, 32 \n\t" +- "xvmuldp 51, 43, 32 \n\t" +- "lxvd2x 42, %6, %2 \n\t" +- "lxvd2x 43, %7, %2 \n\t" +- "xvmuldp 52, 44, 32 \n\t" +- "xvmuldp 53, 45, 32 \n\t" +- "lxvd2x 44, %8, %2 \n\t" +- "lxvd2x 45, %9, %2 \n\t" +- "xvmuldp 54, 46, 32 \n\t" +- "xvmuldp 55, 47, 32 \n\t" +- "lxvd2x 46, %10, %2 \n\t" +- "lxvd2x 47, %11, %2 \n\t" +- +- "stxvd2x 48, 0, %1 \n\t" +- "stxvd2x 49, %5, %1 \n\t" +- "stxvd2x 50, %6, %1 \n\t" +- "stxvd2x 51, %7, %1 \n\t" +- "stxvd2x 52, %8, %1 \n\t" +- "stxvd2x 53, %9, %1 \n\t" +- "stxvd2x 54, %10, %1 \n\t" +- "stxvd2x 55, %11, %1 \n\t" +- +- "addi %1, %1, 128 \n\t" +- "addi %2, %2, 128 \n\t" +- +- "addic. %0 , %0 , -16 \n\t" +- "bgt 1b \n\t" +- +- "2: \n\t" +- +- "xvmuldp 48, 40, 32 \n\t" +- "xvmuldp 49, 41, 32 \n\t" +- "xvmuldp 50, 42, 32 \n\t" +- "xvmuldp 51, 43, 32 \n\t" +- "xvmuldp 52, 44, 32 \n\t" +- "xvmuldp 53, 45, 32 \n\t" +- "xvmuldp 54, 46, 32 \n\t" +- "xvmuldp 55, 47, 32 \n\t" +- +- "stxvd2x 48, 0, %1 \n\t" +- "stxvd2x 49, %5, %1 \n\t" +- "stxvd2x 50, %6, %1 \n\t" +- "stxvd2x 51, %7, %1 \n\t" +- "stxvd2x 52, %8, %1 \n\t" +- "stxvd2x 53, %9, %1 \n\t" +- "stxvd2x 54, %10, %1 \n\t" +- "stxvd2x 55, %11, %1 \n\t" +- +- : +- : +- "r" (i), // 0 +- "r" (x2), // 1 +- "r" (x1), // 2 +- "r" (alpha), // 3 +- "r" (pre), // 4 +- "r" (o16), // 5 +- "r" (o32), // 6 +- "r" (o48), // 7 +- "r" (o64), // 8 +- "r" (o80), // 9 +- "r" (o96), // 10 +- "r" (o112) // 11 +- : "cr0", "%0", "%2" , "%1", "memory" +- ); +- +-} +- +- +-static void dscal_kernel_8_zero( BLASLONG n, FLOAT *alpha, FLOAT *x) __attribute__ ((noinline)); +- +-static void dscal_kernel_8_zero( BLASLONG n, FLOAT *alpha, FLOAT *x) ++ __asm__ ++ ( ++ "dcbt 0, %2 \n\t" ++ ++ "xxspltd %x3, %x3, 0 \n\t" ++ ++ "lxvd2x 32, 0, %2 \n\t" ++ "lxvd2x 33, %4, %2 \n\t" ++ "lxvd2x 34, %5, %2 \n\t" ++ "lxvd2x 35, %6, %2 \n\t" ++ "lxvd2x 36, %7, %2 \n\t" ++ "lxvd2x 37, %8, %2 \n\t" ++ "lxvd2x 38, %9, %2 \n\t" ++ "lxvd2x 39, %10, %2 \n\t" ++ ++ "addi %2, %2, 128 \n\t" ++ ++ "addic. %1, %1, -16 \n\t" ++ "ble 2f \n\t" ++ ++ ".p2align 5 \n" ++ "1: \n\t" ++ ++ "xvmuldp 40, 32, %x3 \n\t" ++ "xvmuldp 41, 33, %x3 \n\t" ++ "lxvd2x 32, 0, %2 \n\t" ++ "lxvd2x 33, %4, %2 \n\t" ++ "xvmuldp 42, 34, %x3 \n\t" ++ "xvmuldp 43, 35, %x3 \n\t" ++ "lxvd2x 34, %5, %2 \n\t" ++ "lxvd2x 35, %6, %2 \n\t" ++ "xvmuldp 44, 36, %x3 \n\t" ++ "xvmuldp 45, 37, %x3 \n\t" ++ "lxvd2x 36, %7, %2 \n\t" ++ "lxvd2x 37, %8, %2 \n\t" ++ "xvmuldp 46, 38, %x3 \n\t" ++ "xvmuldp 47, 39, %x3 \n\t" ++ "lxvd2x 38, %9, %2 \n\t" ++ "lxvd2x 39, %10, %2 \n\t" ++ ++ "addi %2, %2, -128 \n\t" ++ ++ "stxvd2x 40, 0, %2 \n\t" ++ "stxvd2x 41, %4, %2 \n\t" ++ "stxvd2x 42, %5, %2 \n\t" ++ "stxvd2x 43, %6, %2 \n\t" ++ "stxvd2x 44, %7, %2 \n\t" ++ "stxvd2x 45, %8, %2 \n\t" ++ "stxvd2x 46, %9, %2 \n\t" ++ "stxvd2x 47, %10, %2 \n\t" ++ ++ "addi %2, %2, 256 \n\t" ++ ++ "addic. %1, %1, -16 \n\t" ++ "bgt 1b \n" ++ ++ "2: \n\t" ++ ++ "xvmuldp 40, 32, %x3 \n\t" ++ "xvmuldp 41, 33, %x3 \n\t" ++ "xvmuldp 42, 34, %x3 \n\t" ++ "xvmuldp 43, 35, %x3 \n\t" ++ ++ "addi %2, %2, -128 \n\t" ++ ++ "xvmuldp 44, 36, %x3 \n\t" ++ "xvmuldp 45, 37, %x3 \n\t" ++ "xvmuldp 46, 38, %x3 \n\t" ++ "xvmuldp 47, 39, %x3 \n\t" ++ ++ "stxvd2x 40, 0, %2 \n\t" ++ "stxvd2x 41, %4, %2 \n\t" ++ "stxvd2x 42, %5, %2 \n\t" ++ "stxvd2x 43, %6, %2 \n\t" ++ "stxvd2x 44, %7, %2 \n\t" ++ "stxvd2x 45, %8, %2 \n\t" ++ "stxvd2x 46, %9, %2 \n\t" ++ "stxvd2x 47, %10, %2 \n" ++ ++ "#n=%1 alpha=%3 x=%0=%2 o16=%4 o32=%5 o48=%6 o64=%7 o80=%8 o96=%9 o112=%10" ++ : ++ "+m" (*x), ++ "+r" (n), // 1 ++ "+b" (x) // 2 ++ : ++ "d" (alpha), // 3 ++ "b" (16), // 4 ++ "b" (32), // 5 ++ "b" (48), // 6 ++ "b" (64), // 7 ++ "b" (80), // 8 ++ "b" (96), // 9 ++ "b" (112) // 10 ++ : ++ "cr0", ++ "vs32","vs33","vs34","vs35","vs36","vs37","vs38","vs39", ++ "vs40","vs41","vs42","vs43","vs44","vs45","vs46","vs47" ++ ); ++} ++ ++ ++static void dscal_kernel_8_zero (long n, double *x) + { +- +- +- BLASLONG i = n; +- BLASLONG o16 = 16; +- BLASLONG o32 = 32; +- BLASLONG o48 = 48; +- BLASLONG o64 = 64; +- BLASLONG o80 = 80; +- BLASLONG o96 = 96; +- BLASLONG o112 = 112; +- FLOAT *x1=x; +- FLOAT *x2=x+1; +- BLASLONG pre = 384; +- +- __asm__ __volatile__ +- ( +- +- "xxlxor 32 , 32 , 32 \n\t" +- "addi %1, %1, -8 \n\t" +- +- +- ".align 5 \n\t" +- "1: \n\t" +- +- "stxvd2x 32, 0, %1 \n\t" +- "stxvd2x 32, %5, %1 \n\t" +- "stxvd2x 32, %6, %1 \n\t" +- "stxvd2x 32, %7, %1 \n\t" +- "stxvd2x 32, %8, %1 \n\t" +- "stxvd2x 32, %9, %1 \n\t" +- "stxvd2x 32, %10, %1 \n\t" +- "stxvd2x 32, %11, %1 \n\t" +- +- "addi %1, %1, 128 \n\t" +- +- "addic. %0 , %0 , -16 \n\t" +- "bgt 1b \n\t" +- +- "2: \n\t" +- +- : +- : +- "r" (i), // 0 +- "r" (x2), // 1 +- "r" (x1), // 2 +- "r" (alpha), // 3 +- "r" (pre), // 4 +- "r" (o16), // 5 +- "r" (o32), // 6 +- "r" (o48), // 7 +- "r" (o64), // 8 +- "r" (o80), // 9 +- "r" (o96), // 10 +- "r" (o112) // 11 +- : "cr0", "%0", "%2" , "%1", "memory" +- ); +- +-} +- +- ++ __vector double t0; ++ ++ __asm__ ++ ( ++ "xxlxor %x3, %x3, %x3 \n\t" ++ ++ ".p2align 5 \n" ++ "1: \n\t" ++ ++ "stxvd2x %x3, 0, %2 \n\t" ++ "stxvd2x %x3, %4, %2 \n\t" ++ "stxvd2x %x3, %5, %2 \n\t" ++ "stxvd2x %x3, %6, %2 \n\t" ++ "stxvd2x %x3, %7, %2 \n\t" ++ "stxvd2x %x3, %8, %2 \n\t" ++ "stxvd2x %x3, %9, %2 \n\t" ++ "stxvd2x %x3, %10, %2 \n\t" ++ ++ "addi %2, %2, 128 \n\t" ++ ++ "addic. %1, %1, -16 \n\t" ++ "bgt 1b \n" ++ ++ "#n=%1 x=%0=%2 t0=%x3 o16=%4 o32=%5 o48=%6 o64=%7 o80=%8 o96=%9 o112=%10" ++ : ++ "=m" (*x), ++ "+r" (n), // 1 ++ "+b" (x), // 2 ++ "=wa" (t0) // 3 ++ : ++ "b" (16), // 4 ++ "b" (32), // 5 ++ "b" (48), // 6 ++ "b" (64), // 7 ++ "b" (80), // 8 ++ "b" (96), // 9 ++ "b" (112) // 10 ++ : ++ "cr0" ++ ); ++} +diff --git a/kernel/power/dswap_microk_power8.c b/kernel/power/dswap_microk_power8.c +index 77747c3b9..31eff3449 100644 +--- a/kernel/power/dswap_microk_power8.c ++++ b/kernel/power/dswap_microk_power8.c +@@ -35,146 +35,124 @@ USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. + + #define HAVE_KERNEL_32 1 + +-static void dswap_kernel_32( BLASLONG n, FLOAT *x, FLOAT *y) __attribute__ ((noinline)); +- +-static void dswap_kernel_32( BLASLONG n, FLOAT *x, FLOAT *y) ++static void dswap_kernel_32 (long n, double *x, double *y) + { +- +- +- BLASLONG i = n; +- BLASLONG o16 = 16; +- BLASLONG o32 = 32; +- BLASLONG o48 = 48; +- BLASLONG o64 = 64; +- BLASLONG o80 = 80; +- BLASLONG o96 = 96; +- BLASLONG o112 = 112; +- FLOAT *x1=x; +- FLOAT *y1=y; +- FLOAT *x2=x+1; +- FLOAT *y2=y+1; +- BLASLONG pre = 384; +- BLASLONG alpha=0; +- +- __asm__ __volatile__ +- ( +- +- "addi %3, %3, -8 \n\t" +- "addi %4, %4, -8 \n\t" +- +- ".align 5 \n\t" +- "1: \n\t" +- +- "lxvd2x 32, 0, %2 \n\t" +- "lxvd2x 33, %5, %2 \n\t" +- "lxvd2x 34, %6, %2 \n\t" +- "lxvd2x 35, %7, %2 \n\t" +- "lxvd2x 36, %8, %2 \n\t" +- "lxvd2x 37, %9, %2 \n\t" +- "lxvd2x 38, %10, %2 \n\t" +- "lxvd2x 39, %11, %2 \n\t" +- +- "addi %2, %2, 128 \n\t" +- +- "lxvd2x 40, 0, %2 \n\t" +- "lxvd2x 41, %5, %2 \n\t" +- "lxvd2x 42, %6, %2 \n\t" +- "lxvd2x 43, %7, %2 \n\t" +- "lxvd2x 44, %8, %2 \n\t" +- "lxvd2x 45, %9, %2 \n\t" +- "lxvd2x 46, %10, %2 \n\t" +- "lxvd2x 47, %11, %2 \n\t" +- +- "addi %2, %2, 128 \n\t" +- +- "lxvd2x 48, 0, %1 \n\t" +- "lxvd2x 49, %5, %1 \n\t" +- "lxvd2x 50, %6, %1 \n\t" +- "lxvd2x 51, %7, %1 \n\t" +- "lxvd2x 52, %8, %1 \n\t" +- "lxvd2x 53, %9, %1 \n\t" +- "lxvd2x 54, %10, %1 \n\t" +- "lxvd2x 55, %11, %1 \n\t" +- +- "addi %1, %1, 128 \n\t" +- +- "lxvd2x 56, 0, %1 \n\t" +- "lxvd2x 57, %5, %1 \n\t" +- "lxvd2x 58, %6, %1 \n\t" +- "lxvd2x 59, %7, %1 \n\t" +- "lxvd2x 60, %8, %1 \n\t" +- "lxvd2x 61, %9, %1 \n\t" +- "lxvd2x 62, %10, %1 \n\t" +- "lxvd2x 63, %11, %1 \n\t" +- +- "addi %1, %1, 128 \n\t" +- +- "stxvd2x 32, 0, %3 \n\t" +- "stxvd2x 33, %5, %3 \n\t" +- "stxvd2x 34, %6, %3 \n\t" +- "stxvd2x 35, %7, %3 \n\t" +- "stxvd2x 36, %8, %3 \n\t" +- "stxvd2x 37, %9, %3 \n\t" +- "stxvd2x 38, %10, %3 \n\t" +- "stxvd2x 39, %11, %3 \n\t" +- +- "addi %3, %3, 128 \n\t" +- +- "stxvd2x 40, 0, %3 \n\t" +- "stxvd2x 41, %5, %3 \n\t" +- "stxvd2x 42, %6, %3 \n\t" +- "stxvd2x 43, %7, %3 \n\t" +- "stxvd2x 44, %8, %3 \n\t" +- "stxvd2x 45, %9, %3 \n\t" +- "stxvd2x 46, %10, %3 \n\t" +- "stxvd2x 47, %11, %3 \n\t" +- +- "addi %3, %3, 128 \n\t" +- +- "stxvd2x 48, 0, %4 \n\t" +- "stxvd2x 49, %5, %4 \n\t" +- "stxvd2x 50, %6, %4 \n\t" +- "stxvd2x 51, %7, %4 \n\t" +- "stxvd2x 52, %8, %4 \n\t" +- "stxvd2x 53, %9, %4 \n\t" +- "stxvd2x 54, %10, %4 \n\t" +- "stxvd2x 55, %11, %4 \n\t" +- +- "addi %4, %4, 128 \n\t" +- +- "stxvd2x 56, 0, %4 \n\t" +- "stxvd2x 57, %5, %4 \n\t" +- "stxvd2x 58, %6, %4 \n\t" +- "stxvd2x 59, %7, %4 \n\t" +- "stxvd2x 60, %8, %4 \n\t" +- "stxvd2x 61, %9, %4 \n\t" +- "stxvd2x 62, %10, %4 \n\t" +- "stxvd2x 63, %11, %4 \n\t" +- +- "addi %4, %4, 128 \n\t" +- +- "addic. %0 , %0 , -32 \n\t" +- "bgt 1b \n\t" +- +- "2: \n\t" +- +- : +- : +- "r" (i), // 0 +- "r" (y1), // 1 +- "r" (x1), // 2 +- "r" (y2), // 3 +- "r" (x2), // 4 +- "r" (o16), // 5 +- "r" (o32), // 6 +- "r" (o48), // 7 +- "r" (o64), // 8 +- "r" (o80), // 9 +- "r" (o96), // 10 +- "r" (o112) // 11 +- : "cr0", "%0", "%2" , "%1", "%3", "%4", "memory" +- ); +- +-} +- +- ++ __asm__ ++ ( ++ ".p2align 5 \n" ++ "1: \n\t" ++ ++ "lxvd2x 32, 0, %4 \n\t" ++ "lxvd2x 33, %5, %4 \n\t" ++ "lxvd2x 34, %6, %4 \n\t" ++ "lxvd2x 35, %7, %4 \n\t" ++ "lxvd2x 36, %8, %4 \n\t" ++ "lxvd2x 37, %9, %4 \n\t" ++ "lxvd2x 38, %10, %4 \n\t" ++ "lxvd2x 39, %11, %4 \n\t" ++ ++ "addi %4, %4, 128 \n\t" ++ ++ "lxvd2x 40, 0, %4 \n\t" ++ "lxvd2x 41, %5, %4 \n\t" ++ "lxvd2x 42, %6, %4 \n\t" ++ "lxvd2x 43, %7, %4 \n\t" ++ "lxvd2x 44, %8, %4 \n\t" ++ "lxvd2x 45, %9, %4 \n\t" ++ "lxvd2x 46, %10, %4 \n\t" ++ "lxvd2x 47, %11, %4 \n\t" ++ ++ "addi %4, %4, -128 \n\t" ++ ++ "lxvd2x 48, 0, %3 \n\t" ++ "lxvd2x 49, %5, %3 \n\t" ++ "lxvd2x 50, %6, %3 \n\t" ++ "lxvd2x 51, %7, %3 \n\t" ++ "lxvd2x 0, %8, %3 \n\t" ++ "lxvd2x 1, %9, %3 \n\t" ++ "lxvd2x 2, %10, %3 \n\t" ++ "lxvd2x 3, %11, %3 \n\t" ++ ++ "addi %3, %3, 128 \n\t" ++ ++ "lxvd2x 4, 0, %3 \n\t" ++ "lxvd2x 5, %5, %3 \n\t" ++ "lxvd2x 6, %6, %3 \n\t" ++ "lxvd2x 7, %7, %3 \n\t" ++ "lxvd2x 8, %8, %3 \n\t" ++ "lxvd2x 9, %9, %3 \n\t" ++ "lxvd2x 10, %10, %3 \n\t" ++ "lxvd2x 11, %11, %3 \n\t" ++ ++ "addi %3, %3, -128 \n\t" ++ ++ "stxvd2x 32, 0, %3 \n\t" ++ "stxvd2x 33, %5, %3 \n\t" ++ "stxvd2x 34, %6, %3 \n\t" ++ "stxvd2x 35, %7, %3 \n\t" ++ "stxvd2x 36, %8, %3 \n\t" ++ "stxvd2x 37, %9, %3 \n\t" ++ "stxvd2x 38, %10, %3 \n\t" ++ "stxvd2x 39, %11, %3 \n\t" ++ ++ "addi %3, %3, 128 \n\t" ++ ++ "stxvd2x 40, 0, %3 \n\t" ++ "stxvd2x 41, %5, %3 \n\t" ++ "stxvd2x 42, %6, %3 \n\t" ++ "stxvd2x 43, %7, %3 \n\t" ++ "stxvd2x 44, %8, %3 \n\t" ++ "stxvd2x 45, %9, %3 \n\t" ++ "stxvd2x 46, %10, %3 \n\t" ++ "stxvd2x 47, %11, %3 \n\t" ++ ++ "addi %3, %3, 128 \n\t" ++ ++ "stxvd2x 48, 0, %4 \n\t" ++ "stxvd2x 49, %5, %4 \n\t" ++ "stxvd2x 50, %6, %4 \n\t" ++ "stxvd2x 51, %7, %4 \n\t" ++ "stxvd2x 0, %8, %4 \n\t" ++ "stxvd2x 1, %9, %4 \n\t" ++ "stxvd2x 2, %10, %4 \n\t" ++ "stxvd2x 3, %11, %4 \n\t" ++ ++ "addi %4, %4, 128 \n\t" ++ ++ "stxvd2x 4, 0, %4 \n\t" ++ "stxvd2x 5, %5, %4 \n\t" ++ "stxvd2x 6, %6, %4 \n\t" ++ "stxvd2x 7, %7, %4 \n\t" ++ "stxvd2x 8, %8, %4 \n\t" ++ "stxvd2x 9, %9, %4 \n\t" ++ "stxvd2x 10, %10, %4 \n\t" ++ "stxvd2x 11, %11, %4 \n\t" ++ ++ "addi %4, %4, 128 \n\t" ++ ++ "addic. %2, %2, -32 \n\t" ++ "bgt 1b \n" ++ ++ "#n=%2 x=%0=%3 y=%1=%4 o16=%5 o32=%6 o48=%7 o64=%8 o80=%9 o96=%10 o112=%11" ++ : ++ "+m" (*x), ++ "+m" (*y), ++ "+r" (n), // 2 ++ "+b" (x), // 3 ++ "+b" (y) // 4 ++ : ++ "b" (16), // 5 ++ "b" (32), // 6 ++ "b" (48), // 7 ++ "b" (64), // 8 ++ "b" (80), // 9 ++ "b" (96), // 10 ++ "b" (112) // 11 ++ : ++ "cr0", ++ "vs32","vs33","vs34","vs35","vs36","vs37","vs38","vs39", ++ "vs40","vs41","vs42","vs43","vs44","vs45","vs46","vs47", ++ "vs48","vs49","vs50","vs51","vs0","vs1","vs2","vs3", ++ "vs4","vs5","vs6","vs7","vs8","vs9","vs10","vs11" ++ ); ++} +diff --git a/kernel/power/sasum.c b/kernel/power/sasum.c +index 43311f2ba..fb10b1d27 100644 +--- a/kernel/power/sasum.c ++++ b/kernel/power/sasum.c +@@ -38,7 +38,7 @@ USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. + + #if defined(DOUBLE) + +-#define ABS fabs ++#error supports float only + + #else + +@@ -53,7 +53,7 @@ USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. + + #ifndef HAVE_KERNEL_32 + +-static void sasum_kernel_32(BLASLONG n, FLOAT *x1, FLOAT *svec) ++static FLOAT sasum_kernel_32(BLASLONG n, FLOAT *x1) + { + + BLASLONG i=0; +@@ -92,11 +92,7 @@ static void sasum_kernel_32(BLASLONG n, FLOAT *x1, FLOAT *svec) + + } + +- svec[0] = sum0+sum1+sum2+sum3; +- svec[1] = 0.0; +- svec[2] = 0.0; +- svec[3] = 0.0; +- ++ return sum0+sum1+sum2+sum3; + } + + #endif +@@ -105,7 +101,6 @@ FLOAT CNAME(BLASLONG n, FLOAT *x, BLASLONG inc_x) + { + BLASLONG i=0; + FLOAT sumf = 0.0; +- FLOAT svec[4] __attribute__ ((aligned (16)));; + BLASLONG n1; + + if (n <= 0 || inc_x <= 0) return(sumf); +@@ -117,8 +112,7 @@ FLOAT CNAME(BLASLONG n, FLOAT *x, BLASLONG inc_x) + if ( n1 > 0 ) + { + +- sasum_kernel_32(n1, x, svec); +- sumf = svec[0] + svec[1]+svec[2]+svec[3]; ++ sumf = sasum_kernel_32(n1, x); + i=n1; + } + +diff --git a/kernel/power/sasum_microk_power8.c b/kernel/power/sasum_microk_power8.c +index 847fffe04..25a969d62 100644 +--- a/kernel/power/sasum_microk_power8.c ++++ b/kernel/power/sasum_microk_power8.c +@@ -34,144 +34,145 @@ USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. + **************************************************************************************/ + + #define HAVE_KERNEL_32 1 +-static void sasum_kernel_32( BLASLONG n, FLOAT *x, FLOAT *svec) __attribute__ ((noinline)); + +-static void sasum_kernel_32( BLASLONG n, FLOAT *x, FLOAT *svec) ++static float sasum_kernel_32 (long n, float *x) + { +- +- +- BLASLONG i = n; +- BLASLONG o16 = 16; +- BLASLONG o32 = 32; +- BLASLONG o48 = 48; +- BLASLONG o64 = 64; +- BLASLONG o80 = 80; +- BLASLONG o96 = 96; +- BLASLONG o112 = 112; +- FLOAT *x1=x; +- BLASLONG pre = 384; +- +- __asm__ __volatile__ +- ( +- +- "dcbt %2 , %4 \n\t" +- +- "xxlxor 32,32,32 \n\t" +- "xxlxor 33,33,33 \n\t" +- "xxlxor 34,34,34 \n\t" +- "xxlxor 35,35,35 \n\t" +- "xxlxor 36,36,36 \n\t" +- "xxlxor 37,37,37 \n\t" +- "xxlxor 38,38,38 \n\t" +- "xxlxor 39,39,39 \n\t" +- +- "lxvw4x 40, 0, %2 \n\t" +- "lxvw4x 41, %5, %2 \n\t" +- "lxvw4x 42, %6, %2 \n\t" +- "lxvw4x 43, %7, %2 \n\t" +- "lxvw4x 44, %8, %2 \n\t" +- "lxvw4x 45, %9, %2 \n\t" +- "lxvw4x 46, %10, %2 \n\t" +- "lxvw4x 47, %11, %2 \n\t" +- +- "addi %2, %2, 128 \n\t" +- +- "addic. %0 , %0 , -32 \n\t" +- "ble 2f \n\t" +- +- ".align 5 \n\t" +- "1: \n\t" +- +- "dcbt %2 , %4 \n\t" +- +- "xvabssp 48, 40 \n\t" +- "xvabssp 49, 41 \n\t" +- "xvabssp 50, 42 \n\t" +- "xvabssp 51, 43 \n\t" +- +- "lxvw4x 40, 0, %2 \n\t" +- "lxvw4x 41, %5, %2 \n\t" +- +- "xvabssp 52, 44 \n\t" +- "xvabssp 53, 45 \n\t" +- +- "lxvw4x 42, %6, %2 \n\t" +- "lxvw4x 43, %7, %2 \n\t" +- +- "xvabssp 54, 46 \n\t" +- "xvabssp 55, 47 \n\t" +- +- "lxvw4x 44, %8, %2 \n\t" +- "lxvw4x 45, %9, %2 \n\t" +- +- "xvaddsp 32, 32, 48 \n\t" +- "xvaddsp 33, 33, 49 \n\t" +- +- "lxvw4x 46, %10, %2 \n\t" +- "lxvw4x 47, %11, %2 \n\t" +- +- "xvaddsp 34, 34, 50 \n\t" +- "xvaddsp 35, 35, 51 \n\t" +- "addi %2, %2, 128 \n\t" +- "xvaddsp 36, 36, 52 \n\t" +- "xvaddsp 37, 37, 53 \n\t" +- "addic. %0 , %0 , -32 \n\t" +- "xvaddsp 38, 38, 54 \n\t" +- "xvaddsp 39, 39, 55 \n\t" +- +- "bgt 1b \n\t" +- +- "2: \n\t" +- +- +- "xvabssp 48, 40 \n\t" +- "xvabssp 49, 41 \n\t" +- "xvabssp 50, 42 \n\t" +- "xvabssp 51, 43 \n\t" +- "xvabssp 52, 44 \n\t" +- "xvabssp 53, 45 \n\t" +- "xvabssp 54, 46 \n\t" +- "xvabssp 55, 47 \n\t" +- +- "xvaddsp 32, 32, 48 \n\t" +- "xvaddsp 33, 33, 49 \n\t" +- "xvaddsp 34, 34, 50 \n\t" +- "xvaddsp 35, 35, 51 \n\t" +- "xvaddsp 36, 36, 52 \n\t" +- "xvaddsp 37, 37, 53 \n\t" +- "xvaddsp 38, 38, 54 \n\t" +- "xvaddsp 39, 39, 55 \n\t" +- +- "xvaddsp 32, 32, 33 \n\t" +- "xvaddsp 34, 34, 35 \n\t" +- "xvaddsp 36, 36, 37 \n\t" +- "xvaddsp 38, 38, 39 \n\t" +- +- "xvaddsp 32, 32, 34 \n\t" +- "xvaddsp 36, 36, 38 \n\t" +- +- "xvaddsp 32, 32, 36 \n\t" +- +- +- "stxvw4x 32, 0, %3 \n\t" +- +- : +- : +- "r" (i), // 0 +- "r" (n), // 1 +- "r" (x1), // 2 +- "r" (svec), // 3 +- "r" (pre), // 4 +- "r" (o16), // 5 +- "r" (o32), // 6 +- "r" (o48), // 7 +- "r" (o64), // 8 +- "r" (o80), // 9 +- "r" (o96), // 10 +- "r" (o112) // 11 +- : "cr0", "%0", "%2", "memory" +- ); +- +-} +- +- ++ float sum; ++ __vector float t0; ++ __vector float t1; ++ __vector float t2; ++ __vector float t3; ++ ++ __asm__ ++ ( ++ "dcbt 0, %2 \n\t" ++ ++ "xxlxor 32, 32, 32 \n\t" ++ "xxlxor 33, 33, 33 \n\t" ++ "xxlxor 34, 34, 34 \n\t" ++ "xxlxor 35, 35, 35 \n\t" ++ "xxlxor 36, 36, 36 \n\t" ++ "xxlxor 37, 37, 37 \n\t" ++ "xxlxor 38, 38, 38 \n\t" ++ "xxlxor 39, 39, 39 \n\t" ++ ++ "lxvw4x 40, 0, %2 \n\t" ++ "lxvw4x 41, %8, %2 \n\t" ++ "lxvw4x 42, %9, %2 \n\t" ++ "lxvw4x 43, %10, %2 \n\t" ++ "lxvw4x 44, %11, %2 \n\t" ++ "lxvw4x 45, %12, %2 \n\t" ++ "lxvw4x 46, %13, %2 \n\t" ++ "lxvw4x 47, %14, %2 \n\t" ++ ++ "addi %2, %2, 128 \n\t" ++ ++ "addic. %1, %1, -32 \n\t" ++ "ble 2f \n\t" ++ ++ ".p2align 5 \n" ++ "1: \n\t" ++ ++ "xvabssp 48, 40 \n\t" ++ "xvabssp 49, 41 \n\t" ++ "xvabssp 50, 42 \n\t" ++ "xvabssp 51, 43 \n\t" ++ ++ "lxvw4x 40, 0, %2 \n\t" ++ "lxvw4x 41, %8, %2 \n\t" ++ ++ "xvabssp %x3, 44 \n\t" ++ "xvabssp %x4, 45 \n\t" ++ ++ "lxvw4x 42, %9, %2 \n\t" ++ "lxvw4x 43, %10, %2 \n\t" ++ ++ "xvabssp %x5, 46 \n\t" ++ "xvabssp %x6, 47 \n\t" ++ ++ "lxvw4x 44, %11, %2 \n\t" ++ "lxvw4x 45, %12, %2 \n\t" ++ ++ "xvaddsp 32, 32, 48 \n\t" ++ "xvaddsp 33, 33, 49 \n\t" ++ ++ "lxvw4x 46, %13, %2 \n\t" ++ "lxvw4x 47, %14, %2 \n\t" ++ ++ "xvaddsp 34, 34, 50 \n\t" ++ "xvaddsp 35, 35, 51 \n\t" ++ "addi %2, %2, 128 \n\t" ++ "xvaddsp 36, 36, %x3 \n\t" ++ "xvaddsp 37, 37, %x4 \n\t" ++ "addic. %1, %1, -32 \n\t" ++ "xvaddsp 38, 38, %x5 \n\t" ++ "xvaddsp 39, 39, %x6 \n\t" ++ ++ "bgt 1b \n" ++ ++ "2: \n\t" ++ ++ "xvabssp 48, 40 \n\t" ++ "xvabssp 49, 41 \n\t" ++ "xvabssp 50, 42 \n\t" ++ "xvabssp 51, 43 \n\t" ++ "xvabssp %x3, 44 \n\t" ++ "xvabssp %x4, 45 \n\t" ++ "xvabssp %x5, 46 \n\t" ++ "xvabssp %x6, 47 \n\t" ++ ++ "xvaddsp 32, 32, 48 \n\t" ++ "xvaddsp 33, 33, 49 \n\t" ++ "xvaddsp 34, 34, 50 \n\t" ++ "xvaddsp 35, 35, 51 \n\t" ++ "xvaddsp 36, 36, %x3 \n\t" ++ "xvaddsp 37, 37, %x4 \n\t" ++ "xvaddsp 38, 38, %x5 \n\t" ++ "xvaddsp 39, 39, %x6 \n\t" ++ ++ "xvaddsp 32, 32, 33 \n\t" ++ "xvaddsp 34, 34, 35 \n\t" ++ "xvaddsp 36, 36, 37 \n\t" ++ "xvaddsp 38, 38, 39 \n\t" ++ ++ "xvaddsp 32, 32, 34 \n\t" ++ "xvaddsp 36, 36, 38 \n\t" ++ ++ "xvaddsp 32, 32, 36 \n\t" ++ ++ "xxsldwi 33, 32, 32, 2 \n\t" ++ "xvaddsp 32, 32, 33 \n\t" ++ ++ "xxsldwi 33, 32, 32, 1 \n\t" ++ "xvaddsp 32, 32, 33 \n\t" ++ ++ "xscvspdp %0, 32 \n" ++ ++ "#n=%1 x=%3=%2 sum=%0 o16=%8 o32=%9 o48=%10 o64=%11 o80=%12 o96=%13 o112=%14\n" ++ "#t0=%x3 t1=%x4 t2=%x5 t3=%x6" ++ : ++ "=f" (sum), // 0 ++ "+r" (n), // 1 ++ "+b" (x), // 2 ++ "=wa" (t0), // 3 ++ "=wa" (t1), // 4 ++ "=wa" (t2), // 5 ++ "=wa" (t3) // 6 ++ : ++ "m" (*x), ++ "b" (16), // 8 ++ "b" (32), // 9 ++ "b" (48), // 10 ++ "b" (64), // 11 ++ "b" (80), // 12 ++ "b" (96), // 13 ++ "b" (112) // 14 ++ : ++ "cr0", ++ "vs32","vs33","vs34","vs35","vs36","vs37","vs38","vs39", ++ "vs40","vs41","vs42","vs43","vs44","vs45","vs46","vs47", ++ "vs48","vs49","vs50","vs51" ++ ); ++ ++ return sum; ++} +diff --git a/kernel/power/scopy_microk_power8.c b/kernel/power/scopy_microk_power8.c +index 2e08e3561..444a6d4d5 100644 +--- a/kernel/power/scopy_microk_power8.c ++++ b/kernel/power/scopy_microk_power8.c +@@ -35,97 +35,78 @@ USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. + + #define HAVE_KERNEL_32 1 + +-static void scopy_kernel_32( BLASLONG n, FLOAT *x, FLOAT *y) __attribute__ ((noinline)); +- +-static void scopy_kernel_32( BLASLONG n, FLOAT *x, FLOAT *y) ++static void scopy_kernel_32 (long n, float *x, float *y) + { +- +- +- BLASLONG i = n; +- BLASLONG o16 = 16; +- BLASLONG o32 = 32; +- BLASLONG o48 = 48; +- BLASLONG o64 = 64; +- BLASLONG o80 = 80; +- BLASLONG o96 = 96; +- BLASLONG o112 = 112; +- FLOAT *x1=x; +- FLOAT *y1=y; +- BLASLONG pre = 384; +- BLASLONG alpha=0; +- +- __asm__ __volatile__ +- ( +- +- "lxvw4x 40, 0, %2 \n\t" +- "lxvw4x 41, %5, %2 \n\t" +- "lxvw4x 42, %6, %2 \n\t" +- "lxvw4x 43, %7, %2 \n\t" +- "lxvw4x 44, %8, %2 \n\t" +- "lxvw4x 45, %9, %2 \n\t" +- "lxvw4x 46, %10, %2 \n\t" +- "lxvw4x 47, %11, %2 \n\t" +- +- "addi %2, %2, 128 \n\t" +- +- "addic. %0 , %0 , -32 \n\t" +- "ble 2f \n\t" +- +- ".align 5 \n\t" +- "1: \n\t" +- +- "stxvw4x 40, 0, %1 \n\t" +- "stxvw4x 41, %5, %1 \n\t" +- "lxvw4x 40, 0, %2 \n\t" +- "lxvw4x 41, %5, %2 \n\t" +- "stxvw4x 42, %6, %1 \n\t" +- "stxvw4x 43, %7, %1 \n\t" +- "lxvw4x 42, %6, %2 \n\t" +- "lxvw4x 43, %7, %2 \n\t" +- "stxvw4x 44, %8, %1 \n\t" +- "stxvw4x 45, %9, %1 \n\t" +- "lxvw4x 44, %8, %2 \n\t" +- "lxvw4x 45, %9, %2 \n\t" +- "stxvw4x 46, %10, %1 \n\t" +- "stxvw4x 47, %11, %1 \n\t" +- "lxvw4x 46, %10, %2 \n\t" +- "lxvw4x 47, %11, %2 \n\t" +- +- +- "addi %1, %1, 128 \n\t" +- "addi %2, %2, 128 \n\t" +- +- "addic. %0 , %0 , -32 \n\t" +- "bgt 1b \n\t" +- +- "2: \n\t" +- +- "stxvw4x 40, 0, %1 \n\t" +- "stxvw4x 41, %5, %1 \n\t" +- "stxvw4x 42, %6, %1 \n\t" +- "stxvw4x 43, %7, %1 \n\t" +- "stxvw4x 44, %8, %1 \n\t" +- "stxvw4x 45, %9, %1 \n\t" +- "stxvw4x 46, %10, %1 \n\t" +- "stxvw4x 47, %11, %1 \n\t" +- +- : +- : +- "r" (i), // 0 +- "r" (y1), // 1 +- "r" (x1), // 2 +- "r" (alpha), // 3 +- "r" (pre), // 4 +- "r" (o16), // 5 +- "r" (o32), // 6 +- "r" (o48), // 7 +- "r" (o64), // 8 +- "r" (o80), // 9 +- "r" (o96), // 10 +- "r" (o112) // 11 +- : "cr0", "%0", "%2" , "%1", "memory" +- ); +- +-} +- +- ++ __asm__ ++ ( ++ "lxvw4x 40, 0, %2 \n\t" ++ "lxvw4x 41, %5, %2 \n\t" ++ "lxvw4x 42, %6, %2 \n\t" ++ "lxvw4x 43, %7, %2 \n\t" ++ "lxvw4x 44, %8, %2 \n\t" ++ "lxvw4x 45, %9, %2 \n\t" ++ "lxvw4x 46, %10, %2 \n\t" ++ "lxvw4x 47, %11, %2 \n\t" ++ ++ "addi %2, %2, 128 \n\t" ++ ++ "addic. %1, %1, -32 \n\t" ++ "ble 2f \n\t" ++ ++ ".p2align 5 \n" ++ "1: \n\t" ++ ++ "stxvw4x 40, 0, %3 \n\t" ++ "stxvw4x 41, %5, %3 \n\t" ++ "lxvw4x 40, 0, %2 \n\t" ++ "lxvw4x 41, %5, %2 \n\t" ++ "stxvw4x 42, %6, %3 \n\t" ++ "stxvw4x 43, %7, %3 \n\t" ++ "lxvw4x 42, %6, %2 \n\t" ++ "lxvw4x 43, %7, %2 \n\t" ++ "stxvw4x 44, %8, %3 \n\t" ++ "stxvw4x 45, %9, %3 \n\t" ++ "lxvw4x 44, %8, %2 \n\t" ++ "lxvw4x 45, %9, %2 \n\t" ++ "stxvw4x 46, %10, %3 \n\t" ++ "stxvw4x 47, %11, %3 \n\t" ++ "lxvw4x 46, %10, %2 \n\t" ++ "lxvw4x 47, %11, %2 \n\t" ++ ++ "addi %3, %3, 128 \n\t" ++ "addi %2, %2, 128 \n\t" ++ ++ "addic. %1, %1, -32 \n\t" ++ "bgt 1b \n" ++ ++ "2: \n\t" ++ ++ "stxvw4x 40, 0, %3 \n\t" ++ "stxvw4x 41, %5, %3 \n\t" ++ "stxvw4x 42, %6, %3 \n\t" ++ "stxvw4x 43, %7, %3 \n\t" ++ "stxvw4x 44, %8, %3 \n\t" ++ "stxvw4x 45, %9, %3 \n\t" ++ "stxvw4x 46, %10, %3 \n\t" ++ "stxvw4x 47, %11, %3 \n" ++ ++ "#n=%1 x=%4=%2 y=%0=%3 o16=%5 o32=%6 o48=%7 o64=%8 o80=%9 o96=%10 o112=%11" ++ : ++ "=m" (*y), ++ "+r" (n), // 1 ++ "+b" (x), // 2 ++ "+b" (y) // 3 ++ : ++ "m" (*x), ++ "b" (16), // 5 ++ "b" (32), // 6 ++ "b" (48), // 7 ++ "b" (64), // 8 ++ "b" (80), // 9 ++ "b" (96), // 10 ++ "b" (112) // 11 ++ : ++ "cr0", ++ "vs40","vs41","vs42","vs43","vs44","vs45","vs46","vs47" ++ ); ++} +diff --git a/kernel/power/sdot.c b/kernel/power/sdot.c +index 52fb1fe24..31f473485 100644 +--- a/kernel/power/sdot.c ++++ b/kernel/power/sdot.c +@@ -42,7 +42,7 @@ USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. + + #ifndef HAVE_KERNEL_16 + +-static void sdot_kernel_16(BLASLONG n, FLOAT *x, FLOAT *y, FLOAT *d) ++static FLOAT sdot_kernel_16(BLASLONG n, FLOAT *x, FLOAT *y) + { + BLASLONG register i = 0; + FLOAT dot = 0.0; +@@ -61,8 +61,7 @@ static void sdot_kernel_16(BLASLONG n, FLOAT *x, FLOAT *y, FLOAT *d) + i+=8 ; + + } +- *d += dot; +- ++ return dot; + } + + #endif +@@ -82,8 +81,7 @@ FLOAT CNAME(BLASLONG n, FLOAT *x, BLASLONG inc_x, FLOAT *y, BLASLONG inc_y) + BLASLONG n1 = n & -32; + + if ( n1 ) +- sdot_kernel_16(n1, x, y , &dot ); +- ++ dot = sdot_kernel_16(n1, x, y); + + i = n1; + while(i < n) +diff --git a/kernel/power/sdot_microk_power8.c b/kernel/power/sdot_microk_power8.c +index 6dd588acd..7f7ccfac3 100644 +--- a/kernel/power/sdot_microk_power8.c ++++ b/kernel/power/sdot_microk_power8.c +@@ -34,146 +34,142 @@ USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. + **************************************************************************************/ + + #define HAVE_KERNEL_16 1 +-static void sdot_kernel_16( BLASLONG n, FLOAT *x, FLOAT *y , FLOAT *dot) __attribute__ ((noinline)); + +-static void sdot_kernel_16( BLASLONG n, FLOAT *x, FLOAT *y, FLOAT *dot) ++static float sdot_kernel_16 (long n, float *x, float *y) + { +- +- +- BLASLONG i = n; +- BLASLONG o16 = 16; +- BLASLONG o32 = 32; +- BLASLONG o48 = 48; +- BLASLONG o64 = 64; +- BLASLONG o80 = 80; +- BLASLONG o96 = 96; +- BLASLONG o112 = 112; +- FLOAT *x1=x; +- FLOAT *y1=y; +- BLASLONG pre = 384; +- FLOAT tempdot[4]; +- +- +- __asm__ __volatile__ +- ( +- "xxlxor 32,32,32 \n\t" +- "xxlxor 33,33,33 \n\t" +- "xxlxor 34,34,34 \n\t" +- "xxlxor 35,35,35 \n\t" +- "xxlxor 36,36,36 \n\t" +- "xxlxor 37,37,37 \n\t" +- "xxlxor 38,38,38 \n\t" +- "xxlxor 39,39,39 \n\t" +- +- "dcbt %2, %12 \n\t" +- "dcbt %3, %12 \n\t" +- +- "lxvw4x 40, 0, %2 \n\t" +- "lxvw4x 48, 0, %3 \n\t" +- "lxvw4x 41, %5, %2 \n\t" +- "lxvw4x 49, %5, %3 \n\t" +- "lxvw4x 42, %6, %2 \n\t" +- "lxvw4x 50, %6, %3 \n\t" +- "lxvw4x 43, %7, %2 \n\t" +- "lxvw4x 51, %7, %3 \n\t" +- "lxvw4x 44, %8, %2 \n\t" +- "lxvw4x 52, %8, %3 \n\t" +- "lxvw4x 45, %9, %2 \n\t" +- "lxvw4x 53, %9, %3 \n\t" +- "lxvw4x 46, %10, %2 \n\t" +- "lxvw4x 54, %10, %3 \n\t" +- "lxvw4x 47, %11, %2 \n\t" +- "lxvw4x 55, %11, %3 \n\t" +- +- "addi %2, %2, 128 \n\t" +- "addi %3, %3, 128 \n\t" +- +- "addic. %0 , %0 , -32 \n\t" +- "ble 2f \n\t" +- +- ".align 5 \n\t" +- "1: \n\t" +- +- "dcbt %2, %12 \n\t" +- "dcbt %3, %12 \n\t" +- +- "xvmaddasp 32, 40, 48 \n\t" +- "lxvw4x 40, 0, %2 \n\t" +- "lxvw4x 48, 0, %3 \n\t" +- "xvmaddasp 33, 41, 49 \n\t" +- "lxvw4x 41, %5, %2 \n\t" +- "lxvw4x 49, %5, %3 \n\t" +- "xvmaddasp 34, 42, 50 \n\t" +- "lxvw4x 42, %6, %2 \n\t" +- "lxvw4x 50, %6, %3 \n\t" +- "xvmaddasp 35, 43, 51 \n\t" +- "lxvw4x 43, %7, %2 \n\t" +- "lxvw4x 51, %7, %3 \n\t" +- "xvmaddasp 36, 44, 52 \n\t" +- "lxvw4x 44, %8, %2 \n\t" +- "lxvw4x 52, %8, %3 \n\t" +- "xvmaddasp 37, 45, 53 \n\t" +- "lxvw4x 45, %9, %2 \n\t" +- "lxvw4x 53, %9, %3 \n\t" +- "xvmaddasp 38, 46, 54 \n\t" +- "lxvw4x 46, %10, %2 \n\t" +- "lxvw4x 54, %10, %3 \n\t" +- "xvmaddasp 39, 47, 55 \n\t" +- +- "lxvw4x 47, %11, %2 \n\t" +- "lxvw4x 55, %11, %3 \n\t" +- +- +- "addi %2, %2, 128 \n\t" +- "addi %3, %3, 128 \n\t" +- +- "addic. %0 , %0 , -32 \n\t" +- "bgt 1b \n\t" +- +- "2: \n\t" +- +- "xvmaddasp 32, 40, 48 \n\t" +- "xvmaddasp 33, 41, 49 \n\t" +- "xvmaddasp 34, 42, 50 \n\t" +- "xvmaddasp 35, 43, 51 \n\t" +- "xvmaddasp 36, 44, 52 \n\t" +- "xvmaddasp 37, 45, 53 \n\t" +- "xvmaddasp 38, 46, 54 \n\t" +- "xvmaddasp 39, 47, 55 \n\t" +- +- "xvaddsp 32, 32 , 33 \n\t" +- "xvaddsp 34, 34 , 35 \n\t" +- "xvaddsp 36, 36 , 37 \n\t" +- "xvaddsp 38, 38 , 39 \n\t" +- +- "xvaddsp 32, 32 , 34 \n\t" +- "xvaddsp 36, 36 , 38 \n\t" +- +- "xvaddsp 32, 32 , 36 \n\t" +- +- "stxvw4x 32, 0 , %4 \n\t" +- +- : +- : +- "r" (i), // 0 +- "r" (n), // 1 +- "r" (x1), // 2 +- "r" (y1), // 3 +- "r" (tempdot), // 4 +- "r" (o16), // 5 +- "r" (o32), // 6 +- "r" (o48), // 7 +- "r" (o64), // 8 +- "r" (o80), // 9 +- "r" (o96), // 10 +- "r" (o112), // 11 +- "r" (pre) // 12 +- : "cr0", "%0", "%2" , "%3", "memory" +- ); +- +- *dot = tempdot[0] + tempdot[1] + tempdot[2] + tempdot[3]; +- +- +-} +- +- ++ float dot; ++ __vector float t0; ++ __vector float t1; ++ __vector float t2; ++ __vector float t3; ++ ++ __asm__ ++ ( ++ "dcbt 0, %2 \n\t" ++ "dcbt 0, %3 \n\t" ++ ++ "xxlxor 32, 32, 32 \n\t" ++ "xxlxor 33, 33, 33 \n\t" ++ "xxlxor 34, 34, 34 \n\t" ++ "xxlxor 35, 35, 35 \n\t" ++ "xxlxor 36, 36, 36 \n\t" ++ "xxlxor 37, 37, 37 \n\t" ++ "xxlxor 38, 38, 38 \n\t" ++ "xxlxor 39, 39, 39 \n\t" ++ ++ "lxvw4x 40, 0, %2 \n\t" ++ "lxvw4x 48, 0, %3 \n\t" ++ "lxvw4x 41, %10, %2 \n\t" ++ "lxvw4x 49, %10, %3 \n\t" ++ "lxvw4x 42, %11, %2 \n\t" ++ "lxvw4x 50, %11, %3 \n\t" ++ "lxvw4x 43, %12, %2 \n\t" ++ "lxvw4x 51, %12, %3 \n\t" ++ "lxvw4x 44, %13, %2 \n\t" ++ "lxvw4x %x4, %13, %3 \n\t" ++ "lxvw4x 45, %14, %2 \n\t" ++ "lxvw4x %x5, %14, %3 \n\t" ++ "lxvw4x 46, %15, %2 \n\t" ++ "lxvw4x %x6, %15, %3 \n\t" ++ "lxvw4x 47, %16, %2 \n\t" ++ "lxvw4x %x7, %16, %3 \n\t" ++ ++ "addi %2, %2, 128 \n\t" ++ "addi %3, %3, 128 \n\t" ++ ++ "addic. %1, %1, -32 \n\t" ++ "ble 2f \n\t" ++ ++ ".p2align 5 \n" ++ "1: \n\t" ++ ++ "xvmaddasp 32, 40, 48 \n\t" ++ "lxvw4x 40, 0, %2 \n\t" ++ "lxvw4x 48, 0, %3 \n\t" ++ "xvmaddasp 33, 41, 49 \n\t" ++ "lxvw4x 41, %10, %2 \n\t" ++ "lxvw4x 49, %10, %3 \n\t" ++ "xvmaddasp 34, 42, 50 \n\t" ++ "lxvw4x 42, %11, %2 \n\t" ++ "lxvw4x 50, %11, %3 \n\t" ++ "xvmaddasp 35, 43, 51 \n\t" ++ "lxvw4x 43, %12, %2 \n\t" ++ "lxvw4x 51, %12, %3 \n\t" ++ "xvmaddasp 36, 44, %x4 \n\t" ++ "lxvw4x 44, %13, %2 \n\t" ++ "lxvw4x %x4, %13, %3 \n\t" ++ "xvmaddasp 37, 45, %x5 \n\t" ++ "lxvw4x 45, %14, %2 \n\t" ++ "lxvw4x %x5, %14, %3 \n\t" ++ "xvmaddasp 38, 46, %x6 \n\t" ++ "lxvw4x 46, %15, %2 \n\t" ++ "lxvw4x %x6, %15, %3 \n\t" ++ "xvmaddasp 39, 47, %x7 \n\t" ++ "lxvw4x 47, %16, %2 \n\t" ++ "lxvw4x %x7, %16, %3 \n\t" ++ ++ "addi %2, %2, 128 \n\t" ++ "addi %3, %3, 128 \n\t" ++ ++ "addic. %1, %1, -32 \n\t" ++ "bgt 1b \n" ++ ++ "2: \n\t" ++ ++ "xvmaddasp 32, 40, 48 \n\t" ++ "xvmaddasp 33, 41, 49 \n\t" ++ "xvmaddasp 34, 42, 50 \n\t" ++ "xvmaddasp 35, 43, 51 \n\t" ++ "xvmaddasp 36, 44, %x4 \n\t" ++ "xvmaddasp 37, 45, %x5 \n\t" ++ "xvmaddasp 38, 46, %x6 \n\t" ++ "xvmaddasp 39, 47, %x7 \n\t" ++ ++ "xvaddsp 32, 32, 33 \n\t" ++ "xvaddsp 34, 34, 35 \n\t" ++ "xvaddsp 36, 36, 37 \n\t" ++ "xvaddsp 38, 38, 39 \n\t" ++ ++ "xvaddsp 32, 32, 34 \n\t" ++ "xvaddsp 36, 36, 38 \n\t" ++ ++ "xvaddsp 32, 32, 36 \n\t" ++ ++ "xxsldwi 33, 32, 32, 2 \n\t" ++ "xvaddsp 32, 32, 33 \n\t" ++ ++ "xxsldwi 33, 32, 32, 1 \n\t" ++ "xvaddsp 32, 32, 33 \n\t" ++ ++ "xscvspdp %x0, 32 \n" ++ ++ "#dot=%0 n=%1 x=%8=%2 y=%9=%3 o16=%10 o32=%11 o48=%12 o64=%13 o80=%14 o96=%15 o122=%16\n" ++ "#t0=%x4 t1=%x5 t2=%x6 t3=%x7" ++ : ++ "=f" (dot), // 0 ++ "+r" (n), // 1 ++ "+b" (x), // 2 ++ "+b" (y), // 3 ++ "=wa" (t0), // 4 ++ "=wa" (t1), // 5 ++ "=wa" (t2), // 6 ++ "=wa" (t3) // 7 ++ : ++ "m" (*x), ++ "m" (*y), ++ "b" (16), // 10 ++ "b" (32), // 11 ++ "b" (48), // 12 ++ "b" (64), // 13 ++ "b" (80), // 14 ++ "b" (96), // 15 ++ "b" (112) // 16 ++ : ++ "cr0", ++ "vs32","vs33","vs34","vs35","vs36","vs37","vs38","vs39", ++ "vs40","vs41","vs42","vs43","vs44","vs45","vs46","vs47", ++ "vs48","vs49","vs50","vs51" ++ ); ++ ++ return dot; ++} +diff --git a/kernel/power/srot.c b/kernel/power/srot.c +index d464846a4..d2910ff87 100644 +--- a/kernel/power/srot.c ++++ b/kernel/power/srot.c +@@ -46,7 +46,7 @@ USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. + + #ifndef HAVE_KERNEL_16 + +-static void srot_kernel_16(BLASLONG n, FLOAT *x, FLOAT *y, FLOAT *c, FLOAT *s) ++static void srot_kernel_16(BLASLONG n, FLOAT *x, FLOAT *y, FLOAT c, FLOAT s) + { + + BLASLONG i=0; +@@ -56,8 +56,6 @@ static void srot_kernel_16(BLASLONG n, FLOAT *x, FLOAT *y, FLOAT *c, FLOAT *s) + FLOAT y00, y01, y02, y03; + FLOAT *x1=x; + FLOAT *y1=y; +- FLOAT c1=*c; +- FLOAT s1=*s; + + while ( i 0 ) + { +- c1[0]=c; +- c1[1]=c; +- c1[2]=c; +- c1[3]=c; +- s1[0]=s; +- s1[1]=s; +- s1[2]=s; +- s1[3]=s; +- srot_kernel_16(n1, x1, y1, c1, s1); ++ srot_kernel_16(n1, x1, y1, c, s); + i=n1; + } + +diff --git a/kernel/power/srot_microk_power8.c b/kernel/power/srot_microk_power8.c +index ade65500f..0a18c16e0 100644 +--- a/kernel/power/srot_microk_power8.c ++++ b/kernel/power/srot_microk_power8.c +@@ -38,171 +38,179 @@ USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. + + #define HAVE_KERNEL_16 1 + +-static void srot_kernel_16( BLASLONG n, FLOAT *x, FLOAT *y, FLOAT *c, FLOAT *s) __attribute__ ((noinline)); +- +-static void srot_kernel_16( BLASLONG n, FLOAT *x, FLOAT *y, FLOAT *c, FLOAT *s) ++static void srot_kernel_16 (long n, float *x, float *y, float c, float s) + { ++ __vector float t0; ++ __vector float t1; ++ __vector float t2; ++ __vector float t3; ++ __vector float t4; ++ __vector float t5; ++ __vector float t6; ++ __vector float t7; + ++ __asm__ ++ ( ++ "xscvdpspn 36, %x13 \n\t" // load c to all words ++ "xxspltw 36, 36, 0 \n\t" + +- BLASLONG i = n; +- BLASLONG o16 = 16; +- BLASLONG o32 = 32; +- BLASLONG o48 = 48; +- FLOAT *x1=x; +- FLOAT *y1=y; +- FLOAT *x2=x+1; +- FLOAT *y2=y+1; +- +- __asm__ __volatile__ +- ( +- +- "lxvw4x 36 , 0, %3 \n\t" // load c +- "lxvw4x 37 , 0, %4 \n\t" // load s +- "addi %8 , %8, -4 \n\t" +- "addi %9 , %9, -4 \n\t" +- +- "lxvw4x 32, 0, %1 \n\t" // load x +- "lxvw4x 33, %5, %1 \n\t" +- "lxvw4x 34, %6, %1 \n\t" +- "lxvw4x 35, %7, %1 \n\t" +- +- "lxvw4x 40, 0, %2 \n\t" // load y +- "lxvw4x 41, %5, %2 \n\t" +- "lxvw4x 42, %6, %2 \n\t" +- "lxvw4x 43, %7, %2 \n\t" +- +- "addi %1, %1, 64 \n\t" +- "addi %2, %2, 64 \n\t" +- +- "addic. %0 , %0 , -16 \n\t" +- "ble 2f \n\t" +- +- ".align 5 \n\t" +- "1: \n\t" +- +- "xvmulsp 48, 32, 36 \n\t" // c * x +- "xvmulsp 49, 33, 36 \n\t" +- "xvmulsp 50, 34, 36 \n\t" +- "xvmulsp 51, 35, 36 \n\t" +- +- "xvmulsp 56, 40, 36 \n\t" // c * y +- "xvmulsp 57, 41, 36 \n\t" +- "xvmulsp 58, 42, 36 \n\t" +- "xvmulsp 59, 43, 36 \n\t" +- +- "xvmulsp 52, 32, 37 \n\t" // s * x +- "xvmulsp 53, 33, 37 \n\t" +- +- "lxvw4x 32, 0, %1 \n\t" // load x +- "lxvw4x 33, %5, %1 \n\t" +- +- "xvmulsp 54, 34, 37 \n\t" +- "xvmulsp 55, 35, 37 \n\t" +- +- "lxvw4x 34, %6, %1 \n\t" +- "lxvw4x 35, %7, %1 \n\t" +- +- "xvmulsp 60, 40, 37 \n\t" // s * y +- "xvmulsp 61, 41, 37 \n\t" +- +- "lxvw4x 40, 0, %2 \n\t" // load y +- "lxvw4x 41, %5, %2 \n\t" +- +- "xvmulsp 62, 42, 37 \n\t" +- "xvmulsp 63, 43, 37 \n\t" +- +- "lxvw4x 42, %6, %2 \n\t" +- "lxvw4x 43, %7, %2 \n\t" +- +- "xvaddsp 48, 48 , 60 \n\t" // c * x + s * y +- "xvaddsp 49, 49 , 61 \n\t" // c * x + s * y +- +- "addi %1, %1, 64 \n\t" +- "addi %2, %2, 64 \n\t" +- +- "xvaddsp 50, 50 , 62 \n\t" // c * x + s * y +- "xvaddsp 51, 51 , 63 \n\t" // c * x + s * y +- +- "xvsubsp 56, 56 , 52 \n\t" // c * y - s * x +- "xvsubsp 57, 57 , 53 \n\t" // c * y - s * x +- "xvsubsp 58, 58 , 54 \n\t" // c * y - s * x +- "xvsubsp 59, 59 , 55 \n\t" // c * y - s * x +- +- "stxvw4x 48, 0, %8 \n\t" // store x +- "stxvw4x 49, %5, %8 \n\t" +- "stxvw4x 50, %6, %8 \n\t" +- "stxvw4x 51, %7, %8 \n\t" +- +- "stxvw4x 56, 0, %9 \n\t" // store y +- "stxvw4x 57, %5, %9 \n\t" +- "stxvw4x 58, %6, %9 \n\t" +- "stxvw4x 59, %7, %9 \n\t" +- +- "addi %8, %8, 64 \n\t" +- "addi %9, %9, 64 \n\t" +- +- "addic. %0 , %0 , -16 \n\t" +- "bgt 1b \n\t" +- +- "2: \n\t" +- +- "xvmulsp 48, 32, 36 \n\t" // c * x +- "xvmulsp 49, 33, 36 \n\t" +- "xvmulsp 50, 34, 36 \n\t" +- "xvmulsp 51, 35, 36 \n\t" +- +- "xvmulsp 56, 40, 36 \n\t" // c * y +- "xvmulsp 57, 41, 36 \n\t" +- "xvmulsp 58, 42, 36 \n\t" +- "xvmulsp 59, 43, 36 \n\t" +- +- "xvmulsp 52, 32, 37 \n\t" // s * x +- "xvmulsp 53, 33, 37 \n\t" +- "xvmulsp 54, 34, 37 \n\t" +- "xvmulsp 55, 35, 37 \n\t" +- +- "xvmulsp 60, 40, 37 \n\t" // s * y +- "xvmulsp 61, 41, 37 \n\t" +- "xvmulsp 62, 42, 37 \n\t" +- "xvmulsp 63, 43, 37 \n\t" +- +- "xvaddsp 48, 48 , 60 \n\t" // c * x + s * y +- "xvaddsp 49, 49 , 61 \n\t" // c * x + s * y +- "xvaddsp 50, 50 , 62 \n\t" // c * x + s * y +- "xvaddsp 51, 51 , 63 \n\t" // c * x + s * y +- +- "xvsubsp 56, 56 , 52 \n\t" // c * y - s * x +- "xvsubsp 57, 57 , 53 \n\t" // c * y - s * x +- "xvsubsp 58, 58 , 54 \n\t" // c * y - s * x +- "xvsubsp 59, 59 , 55 \n\t" // c * y - s * x ++ "xscvdpspn 37, %x14 \n\t" // load s to all words ++ "xxspltw 37, 37, 0 \n\t" + +- "stxvw4x 48, 0, %8 \n\t" // store x +- "stxvw4x 49, %5, %8 \n\t" +- "stxvw4x 50, %6, %8 \n\t" +- "stxvw4x 51, %7, %8 \n\t" ++ "lxvw4x 32, 0, %3 \n\t" // load x ++ "lxvw4x 33, %15, %3 \n\t" ++ "lxvw4x 34, %16, %3 \n\t" ++ "lxvw4x 35, %17, %3 \n\t" + +- "stxvw4x 56, 0, %9 \n\t" // store y +- "stxvw4x 57, %5, %9 \n\t" +- "stxvw4x 58, %6, %9 \n\t" +- "stxvw4x 59, %7, %9 \n\t" ++ "lxvw4x 48, 0, %4 \n\t" // load y ++ "lxvw4x 49, %15, %4 \n\t" ++ "lxvw4x 50, %16, %4 \n\t" ++ "lxvw4x 51, %17, %4 \n\t" + ++ "addi %3, %3, 64 \n\t" ++ "addi %4, %4, 64 \n\t" + ++ "addic. %2, %2, -16 \n\t" ++ "ble 2f \n\t" + +- : +- : +- "r" (i), // 0 +- "r" (x1), // 1 +- "r" (y1), // 2 +- "r" (c), // 3 +- "r" (s), // 4 +- "r" (o16), // 5 +- "r" (o32), // 6 +- "r" (o48), // 7 +- "r" (x2), // 8 +- "r" (y2) // 9 +- : "cr0", "%0", "%1" , "%2", "%8", "%9", "memory" +- ); ++ ".p2align 5 \n" ++ "1: \n\t" + +-} ++ "xvmulsp 40, 32, 36 \n\t" // c * x ++ "xvmulsp 41, 33, 36 \n\t" ++ "xvmulsp 42, 34, 36 \n\t" ++ "xvmulsp 43, 35, 36 \n\t" + ++ "xvmulsp %x5, 48, 36 \n\t" // c * y ++ "xvmulsp %x6, 49, 36 \n\t" ++ "xvmulsp %x7, 50, 36 \n\t" ++ "xvmulsp %x8, 51, 36 \n\t" + ++ "xvmulsp 44, 32, 37 \n\t" // s * x ++ "xvmulsp 45, 33, 37 \n\t" ++ ++ "lxvw4x 32, 0, %3 \n\t" // load x ++ "lxvw4x 33, %15, %3 \n\t" ++ ++ "xvmulsp 46, 34, 37 \n\t" ++ "xvmulsp 47, 35, 37 \n\t" ++ ++ "lxvw4x 34, %16, %3 \n\t" ++ "lxvw4x 35, %17, %3 \n\t" ++ ++ "xvmulsp %x9, 48, 37 \n\t" // s * y ++ "xvmulsp %x10, 49, 37 \n\t" ++ ++ "lxvw4x 48, 0, %4 \n\t" // load y ++ "lxvw4x 49, %15, %4 \n\t" ++ ++ "xvmulsp %x11, 50, 37 \n\t" ++ "xvmulsp %x12, 51, 37 \n\t" ++ ++ "lxvw4x 50, %16, %4 \n\t" ++ "lxvw4x 51, %17, %4 \n\t" ++ ++ "xvaddsp 40, 40, %x9 \n\t" // c * x + s * y ++ "xvaddsp 41, 41, %x10 \n\t" // c * x + s * y ++ ++ "addi %3, %3, -64 \n\t" ++ "addi %4, %4, -64 \n\t" ++ ++ "xvaddsp 42, 42, %x11 \n\t" // c * x + s * y ++ "xvaddsp 43, 43, %x12 \n\t" // c * x + s * y ++ ++ "xvsubsp %x5, %x5, 44 \n\t" // c * y - s * x ++ "xvsubsp %x6, %x6, 45 \n\t" // c * y - s * x ++ "xvsubsp %x7, %x7, 46 \n\t" // c * y - s * x ++ "xvsubsp %x8, %x8, 47 \n\t" // c * y - s * x ++ ++ "stxvw4x 40, 0, %3 \n\t" // store x ++ "stxvw4x 41, %15, %3 \n\t" ++ "stxvw4x 42, %16, %3 \n\t" ++ "stxvw4x 43, %17, %3 \n\t" ++ ++ "stxvw4x %x5, 0, %4 \n\t" // store y ++ "stxvw4x %x6, %15, %4 \n\t" ++ "stxvw4x %x7, %16, %4 \n\t" ++ "stxvw4x %x8, %17, %4 \n\t" ++ ++ "addi %3, %3, 128 \n\t" ++ "addi %4, %4, 128 \n\t" ++ ++ "addic. %2, %2, -16 \n\t" ++ "bgt 1b \n" ++ ++ "2: \n\t" ++ ++ "xvmulsp 40, 32, 36 \n\t" // c * x ++ "xvmulsp 41, 33, 36 \n\t" ++ "xvmulsp 42, 34, 36 \n\t" ++ "xvmulsp 43, 35, 36 \n\t" ++ ++ "xvmulsp %x5, 48, 36 \n\t" // c * y ++ "xvmulsp %x6, 49, 36 \n\t" ++ "xvmulsp %x7, 50, 36 \n\t" ++ "xvmulsp %x8, 51, 36 \n\t" ++ ++ "xvmulsp 44, 32, 37 \n\t" // s * x ++ "xvmulsp 45, 33, 37 \n\t" ++ "xvmulsp 46, 34, 37 \n\t" ++ "xvmulsp 47, 35, 37 \n\t" ++ ++ "xvmulsp %x9, 48, 37 \n\t" // s * y ++ "xvmulsp %x10, 49, 37 \n\t" ++ "xvmulsp %x11, 50, 37 \n\t" ++ "xvmulsp %x12, 51, 37 \n\t" ++ ++ "addi %3, %3, -64 \n\t" ++ "addi %4, %4, -64 \n\t" ++ ++ "xvaddsp 40, 40, %x9 \n\t" // c * x + s * y ++ "xvaddsp 41, 41, %x10 \n\t" // c * x + s * y ++ "xvaddsp 42, 42, %x11 \n\t" // c * x + s * y ++ "xvaddsp 43, 43, %x12 \n\t" // c * x + s * y ++ ++ "xvsubsp %x5, %x5, 44 \n\t" // c * y - s * x ++ "xvsubsp %x6, %x6, 45 \n\t" // c * y - s * x ++ "xvsubsp %x7, %x7, 46 \n\t" // c * y - s * x ++ "xvsubsp %x8, %x8, 47 \n\t" // c * y - s * x ++ ++ "stxvw4x 40, 0, %3 \n\t" // store x ++ "stxvw4x 41, %15, %3 \n\t" ++ "stxvw4x 42, %16, %3 \n\t" ++ "stxvw4x 43, %17, %3 \n\t" ++ ++ "stxvw4x %x5, 0, %4 \n\t" // store y ++ "stxvw4x %x6, %15, %4 \n\t" ++ "stxvw4x %x7, %16, %4 \n\t" ++ "stxvw4x %x8, %17, %4 \n" ++ ++ "#n=%2 x=%0=%3 y=%1=%4 c=%13 s=%14 o16=%15 o32=%16 o48=%17\n" ++ "#t0=%x5 t1=%x6 t2=%x7 t3=%x8 t4=%x9 t5=%x10 t6=%x11 t7=%x12" ++ : ++ "+m" (*x), ++ "+m" (*y), ++ "+r" (n), // 2 ++ "+b" (x), // 3 ++ "+b" (y), // 4 ++ "=wa" (t0), // 5 ++ "=wa" (t1), // 6 ++ "=wa" (t2), // 7 ++ "=wa" (t3), // 8 ++ "=wa" (t4), // 9 ++ "=wa" (t5), // 10 ++ "=wa" (t6), // 11 ++ "=wa" (t7) // 12 ++ : ++ "f" (c), // 13 ++ "f" (s), // 14 ++ "b" (16), // 15 ++ "b" (32), // 16 ++ "b" (48) // 17 ++ : ++ "cr0", ++ "vs32","vs33","vs34","vs35","vs36","vs37", ++ "vs40","vs41","vs42","vs43","vs44","vs45","vs46","vs47", ++ "vs48","vs49","vs50","vs51" ++ ); ++} +diff --git a/kernel/power/sscal.c b/kernel/power/sscal.c +index c6ef5e969..bd5cdc43f 100644 +--- a/kernel/power/sscal.c ++++ b/kernel/power/sscal.c +@@ -42,11 +42,10 @@ USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. + + #if !defined(HAVE_KERNEL_16) + +-static void sscal_kernel_16( BLASLONG n, FLOAT *da , FLOAT *x ) ++static void sscal_kernel_16 (BLASLONG n, FLOAT *x, FLOAT alpha) + { + + BLASLONG i; +- FLOAT alpha = *da; + + for( i=0; i 0 ) + { +- alpha[0]=da; +- alpha[1]=da; +- alpha[2]=da; +- alpha[3]=da; +- sscal_kernel_16_zero(n1 , alpha , x); ++ sscal_kernel_16_zero(n1, x); + j=n1; + } + +@@ -127,11 +121,7 @@ int CNAME(BLASLONG n, BLASLONG dummy0, BLASLONG dummy1, FLOAT da, FLOAT *x, BLAS + BLASLONG n1 = n & -32; + if ( n1 > 0 ) + { +- alpha[0]=da; +- alpha[1]=da; +- alpha[2]=da; +- alpha[3]=da; +- sscal_kernel_16(n1 , alpha , x); ++ sscal_kernel_16(n1, x, da); + j=n1; + } + while(j < n) +diff --git a/kernel/power/sscal_microk_power8.c b/kernel/power/sscal_microk_power8.c +index 963cec777..49862a329 100644 +--- a/kernel/power/sscal_microk_power8.c ++++ b/kernel/power/sscal_microk_power8.c +@@ -35,184 +35,150 @@ USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. + + #define HAVE_KERNEL_16 1 + +-static void sscal_kernel_16( BLASLONG n, FLOAT *alpha, FLOAT *x) __attribute__ ((noinline)); +- +-static void sscal_kernel_16( BLASLONG n, FLOAT *alpha, FLOAT *x) ++static void sscal_kernel_16 (long n, float *x, float alpha) + { +- +- +- BLASLONG i = n; +- BLASLONG o16 = 16; +- BLASLONG o32 = 32; +- BLASLONG o48 = 48; +- BLASLONG o64 = 64; +- BLASLONG o80 = 80; +- BLASLONG o96 = 96; +- BLASLONG o112 = 112; +- FLOAT *x1=x; +- FLOAT *x2=x+1; +- BLASLONG pre = 384; +- +- __asm__ __volatile__ +- ( +- +- "lxvw4x 32, 0, %3 \n\t" +- "addi %1, %1, -4 \n\t" +- +- "dcbt %2, %4 \n\t" +- +- "lxvw4x 40, 0, %2 \n\t" +- "lxvw4x 41, %5, %2 \n\t" +- "lxvw4x 42, %6, %2 \n\t" +- "lxvw4x 43, %7, %2 \n\t" +- "lxvw4x 44, %8, %2 \n\t" +- "lxvw4x 45, %9, %2 \n\t" +- "lxvw4x 46, %10, %2 \n\t" +- "lxvw4x 47, %11, %2 \n\t" +- +- "addi %2, %2, 128 \n\t" +- +- "addic. %0 , %0 , -32 \n\t" +- "ble 2f \n\t" +- +- ".align 5 \n\t" +- "1: \n\t" +- +- "dcbt %2, %4 \n\t" +- +- "xvmulsp 48, 40, 32 \n\t" +- "xvmulsp 49, 41, 32 \n\t" +- "lxvw4x 40, 0, %2 \n\t" +- "lxvw4x 41, %5, %2 \n\t" +- "xvmulsp 50, 42, 32 \n\t" +- "xvmulsp 51, 43, 32 \n\t" +- "lxvw4x 42, %6, %2 \n\t" +- "lxvw4x 43, %7, %2 \n\t" +- "xvmulsp 52, 44, 32 \n\t" +- "xvmulsp 53, 45, 32 \n\t" +- "lxvw4x 44, %8, %2 \n\t" +- "lxvw4x 45, %9, %2 \n\t" +- "xvmulsp 54, 46, 32 \n\t" +- "xvmulsp 55, 47, 32 \n\t" +- "lxvw4x 46, %10, %2 \n\t" +- "lxvw4x 47, %11, %2 \n\t" +- +- "stxvw4x 48, 0, %1 \n\t" +- "stxvw4x 49, %5, %1 \n\t" +- "stxvw4x 50, %6, %1 \n\t" +- "stxvw4x 51, %7, %1 \n\t" +- "stxvw4x 52, %8, %1 \n\t" +- "stxvw4x 53, %9, %1 \n\t" +- "stxvw4x 54, %10, %1 \n\t" +- "stxvw4x 55, %11, %1 \n\t" +- +- "addi %1, %1, 128 \n\t" +- "addi %2, %2, 128 \n\t" +- +- "addic. %0 , %0 , -32 \n\t" +- "bgt 1b \n\t" +- +- "2: \n\t" +- +- "xvmulsp 48, 40, 32 \n\t" +- "xvmulsp 49, 41, 32 \n\t" +- "xvmulsp 50, 42, 32 \n\t" +- "xvmulsp 51, 43, 32 \n\t" +- "xvmulsp 52, 44, 32 \n\t" +- "xvmulsp 53, 45, 32 \n\t" +- "xvmulsp 54, 46, 32 \n\t" +- "xvmulsp 55, 47, 32 \n\t" +- +- "stxvw4x 48, 0, %1 \n\t" +- "stxvw4x 49, %5, %1 \n\t" +- "stxvw4x 50, %6, %1 \n\t" +- "stxvw4x 51, %7, %1 \n\t" +- "stxvw4x 52, %8, %1 \n\t" +- "stxvw4x 53, %9, %1 \n\t" +- "stxvw4x 54, %10, %1 \n\t" +- "stxvw4x 55, %11, %1 \n\t" +- +- : +- : +- "r" (i), // 0 +- "r" (x2), // 1 +- "r" (x1), // 2 +- "r" (alpha), // 3 +- "r" (pre), // 4 +- "r" (o16), // 5 +- "r" (o32), // 6 +- "r" (o48), // 7 +- "r" (o64), // 8 +- "r" (o80), // 9 +- "r" (o96), // 10 +- "r" (o112) // 11 +- : "cr0", "%0", "%2" , "%1", "memory" +- ); +- +-} +- +- +-static void sscal_kernel_16_zero( BLASLONG n, FLOAT *alpha, FLOAT *x) __attribute__ ((noinline)); +- +-static void sscal_kernel_16_zero( BLASLONG n, FLOAT *alpha, FLOAT *x) ++ __asm__ ++ ( ++ "dcbt 0, %2 \n\t" ++ ++ "xscvdpspn %x3, %x3 \n\t" ++ "xxspltw %x3, %x3, 0 \n\t" ++ ++ "lxvw4x 32, 0, %2 \n\t" ++ "lxvw4x 33, %4, %2 \n\t" ++ "lxvw4x 34, %5, %2 \n\t" ++ "lxvw4x 35, %6, %2 \n\t" ++ "lxvw4x 36, %7, %2 \n\t" ++ "lxvw4x 37, %8, %2 \n\t" ++ "lxvw4x 38, %9, %2 \n\t" ++ "lxvw4x 39, %10, %2 \n\t" ++ ++ "addi %2, %2, 128 \n\t" ++ ++ "addic. %1, %1, -32 \n\t" ++ "ble 2f \n\t" ++ ++ ".p2align 5 \n" ++ "1: \n\t" ++ ++ "xvmulsp 40, 32, %x3 \n\t" ++ "xvmulsp 41, 33, %x3 \n\t" ++ "lxvw4x 32, 0, %2 \n\t" ++ "lxvw4x 33, %4, %2 \n\t" ++ "xvmulsp 42, 34, %x3 \n\t" ++ "xvmulsp 43, 35, %x3 \n\t" ++ "lxvw4x 34, %5, %2 \n\t" ++ "lxvw4x 35, %6, %2 \n\t" ++ "xvmulsp 44, 36, %x3 \n\t" ++ "xvmulsp 45, 37, %x3 \n\t" ++ "lxvw4x 36, %7, %2 \n\t" ++ "lxvw4x 37, %8, %2 \n\t" ++ "xvmulsp 46, 38, %x3 \n\t" ++ "xvmulsp 47, 39, %x3 \n\t" ++ "lxvw4x 38, %9, %2 \n\t" ++ "lxvw4x 39, %10, %2 \n\t" ++ ++ "addi %2, %2, -128 \n\t" ++ ++ "stxvw4x 40, 0, %2 \n\t" ++ "stxvw4x 41, %4, %2 \n\t" ++ "stxvw4x 42, %5, %2 \n\t" ++ "stxvw4x 43, %6, %2 \n\t" ++ "stxvw4x 44, %7, %2 \n\t" ++ "stxvw4x 45, %8, %2 \n\t" ++ "stxvw4x 46, %9, %2 \n\t" ++ "stxvw4x 47, %10, %2 \n\t" ++ ++ "addi %2, %2, 256 \n\t" ++ ++ "addic. %1, %1, -32 \n\t" ++ "bgt 1b \n" ++ ++ "2: \n\t" ++ ++ "xvmulsp 40, 32, %x3 \n\t" ++ "xvmulsp 41, 33, %x3 \n\t" ++ "xvmulsp 42, 34, %x3 \n\t" ++ "xvmulsp 43, 35, %x3 \n\t" ++ ++ "addi %2, %2, -128 \n\t" ++ ++ "xvmulsp 44, 36, %x3 \n\t" ++ "xvmulsp 45, 37, %x3 \n\t" ++ "xvmulsp 46, 38, %x3 \n\t" ++ "xvmulsp 47, 39, %x3 \n\t" ++ ++ "stxvw4x 40, 0, %2 \n\t" ++ "stxvw4x 41, %4, %2 \n\t" ++ "stxvw4x 42, %5, %2 \n\t" ++ "stxvw4x 43, %6, %2 \n\t" ++ "stxvw4x 44, %7, %2 \n\t" ++ "stxvw4x 45, %8, %2 \n\t" ++ "stxvw4x 46, %9, %2 \n\t" ++ "stxvw4x 47, %10, %2 \n" ++ ++ "#n=%1 alpha=%3 x=%0=%2 o16=%4 o32=%5 o48=%6 o64=%7 o80=%8 o96=%9 o112=%10" ++ : ++ "+m" (*x), ++ "+r" (n), // 1 ++ "+b" (x), // 2 ++ "+f" (alpha) // 3 ++ : ++ "b" (16), // 4 ++ "b" (32), // 5 ++ "b" (48), // 6 ++ "b" (64), // 7 ++ "b" (80), // 8 ++ "b" (96), // 9 ++ "b" (112) // 10 ++ : ++ "cr0", ++ "vs32","vs33","vs34","vs35","vs36","vs37","vs38","vs39", ++ "vs40","vs41","vs42","vs43","vs44","vs45","vs46","vs47" ++ ); ++} ++ ++ ++static void sscal_kernel_16_zero (long n, float *x) + { +- +- +- BLASLONG i = n; +- BLASLONG o16 = 16; +- BLASLONG o32 = 32; +- BLASLONG o48 = 48; +- BLASLONG o64 = 64; +- BLASLONG o80 = 80; +- BLASLONG o96 = 96; +- BLASLONG o112 = 112; +- FLOAT *x1=x; +- FLOAT *x2=x+1; +- BLASLONG pre = 384; +- +- __asm__ __volatile__ +- ( +- +- "xxlxor 32 , 32 , 32 \n\t" +- "addi %1, %1, -4 \n\t" +- +- +- ".align 5 \n\t" +- "1: \n\t" +- +- "stxvw4x 32, 0, %1 \n\t" +- "stxvw4x 32, %5, %1 \n\t" +- "stxvw4x 32, %6, %1 \n\t" +- "stxvw4x 32, %7, %1 \n\t" +- "stxvw4x 32, %8, %1 \n\t" +- "stxvw4x 32, %9, %1 \n\t" +- "stxvw4x 32, %10, %1 \n\t" +- "stxvw4x 32, %11, %1 \n\t" +- +- "addi %1, %1, 128 \n\t" +- +- "addic. %0 , %0 , -32 \n\t" +- "bgt 1b \n\t" +- +- "2: \n\t" +- +- : +- : +- "r" (i), // 0 +- "r" (x2), // 1 +- "r" (x1), // 2 +- "r" (alpha), // 3 +- "r" (pre), // 4 +- "r" (o16), // 5 +- "r" (o32), // 6 +- "r" (o48), // 7 +- "r" (o64), // 8 +- "r" (o80), // 9 +- "r" (o96), // 10 +- "r" (o112) // 11 +- : "cr0", "%0", "%2" , "%1", "memory" +- ); +- +-} +- +- ++ __vector float t0; ++ ++ __asm__ ++ ( ++ "xxlxor %x3, %x3, %x3 \n\t" ++ ++ ".p2align 5 \n" ++ "1: \n\t" ++ ++ "stxvw4x %x3, 0, %2 \n\t" ++ "stxvw4x %x3, %4, %2 \n\t" ++ "stxvw4x %x3, %5, %2 \n\t" ++ "stxvw4x %x3, %6, %2 \n\t" ++ "stxvw4x %x3, %7, %2 \n\t" ++ "stxvw4x %x3, %8, %2 \n\t" ++ "stxvw4x %x3, %9, %2 \n\t" ++ "stxvw4x %x3, %10, %2 \n\t" ++ ++ "addi %2, %2, 128 \n\t" ++ ++ "addic. %1, %1, -32 \n\t" ++ "bgt 1b \n" ++ ++ "#n=%1 x=%0=%2 t0=%x3 o16=%4 o32=%5 o48=%6 o64=%7 o80=%8 o96=%9 o112=%10" ++ : ++ "=m" (*x), ++ "+r" (n), // 1 ++ "+b" (x), // 2 ++ "=wa" (t0) // 3 ++ : ++ "b" (16), // 4 ++ "b" (32), // 5 ++ "b" (48), // 6 ++ "b" (64), // 7 ++ "b" (80), // 8 ++ "b" (96), // 9 ++ "b" (112) // 10 ++ : ++ "cr0" ++ ); ++} +diff --git a/kernel/power/sswap_microk_power8.c b/kernel/power/sswap_microk_power8.c +index c48e743de..d44f16765 100644 +--- a/kernel/power/sswap_microk_power8.c ++++ b/kernel/power/sswap_microk_power8.c +@@ -35,102 +35,74 @@ USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. + + #define HAVE_KERNEL_32 1 + +-static void sswap_kernel_32( BLASLONG n, FLOAT *x, FLOAT *y) __attribute__ ((noinline)); +- +-static void sswap_kernel_32( BLASLONG n, FLOAT *x, FLOAT *y) ++static void sswap_kernel_32 (long n, float *x, float *y) + { +- +- +- BLASLONG i = n; +- BLASLONG o16 = 16; +- BLASLONG o32 = 32; +- BLASLONG o48 = 48; +- BLASLONG o64 = 64; +- BLASLONG o80 = 80; +- BLASLONG o96 = 96; +- BLASLONG o112 = 112; +- FLOAT *x1=x; +- FLOAT *y1=y; +- FLOAT *x2=x+1; +- FLOAT *y2=y+1; +- BLASLONG pre = 384; +- BLASLONG alpha=0; +- +- __asm__ __volatile__ +- ( +- +- "addi %3, %3, -4 \n\t" +- "addi %4, %4, -4 \n\t" +- +- ".align 5 \n\t" +- "1: \n\t" +- +- "lxvw4x 32, 0, %2 \n\t" +- "lxvw4x 33, %5, %2 \n\t" +- "lxvw4x 34, %6, %2 \n\t" +- "lxvw4x 35, %7, %2 \n\t" +- "lxvw4x 36, %8, %2 \n\t" +- "lxvw4x 37, %9, %2 \n\t" +- "lxvw4x 38, %10, %2 \n\t" +- "lxvw4x 39, %11, %2 \n\t" +- +- "addi %2, %2, 128 \n\t" +- +- "lxvw4x 48, 0, %1 \n\t" +- "lxvw4x 49, %5, %1 \n\t" +- "lxvw4x 50, %6, %1 \n\t" +- "lxvw4x 51, %7, %1 \n\t" +- "lxvw4x 52, %8, %1 \n\t" +- "lxvw4x 53, %9, %1 \n\t" +- "lxvw4x 54, %10, %1 \n\t" +- "lxvw4x 55, %11, %1 \n\t" +- +- "addi %1, %1, 128 \n\t" +- +- "stxvw4x 32, 0, %3 \n\t" +- "stxvw4x 33, %5, %3 \n\t" +- "stxvw4x 34, %6, %3 \n\t" +- "stxvw4x 35, %7, %3 \n\t" +- "stxvw4x 36, %8, %3 \n\t" +- "stxvw4x 37, %9, %3 \n\t" +- "stxvw4x 38, %10, %3 \n\t" +- "stxvw4x 39, %11, %3 \n\t" +- +- "addi %3, %3, 128 \n\t" +- +- "stxvw4x 48, 0, %4 \n\t" +- "stxvw4x 49, %5, %4 \n\t" +- "stxvw4x 50, %6, %4 \n\t" +- "stxvw4x 51, %7, %4 \n\t" +- "stxvw4x 52, %8, %4 \n\t" +- "stxvw4x 53, %9, %4 \n\t" +- "stxvw4x 54, %10, %4 \n\t" +- "stxvw4x 55, %11, %4 \n\t" +- +- "addi %4, %4, 128 \n\t" +- +- "addic. %0 , %0 , -32 \n\t" +- "bgt 1b \n\t" +- +- "2: \n\t" +- +- : +- : +- "r" (i), // 0 +- "r" (y1), // 1 +- "r" (x1), // 2 +- "r" (y2), // 3 +- "r" (x2), // 4 +- "r" (o16), // 5 +- "r" (o32), // 6 +- "r" (o48), // 7 +- "r" (o64), // 8 +- "r" (o80), // 9 +- "r" (o96), // 10 +- "r" (o112) // 11 +- : "cr0", "%0", "%2" , "%1", "%3", "%4", "memory" +- ); +- +-} +- +- ++ __asm__ ++ ( ++ ".p2align 5 \n" ++ "1: \n\t" ++ ++ "lxvw4x 32, 0, %4 \n\t" ++ "lxvw4x 33, %5, %4 \n\t" ++ "lxvw4x 34, %6, %4 \n\t" ++ "lxvw4x 35, %7, %4 \n\t" ++ "lxvw4x 36, %8, %4 \n\t" ++ "lxvw4x 37, %9, %4 \n\t" ++ "lxvw4x 38, %10, %4 \n\t" ++ "lxvw4x 39, %11, %4 \n\t" ++ ++ "lxvw4x 40, 0, %3 \n\t" ++ "lxvw4x 41, %5, %3 \n\t" ++ "lxvw4x 42, %6, %3 \n\t" ++ "lxvw4x 43, %7, %3 \n\t" ++ "lxvw4x 44, %8, %3 \n\t" ++ "lxvw4x 45, %9, %3 \n\t" ++ "lxvw4x 46, %10, %3 \n\t" ++ "lxvw4x 47, %11, %3 \n\t" ++ ++ "stxvw4x 32, 0, %3 \n\t" ++ "stxvw4x 33, %5, %3 \n\t" ++ "stxvw4x 34, %6, %3 \n\t" ++ "stxvw4x 35, %7, %3 \n\t" ++ "stxvw4x 36, %8, %3 \n\t" ++ "stxvw4x 37, %9, %3 \n\t" ++ "stxvw4x 38, %10, %3 \n\t" ++ "stxvw4x 39, %11, %3 \n\t" ++ ++ "addi %3, %3, 128 \n\t" ++ ++ "stxvw4x 40, 0, %4 \n\t" ++ "stxvw4x 41, %5, %4 \n\t" ++ "stxvw4x 42, %6, %4 \n\t" ++ "stxvw4x 43, %7, %4 \n\t" ++ "stxvw4x 44, %8, %4 \n\t" ++ "stxvw4x 45, %9, %4 \n\t" ++ "stxvw4x 46, %10, %4 \n\t" ++ "stxvw4x 47, %11, %4 \n\t" ++ ++ "addi %4, %4, 128 \n\t" ++ ++ "addic. %2, %2, -32 \n\t" ++ "bgt 1b \n" ++ ++ "#n=%2 x=%0=%3 y=%1=%4 o16=%5 o32=%6 o48=%7 o64=%8 o80=%9 o96=%10 o112=%11" ++ : ++ "+m" (*x), ++ "+m" (*y), ++ "+r" (n), // 2 ++ "+b" (x), // 3 ++ "+b" (y) // 4 ++ : ++ "b" (16), // 5 ++ "b" (32), // 6 ++ "b" (48), // 7 ++ "b" (64), // 8 ++ "b" (80), // 9 ++ "b" (96), // 10 ++ "b" (112) // 11 ++ : ++ "cr0", ++ "vs32","vs33","vs34","vs35","vs36","vs37","vs38","vs39", ++ "vs40","vs41","vs42","vs43","vs44","vs45","vs46","vs47" ++ ); ++} +diff --git a/kernel/power/zasum.c b/kernel/power/zasum.c +index abd6ec08a..0b6b87d46 100644 +--- a/kernel/power/zasum.c ++++ b/kernel/power/zasum.c +@@ -53,7 +53,7 @@ USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. + + #ifndef HAVE_KERNEL_8 + +-static void zasum_kernel_8(BLASLONG n, FLOAT *x1, FLOAT *svec) ++static FLOAT zasum_kernel_8(BLASLONG n, FLOAT *x1) + { + + BLASLONG i=0; +@@ -92,9 +92,7 @@ static void zasum_kernel_8(BLASLONG n, FLOAT *x1, FLOAT *svec) + + } + +- svec[0] = sum0+sum1+sum2+sum3; +- svec[1] = 0.0; +- ++ return sum0+sum1+sum2+sum3; + } + + #endif +@@ -104,7 +102,6 @@ FLOAT CNAME(BLASLONG n, FLOAT *x, BLASLONG inc_x) + BLASLONG i=0; + BLASLONG ip=0; + FLOAT sumf = 0.0; +- FLOAT svec[2] __attribute__ ((aligned (16)));; + BLASLONG n1; + BLASLONG inc_x2; + +@@ -117,8 +114,7 @@ FLOAT CNAME(BLASLONG n, FLOAT *x, BLASLONG inc_x) + if ( n1 > 0 ) + { + +- zasum_kernel_8(n1, x, svec); +- sumf = svec[0] + svec[1]; ++ sumf = zasum_kernel_8(n1, x); + i=n1; + ip=2*n1; + } +diff --git a/kernel/power/zasum_microk_power8.c b/kernel/power/zasum_microk_power8.c +index b9f6c0ac6..82366902d 100644 +--- a/kernel/power/zasum_microk_power8.c ++++ b/kernel/power/zasum_microk_power8.c +@@ -34,144 +34,140 @@ USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. + **************************************************************************************/ + + #define HAVE_KERNEL_8 1 +-static void zasum_kernel_8( BLASLONG n, FLOAT *x, FLOAT *svec) __attribute__ ((noinline)); + +-static void zasum_kernel_8( BLASLONG n, FLOAT *x, FLOAT *svec) ++static double zasum_kernel_8 (long n, double *x) + { +- +- +- BLASLONG i = n; +- BLASLONG o16 = 16; +- BLASLONG o32 = 32; +- BLASLONG o48 = 48; +- BLASLONG o64 = 64; +- BLASLONG o80 = 80; +- BLASLONG o96 = 96; +- BLASLONG o112 = 112; +- FLOAT *x1=x; +- BLASLONG pre = 384; +- +- __asm__ __volatile__ +- ( +- +- "dcbt %2 , %4 \n\t" +- +- "xxlxor 32,32,32 \n\t" +- "xxlxor 33,33,33 \n\t" +- "xxlxor 34,34,34 \n\t" +- "xxlxor 35,35,35 \n\t" +- "xxlxor 36,36,36 \n\t" +- "xxlxor 37,37,37 \n\t" +- "xxlxor 38,38,38 \n\t" +- "xxlxor 39,39,39 \n\t" +- +- "lxvd2x 40, 0, %2 \n\t" +- "lxvd2x 41, %5, %2 \n\t" +- "lxvd2x 42, %6, %2 \n\t" +- "lxvd2x 43, %7, %2 \n\t" +- "lxvd2x 44, %8, %2 \n\t" +- "lxvd2x 45, %9, %2 \n\t" +- "lxvd2x 46, %10, %2 \n\t" +- "lxvd2x 47, %11, %2 \n\t" +- +- "addi %2, %2, 128 \n\t" +- +- "addic. %0 , %0 , -8 \n\t" +- "ble 2f \n\t" +- +- ".align 5 \n\t" +- "1: \n\t" +- +- "dcbt %2 , %4 \n\t" +- +- "xvabsdp 48, 40 \n\t" +- "xvabsdp 49, 41 \n\t" +- "xvabsdp 50, 42 \n\t" +- "xvabsdp 51, 43 \n\t" +- +- "lxvd2x 40, 0, %2 \n\t" +- "lxvd2x 41, %5, %2 \n\t" +- +- "xvabsdp 52, 44 \n\t" +- "xvabsdp 53, 45 \n\t" +- +- "lxvd2x 42, %6, %2 \n\t" +- "lxvd2x 43, %7, %2 \n\t" +- +- "xvabsdp 54, 46 \n\t" +- "xvabsdp 55, 47 \n\t" +- +- "lxvd2x 44, %8, %2 \n\t" +- "lxvd2x 45, %9, %2 \n\t" +- +- "xvadddp 32, 32, 48 \n\t" +- "xvadddp 33, 33, 49 \n\t" +- +- "lxvd2x 46, %10, %2 \n\t" +- "lxvd2x 47, %11, %2 \n\t" +- +- "xvadddp 34, 34, 50 \n\t" +- "xvadddp 35, 35, 51 \n\t" +- "addi %2, %2, 128 \n\t" +- "xvadddp 36, 36, 52 \n\t" +- "xvadddp 37, 37, 53 \n\t" +- "addic. %0 , %0 , -8 \n\t" +- "xvadddp 38, 38, 54 \n\t" +- "xvadddp 39, 39, 55 \n\t" +- +- "bgt 1b \n\t" +- +- "2: \n\t" +- +- +- "xvabsdp 48, 40 \n\t" +- "xvabsdp 49, 41 \n\t" +- "xvabsdp 50, 42 \n\t" +- "xvabsdp 51, 43 \n\t" +- "xvabsdp 52, 44 \n\t" +- "xvabsdp 53, 45 \n\t" +- "xvabsdp 54, 46 \n\t" +- "xvabsdp 55, 47 \n\t" +- +- "xvadddp 32, 32, 48 \n\t" +- "xvadddp 33, 33, 49 \n\t" +- "xvadddp 34, 34, 50 \n\t" +- "xvadddp 35, 35, 51 \n\t" +- "xvadddp 36, 36, 52 \n\t" +- "xvadddp 37, 37, 53 \n\t" +- "xvadddp 38, 38, 54 \n\t" +- "xvadddp 39, 39, 55 \n\t" +- +- "xvadddp 32, 32, 33 \n\t" +- "xvadddp 34, 34, 35 \n\t" +- "xvadddp 36, 36, 37 \n\t" +- "xvadddp 38, 38, 39 \n\t" +- +- "xvadddp 32, 32, 34 \n\t" +- "xvadddp 36, 36, 38 \n\t" +- +- "xvadddp 32, 32, 36 \n\t" +- +- +- "stxvd2x 32, 0, %3 \n\t" +- +- : +- : +- "r" (i), // 0 +- "r" (n), // 1 +- "r" (x1), // 2 +- "r" (svec), // 3 +- "r" (pre), // 4 +- "r" (o16), // 5 +- "r" (o32), // 6 +- "r" (o48), // 7 +- "r" (o64), // 8 +- "r" (o80), // 9 +- "r" (o96), // 10 +- "r" (o112) // 11 +- : "cr0", "%0", "%2", "memory" +- ); +- +-} +- +- ++ double sum; ++ __vector double t0; ++ __vector double t1; ++ __vector double t2; ++ __vector double t3; ++ ++ __asm__ ++ ( ++ "dcbt 0, %2 \n\t" ++ ++ "xxlxor 32, 32, 32 \n\t" ++ "xxlxor 33, 33, 33 \n\t" ++ "xxlxor 34, 34, 34 \n\t" ++ "xxlxor 35, 35, 35 \n\t" ++ "xxlxor 36, 36, 36 \n\t" ++ "xxlxor 37, 37, 37 \n\t" ++ "xxlxor 38, 38, 38 \n\t" ++ "xxlxor 39, 39, 39 \n\t" ++ ++ "lxvd2x 40, 0, %2 \n\t" ++ "lxvd2x 41, %8, %2 \n\t" ++ "lxvd2x 42, %9, %2 \n\t" ++ "lxvd2x 43, %10, %2 \n\t" ++ "lxvd2x 44, %11, %2 \n\t" ++ "lxvd2x 45, %12, %2 \n\t" ++ "lxvd2x 46, %13, %2 \n\t" ++ "lxvd2x 47, %14, %2 \n\t" ++ ++ "addi %2, %2, 128 \n\t" ++ ++ "addic. %1, %1, -8 \n\t" ++ "ble 2f \n\t" ++ ++ ".p2align 5 \n" ++ "1: \n\t" ++ ++ "xvabsdp 48, 40 \n\t" ++ "xvabsdp 49, 41 \n\t" ++ "xvabsdp 50, 42 \n\t" ++ "xvabsdp 51, 43 \n\t" ++ ++ "lxvd2x 40, 0, %2 \n\t" ++ "lxvd2x 41, %8, %2 \n\t" ++ ++ "xvabsdp %x3, 44 \n\t" ++ "xvabsdp %x4, 45 \n\t" ++ ++ "lxvd2x 42, %9, %2 \n\t" ++ "lxvd2x 43, %10, %2 \n\t" ++ ++ "xvabsdp %x5, 46 \n\t" ++ "xvabsdp %x6, 47 \n\t" ++ ++ "lxvd2x 44, %11, %2 \n\t" ++ "lxvd2x 45, %12, %2 \n\t" ++ ++ "xvadddp 32, 32, 48 \n\t" ++ "xvadddp 33, 33, 49 \n\t" ++ ++ "lxvd2x 46, %13, %2 \n\t" ++ "lxvd2x 47, %14, %2 \n\t" ++ ++ "xvadddp 34, 34, 50 \n\t" ++ "xvadddp 35, 35, 51 \n\t" ++ "addi %2, %2, 128 \n\t" ++ "xvadddp 36, 36, %x3 \n\t" ++ "xvadddp 37, 37, %x4 \n\t" ++ "addic. %1, %1, -8 \n\t" ++ "xvadddp 38, 38, %x5 \n\t" ++ "xvadddp 39, 39, %x6 \n\t" ++ ++ "bgt 1b \n" ++ ++ "2: \n\t" ++ ++ "xvabsdp 48, 40 \n\t" ++ "xvabsdp 49, 41 \n\t" ++ "xvabsdp 50, 42 \n\t" ++ "xvabsdp 51, 43 \n\t" ++ "xvabsdp %x3, 44 \n\t" ++ "xvabsdp %x4, 45 \n\t" ++ "xvabsdp %x5, 46 \n\t" ++ "xvabsdp %x6, 47 \n\t" ++ ++ "xvadddp 32, 32, 48 \n\t" ++ "xvadddp 33, 33, 49 \n\t" ++ "xvadddp 34, 34, 50 \n\t" ++ "xvadddp 35, 35, 51 \n\t" ++ "xvadddp 36, 36, %x3 \n\t" ++ "xvadddp 37, 37, %x4 \n\t" ++ "xvadddp 38, 38, %x5 \n\t" ++ "xvadddp 39, 39, %x6 \n\t" ++ ++ "xvadddp 32, 32, 33 \n\t" ++ "xvadddp 34, 34, 35 \n\t" ++ "xvadddp 36, 36, 37 \n\t" ++ "xvadddp 38, 38, 39 \n\t" ++ ++ "xvadddp 32, 32, 34 \n\t" ++ "xvadddp 36, 36, 38 \n\t" ++ ++ "xvadddp 32, 32, 36 \n\t" ++ ++ "xxswapd 33, 32 \n\t" ++ "xsadddp %x0, 32, 33 \n" ++ ++ "#n=%1 x=%3=%2 sum=%0 o16=%8 o32=%9 o48=%10 o64=%11 o80=%12 o96=%13 o112=%14\n" ++ "#t0=%x3 t1=%x4 t2=%x5 t3=%x6" ++ : ++ "=d" (sum), // 0 ++ "+r" (n), // 1 ++ "+b" (x), // 2 ++ "=wa" (t0), // 3 ++ "=wa" (t1), // 4 ++ "=wa" (t2), // 5 ++ "=wa" (t3) // 6 ++ : ++ "m" (*x), ++ "b" (16), // 8 ++ "b" (32), // 9 ++ "b" (48), // 10 ++ "b" (64), // 11 ++ "b" (80), // 12 ++ "b" (96), // 13 ++ "b" (112) // 14 ++ : ++ "cr0", ++ "vs32","vs33","vs34","vs35","vs36","vs37","vs38","vs39", ++ "vs40","vs41","vs42","vs43","vs44","vs45","vs46","vs47", ++ "vs48","vs49","vs50","vs51" ++ ); ++ ++ return sum; ++} +diff --git a/kernel/power/zaxpy.c b/kernel/power/zaxpy.c +index 0ee0c1bf9..dd7ab6c3c 100644 +--- a/kernel/power/zaxpy.c ++++ b/kernel/power/zaxpy.c +@@ -78,7 +78,6 @@ int CNAME(BLASLONG n, BLASLONG dummy0, BLASLONG dummy1, FLOAT da_r, FLOAT da_i, + { + BLASLONG i=0; + BLASLONG ix=0,iy=0; +- FLOAT da[4]; + + if ( n <= 0 ) return(0); + +@@ -89,11 +88,7 @@ int CNAME(BLASLONG n, BLASLONG dummy0, BLASLONG dummy1, FLOAT da_r, FLOAT da_i, + + if ( n1 ) + { +- da[0] = da_r; +- da[1] = da_r; +- da[2] = da_i; +- da[3] = da_i; +- zaxpy_kernel_4(n1, x, y , da ); ++ zaxpy_kernel_4 (n1, x, y, da_r, da_i); + ix = 2 * n1; + } + i = n1; +diff --git a/kernel/power/zaxpy_microk_power8.c b/kernel/power/zaxpy_microk_power8.c +index c8a529fd9..124614f62 100644 +--- a/kernel/power/zaxpy_microk_power8.c ++++ b/kernel/power/zaxpy_microk_power8.c +@@ -35,216 +35,225 @@ USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. + + + #define HAVE_KERNEL_4 1 +-static void zaxpy_kernel_4( BLASLONG n, FLOAT *x, FLOAT *y , FLOAT *alpha) __attribute__ ((noinline)); +- +-static void zaxpy_kernel_4( BLASLONG n, FLOAT *x, FLOAT *y, FLOAT *alpha) ++static void zaxpy_kernel_4 (long n, double *x, double *y, ++ double alpha_r, double alpha_i) + { +- +- +- BLASLONG i = n; +- BLASLONG o16 = 16; +- BLASLONG o32 = 32; +- BLASLONG o48 = 48; +- FLOAT *x1=x; +- FLOAT *y1=y; +- FLOAT *y2=y+1; +- BLASLONG pre = 384; +- + #if !defined(CONJ) +- FLOAT mvec[2] = { -1.0, 1.0 }; ++ static const double mvec[2] = { -1.0, 1.0 }; + #else +- FLOAT mvec[2] = { 1.0, -1.0 }; ++ static const double mvec[2] = { 1.0, -1.0 }; + #endif +- +- +- __asm__ __volatile__ +- ( +- +- "lxsdx 34, 0 , %4 \n\t" // alpha_r +- "lxsdx 35, %5, %4 \n\t" // alpha_i +- "xxspltd 32, 34, 0 \n\t" +- "xxspltd 33, 35, 0 \n\t" +- +- "lxvd2x 36, 0, %9 \n\t" // mvec ++ const double *mvecp = mvec; ++ ++ __vector double t0; ++ __vector double t1; ++ __vector double t2; ++ __vector double t3; ++ __vector double t4; ++ __vector double t5; ++ __vector double t6; ++ __vector double t7; ++ __vector double t8; ++ __vector double t9; ++ __vector double t10; ++ __vector double t11; ++ long ytmp; ++ ++ __asm__ ++ ( ++ "xxspltd 32, %x19, 0 \n\t" // alpha_r ++ "xxspltd 33, %x20, 0 \n\t" // alpha_i ++ ++ "lxvd2x 36, 0, %21 \n\t" // mvec + + #if !defined(CONJ) +- "xvmuldp 33, 33 , 36 \n\t" // alpha_i * mvec ++ "xvmuldp 33, 33, 36 \n\t" // alpha_i * mvec + #else +- "xvmuldp 32, 32 , 36 \n\t" // alpha_r * mvec ++ "xvmuldp 32, 32, 36 \n\t" // alpha_r * mvec + #endif + +- "addi %8, %8, -8 \n\t" +- +- "dcbt %2, %10 \n\t" +- "dcbt %3, %10 \n\t" +- +- +- "lxvd2x 40, 0, %2 \n\t" // x0 +- "lxvd2x 41, %5, %2 \n\t" // x1 +- "lxvd2x 42, %6, %2 \n\t" // x2 +- "lxvd2x 43, %7, %2 \n\t" // x3 +- +- "lxvd2x 48, 0, %3 \n\t" // y0 +- "lxvd2x 49, %5, %3 \n\t" // y1 +- "lxvd2x 50, %6, %3 \n\t" // y2 +- "lxvd2x 51, %7, %3 \n\t" // y3 +- +- "xxswapd 56, 40 \n\t" // exchange real and imag part +- "xxswapd 57, 41 \n\t" // exchange real and imag part +- "xxswapd 58, 42 \n\t" // exchange real and imag part +- "xxswapd 59, 43 \n\t" // exchange real and imag part +- +- "addi %2, %2, 64 \n\t" +- "addi %3, %3, 64 \n\t" +- +- "lxvd2x 44, 0, %2 \n\t" // x4 +- "lxvd2x 45, %5, %2 \n\t" // x5 +- "lxvd2x 46, %6, %2 \n\t" // x6 +- "lxvd2x 47, %7, %2 \n\t" // x7 +- +- "lxvd2x 52, 0, %3 \n\t" // y4 +- "lxvd2x 53, %5, %3 \n\t" // y5 +- "lxvd2x 54, %6, %3 \n\t" // y6 +- "lxvd2x 55, %7, %3 \n\t" // y7 +- +- "xxswapd 60, 44 \n\t" // exchange real and imag part +- "xxswapd 61, 45 \n\t" // exchange real and imag part +- "xxswapd 62, 46 \n\t" // exchange real and imag part +- "xxswapd 63, 47 \n\t" // exchange real and imag part +- +- "addi %2, %2, 64 \n\t" +- "addi %3, %3, 64 \n\t" +- +- "addic. %0 , %0 , -8 \n\t" +- "ble 2f \n\t" +- +- ".align 5 \n\t" +- "1: \n\t" +- +- "dcbt %2, %10 \n\t" +- "dcbt %3, %10 \n\t" +- +- "xvmaddadp 48, 40, 32 \n\t" // alpha_r * x0_r , alpha_r * x0_i +- "xvmaddadp 49, 41, 32 \n\t" +- "lxvd2x 40, 0, %2 \n\t" // x0 +- "lxvd2x 41, %5, %2 \n\t" // x1 +- "xvmaddadp 50, 42, 32 \n\t" +- "xvmaddadp 51, 43, 32 \n\t" +- "lxvd2x 42, %6, %2 \n\t" // x2 +- "lxvd2x 43, %7, %2 \n\t" // x3 +- +- "xvmaddadp 52, 44, 32 \n\t" +- "addi %2, %2, 64 \n\t" +- "xvmaddadp 53, 45, 32 \n\t" +- "lxvd2x 44, 0, %2 \n\t" // x4 +- "lxvd2x 45, %5, %2 \n\t" // x5 +- "xvmaddadp 54, 46, 32 \n\t" +- "xvmaddadp 55, 47, 32 \n\t" +- "lxvd2x 46, %6, %2 \n\t" // x6 +- "lxvd2x 47, %7, %2 \n\t" // x7 +- +- "xvmaddadp 48, 56, 33 \n\t" // alpha_i * x0_i , alpha_i * x0_r +- "addi %2, %2, 64 \n\t" +- "xvmaddadp 49, 57, 33 \n\t" +- "xvmaddadp 50, 58, 33 \n\t" +- "xvmaddadp 51, 59, 33 \n\t" +- +- "xvmaddadp 52, 60, 33 \n\t" +- "xvmaddadp 53, 61, 33 \n\t" +- "xvmaddadp 54, 62, 33 \n\t" +- "xvmaddadp 55, 63, 33 \n\t" +- +- "stxvd2x 48, 0, %8 \n\t" +- "stxvd2x 49, %5, %8 \n\t" +- "stxvd2x 50, %6, %8 \n\t" +- "stxvd2x 51, %7, %8 \n\t" +- +- "addi %8, %8, 64 \n\t" +- +- "stxvd2x 52, 0, %8 \n\t" +- "stxvd2x 53, %5, %8 \n\t" +- "stxvd2x 54, %6, %8 \n\t" +- "stxvd2x 55, %7, %8 \n\t" +- +- "addi %8, %8, 64 \n\t" +- +- "xxswapd 56, 40 \n\t" // exchange real and imag part +- "xxswapd 57, 41 \n\t" // exchange real and imag part +- "lxvd2x 48, 0, %3 \n\t" // y0 +- "lxvd2x 49, %5, %3 \n\t" // y1 +- "xxswapd 58, 42 \n\t" // exchange real and imag part +- "xxswapd 59, 43 \n\t" // exchange real and imag part +- "lxvd2x 50, %6, %3 \n\t" // y2 +- "lxvd2x 51, %7, %3 \n\t" // y3 +- +- "xxswapd 60, 44 \n\t" // exchange real and imag part +- "addi %3, %3, 64 \n\t" +- "xxswapd 61, 45 \n\t" // exchange real and imag part +- "lxvd2x 52, 0, %3 \n\t" // y4 +- "lxvd2x 53, %5, %3 \n\t" // y5 +- "xxswapd 62, 46 \n\t" // exchange real and imag part +- "xxswapd 63, 47 \n\t" // exchange real and imag part +- "lxvd2x 54, %6, %3 \n\t" // y6 +- "lxvd2x 55, %7, %3 \n\t" // y7 +- +- "addi %3, %3, 64 \n\t" +- +- "addic. %0 , %0 , -8 \n\t" +- "bgt 1b \n\t" +- +- "2: \n\t" +- +- "xvmaddadp 48, 40, 32 \n\t" // alpha_r * x0_r , alpha_r * x0_i +- "xvmaddadp 49, 41, 32 \n\t" +- "xvmaddadp 50, 42, 32 \n\t" +- "xvmaddadp 51, 43, 32 \n\t" +- +- "xvmaddadp 52, 44, 32 \n\t" +- "xvmaddadp 53, 45, 32 \n\t" +- "xvmaddadp 54, 46, 32 \n\t" +- "xvmaddadp 55, 47, 32 \n\t" +- +- "xvmaddadp 48, 56, 33 \n\t" // alpha_i * x0_i , alpha_i * x0_r +- "xvmaddadp 49, 57, 33 \n\t" +- "xvmaddadp 50, 58, 33 \n\t" +- "xvmaddadp 51, 59, 33 \n\t" +- +- "xvmaddadp 52, 60, 33 \n\t" +- "xvmaddadp 53, 61, 33 \n\t" +- "xvmaddadp 54, 62, 33 \n\t" +- "xvmaddadp 55, 63, 33 \n\t" +- +- +- "stxvd2x 48, 0, %8 \n\t" +- "stxvd2x 49, %5, %8 \n\t" +- "stxvd2x 50, %6, %8 \n\t" +- "stxvd2x 51, %7, %8 \n\t" +- +- "addi %8, %8, 64 \n\t" +- +- "stxvd2x 52, 0, %8 \n\t" +- "stxvd2x 53, %5, %8 \n\t" +- "stxvd2x 54, %6, %8 \n\t" +- "stxvd2x 55, %7, %8 \n\t" +- +- "addi %8, %8, 64 \n\t" +- +- : +- : +- "r" (i), // 0 +- "r" (n), // 1 +- "r" (x1), // 2 +- "r" (y1), // 3 +- "r" (alpha), // 4 +- "r" (o16), // 5 +- "r" (o32), // 6 +- "r" (o48), // 7 +- "r" (y2), // 8 +- "r" (mvec), // 9 +- "r" (pre) // 10 +- : "cr0", "%0", "%2" , "%3", "%8", "memory" +- ); +- +-} +- +- ++ "mr %16, %3 \n\t" ++ "dcbt 0, %2 \n\t" ++ "dcbt 0, %3 \n\t" ++ ++ ++ "lxvd2x 40, 0, %2 \n\t" // x0 ++ "lxvd2x 41, %22, %2 \n\t" // x1 ++ "lxvd2x 42, %23, %2 \n\t" // x2 ++ "lxvd2x 43, %24, %2 \n\t" // x3 ++ ++ "lxvd2x 48, 0, %3 \n\t" // y0 ++ "lxvd2x 49, %22, %3 \n\t" // y1 ++ "lxvd2x 50, %23, %3 \n\t" // y2 ++ "lxvd2x 51, %24, %3 \n\t" // y3 ++ ++ "xxswapd %x8, 40 \n\t" // exchange real and imag part ++ "xxswapd %x9, 41 \n\t" // exchange real and imag part ++ "xxswapd %x10, 42 \n\t" // exchange real and imag part ++ "xxswapd %x11, 43 \n\t" // exchange real and imag part ++ ++ "addi %2, %2, 64 \n\t" ++ "addi %3, %3, 64 \n\t" ++ ++ "lxvd2x 44, 0, %2 \n\t" // x4 ++ "lxvd2x 45, %22, %2 \n\t" // x5 ++ "lxvd2x 46, %23, %2 \n\t" // x6 ++ "lxvd2x 47, %24, %2 \n\t" // x7 ++ ++ "lxvd2x %x4, 0, %3 \n\t" // y4 ++ "lxvd2x %x5, %22, %3 \n\t" // y5 ++ "lxvd2x %x6, %23, %3 \n\t" // y6 ++ "lxvd2x %x7, %24, %3 \n\t" // y7 ++ ++ "xxswapd %x12, 44 \n\t" // exchange real and imag part ++ "xxswapd %x13, 45 \n\t" // exchange real and imag part ++ "xxswapd %x14, 46 \n\t" // exchange real and imag part ++ "xxswapd %x15, 47 \n\t" // exchange real and imag part ++ ++ "addi %2, %2, 64 \n\t" ++ "addi %3, %3, 64 \n\t" ++ ++ "addic. %1, %1, -8 \n\t" ++ "ble 2f \n\t" ++ ++ ".p2align 5 \n" ++ "1: \n\t" ++ ++ "xvmaddadp 48, 40, 32 \n\t" // alpha_r * x0_r , alpha_r * x0_i ++ "xvmaddadp 49, 41, 32 \n\t" ++ "lxvd2x 40, 0, %2 \n\t" // x0 ++ "lxvd2x 41, %22, %2 \n\t" // x1 ++ "xvmaddadp 50, 42, 32 \n\t" ++ "xvmaddadp 51, 43, 32 \n\t" ++ "lxvd2x 42, %23, %2 \n\t" // x2 ++ "lxvd2x 43, %24, %2 \n\t" // x3 ++ ++ "xvmaddadp %x4, 44, 32 \n\t" ++ "addi %2, %2, 64 \n\t" ++ "xvmaddadp %x5, 45, 32 \n\t" ++ "lxvd2x 44, 0, %2 \n\t" // x4 ++ "lxvd2x 45, %22, %2 \n\t" // x5 ++ "xvmaddadp %x6, 46, 32 \n\t" ++ "xvmaddadp %x7, 47, 32 \n\t" ++ "lxvd2x 46, %23, %2 \n\t" // x6 ++ "lxvd2x 47, %24, %2 \n\t" // x7 ++ ++ "xvmaddadp 48, %x8, 33 \n\t" // alpha_i * x0_i , alpha_i * x0_r ++ "addi %2, %2, 64 \n\t" ++ "xvmaddadp 49, %x9, 33 \n\t" ++ "xvmaddadp 50, %x10, 33 \n\t" ++ "xvmaddadp 51, %x11, 33 \n\t" ++ ++ "xvmaddadp %x4, %x12, 33 \n\t" ++ "xvmaddadp %x5, %x13, 33 \n\t" ++ "xvmaddadp %x6, %x14, 33 \n\t" ++ "xvmaddadp %x7, %x15, 33 \n\t" ++ ++ "stxvd2x 48, 0, %16 \n\t" ++ "stxvd2x 49, %22, %16 \n\t" ++ "stxvd2x 50, %23, %16 \n\t" ++ "stxvd2x 51, %24, %16 \n\t" ++ ++ "addi %16, %16, 64 \n\t" ++ ++ "stxvd2x %x4, 0, %16 \n\t" ++ "stxvd2x %x5, %22, %16 \n\t" ++ "stxvd2x %x6, %23, %16 \n\t" ++ "stxvd2x %x7, %24, %16 \n\t" ++ ++ "addi %16, %16, 64 \n\t" ++ ++ "xxswapd %x8, 40 \n\t" // exchange real and imag part ++ "xxswapd %x9, 41 \n\t" // exchange real and imag part ++ "lxvd2x 48, 0, %3 \n\t" // y0 ++ "lxvd2x 49, %22, %3 \n\t" // y1 ++ "xxswapd %x10, 42 \n\t" // exchange real and imag part ++ "xxswapd %x11, 43 \n\t" // exchange real and imag part ++ "lxvd2x 50, %23, %3 \n\t" // y2 ++ "lxvd2x 51, %24, %3 \n\t" // y3 ++ ++ "xxswapd %x12, 44 \n\t" // exchange real and imag part ++ "addi %3, %3, 64 \n\t" ++ "xxswapd %x13, 45 \n\t" // exchange real and imag part ++ "lxvd2x %x4, 0, %3 \n\t" // y4 ++ "lxvd2x %x5, %22, %3 \n\t" // y5 ++ "xxswapd %x14, 46 \n\t" // exchange real and imag part ++ "xxswapd %x15, 47 \n\t" // exchange real and imag part ++ "lxvd2x %x6, %23, %3 \n\t" // y6 ++ "lxvd2x %x7, %24, %3 \n\t" // y7 ++ ++ "addi %3, %3, 64 \n\t" ++ ++ "addic. %1, %1, -8 \n\t" ++ "bgt 1b \n" ++ ++ "2: \n\t" ++ ++ "xvmaddadp 48, 40, 32 \n\t" // alpha_r * x0_r , alpha_r * x0_i ++ "xvmaddadp 49, 41, 32 \n\t" ++ "xvmaddadp 50, 42, 32 \n\t" ++ "xvmaddadp 51, 43, 32 \n\t" ++ ++ "xvmaddadp %x4, 44, 32 \n\t" ++ "xvmaddadp %x5, 45, 32 \n\t" ++ "xvmaddadp %x6, 46, 32 \n\t" ++ "xvmaddadp %x7, 47, 32 \n\t" ++ ++ "xvmaddadp 48, %x8, 33 \n\t" // alpha_i * x0_i , alpha_i * x0_r ++ "xvmaddadp 49, %x9, 33 \n\t" ++ "xvmaddadp 50, %x10, 33 \n\t" ++ "xvmaddadp 51, %x11, 33 \n\t" ++ ++ "xvmaddadp %x4, %x12, 33 \n\t" ++ "xvmaddadp %x5, %x13, 33 \n\t" ++ "xvmaddadp %x6, %x14, 33 \n\t" ++ "xvmaddadp %x7, %x15, 33 \n\t" ++ ++ "stxvd2x 48, 0, %16 \n\t" ++ "stxvd2x 49, %22, %16 \n\t" ++ "stxvd2x 50, %23, %16 \n\t" ++ "stxvd2x 51, %24, %16 \n\t" ++ ++ "addi %16, %16, 64 \n\t" ++ ++ "stxvd2x %x4, 0, %16 \n\t" ++ "stxvd2x %x5, %22, %16 \n\t" ++ "stxvd2x %x6, %23, %16 \n\t" ++ "stxvd2x %x7, %24, %16 \n" ++ ++ "#n=%1 x=%17=%2 y=%0=%3 alpha=(%19,%20) mvecp=%18=%16 o16=%22 o32=%23 o48=%24 ytmp=%16\n" ++ "#t0=%x4 t1=%x5 t2=%x6 t3=%x7 t4=%x8 t5=%x9 t6=%x10 t7=%x11 t8=%x12 t9=%x13 t10=%x14 t11=%x15" ++ : ++ "+m" (*y), ++ "+r" (n), // 1 ++ "+b" (x), // 2 ++ "+b" (y), // 3 ++ "=wa" (t0), // 4 ++ "=wa" (t1), // 5 ++ "=wa" (t2), // 6 ++ "=wa" (t3), // 7 ++ "=wa" (t4), // 8 ++ "=wa" (t5), // 9 ++ "=wa" (t6), // 10 ++ "=wa" (t7), // 11 ++ "=wa" (t8), // 12 ++ "=wa" (t9), // 13 ++ "=wa" (t10), // 14 ++ "=wa" (t11), // 15 ++ "=b" (ytmp) // 16 ++ : ++ "m" (*x), ++ "m" (*mvecp), ++ "d" (alpha_r), // 19 ++ "d" (alpha_i), // 20 ++ "16" (mvecp), // 21 ++ "b" (16), // 22 ++ "b" (32), // 23 ++ "b" (48) // 24 ++ : ++ "cr0", ++ "vs32","vs33","vs34","vs35","vs36","vs37","vs38","vs39", ++ "vs40","vs41","vs42","vs43","vs44","vs45","vs46","vs47", ++ "vs48","vs49","vs50","vs51" ++ ); ++} +diff --git a/kernel/power/zcopy_microk_power8.c b/kernel/power/zcopy_microk_power8.c +index 73abe084e..5ca34b633 100644 +--- a/kernel/power/zcopy_microk_power8.c ++++ b/kernel/power/zcopy_microk_power8.c +@@ -35,140 +35,121 @@ USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. + + #define HAVE_KERNEL_16 1 + +-static void zcopy_kernel_16( BLASLONG n, FLOAT *x, FLOAT *y) __attribute__ ((noinline)); +- +-static void zcopy_kernel_16( BLASLONG n, FLOAT *x, FLOAT *y) ++static void zcopy_kernel_16 (long n, FLOAT *x, FLOAT *y) + { +- +- +- BLASLONG i = n; +- BLASLONG o16 = 16; +- BLASLONG o32 = 32; +- BLASLONG o48 = 48; +- BLASLONG o64 = 64; +- BLASLONG o80 = 80; +- BLASLONG o96 = 96; +- BLASLONG o112 = 112; +- FLOAT *x1=x; +- FLOAT *y1=y; +- BLASLONG pre = 384; +- BLASLONG alpha=0; +- +- __asm__ __volatile__ +- ( +- +- "lxvd2x 40, 0, %2 \n\t" +- "lxvd2x 41, %5, %2 \n\t" +- "lxvd2x 42, %6, %2 \n\t" +- "lxvd2x 43, %7, %2 \n\t" +- "lxvd2x 44, %8, %2 \n\t" +- "lxvd2x 45, %9, %2 \n\t" +- "lxvd2x 46, %10, %2 \n\t" +- "lxvd2x 47, %11, %2 \n\t" +- +- "addi %2, %2, 128 \n\t" +- +- "lxvd2x 50, 0, %2 \n\t" +- "lxvd2x 51, %5, %2 \n\t" +- "lxvd2x 52, %6, %2 \n\t" +- "lxvd2x 53, %7, %2 \n\t" +- "lxvd2x 54, %8, %2 \n\t" +- "lxvd2x 55, %9, %2 \n\t" +- "lxvd2x 56, %10, %2 \n\t" +- "lxvd2x 57, %11, %2 \n\t" +- +- "addi %2, %2, 128 \n\t" +- +- "addic. %0 , %0 , -16 \n\t" +- "ble 2f \n\t" +- +- ".align 5 \n\t" +- "1: \n\t" +- +- "stxvd2x 40, 0, %1 \n\t" +- "stxvd2x 41, %5, %1 \n\t" +- "lxvd2x 40, 0, %2 \n\t" +- "lxvd2x 41, %5, %2 \n\t" +- "stxvd2x 42, %6, %1 \n\t" +- "stxvd2x 43, %7, %1 \n\t" +- "lxvd2x 42, %6, %2 \n\t" +- "lxvd2x 43, %7, %2 \n\t" +- "stxvd2x 44, %8, %1 \n\t" +- "stxvd2x 45, %9, %1 \n\t" +- "lxvd2x 44, %8, %2 \n\t" +- "lxvd2x 45, %9, %2 \n\t" +- "stxvd2x 46, %10, %1 \n\t" +- "stxvd2x 47, %11, %1 \n\t" +- "lxvd2x 46, %10, %2 \n\t" +- "lxvd2x 47, %11, %2 \n\t" +- +- +- "addi %1, %1, 128 \n\t" +- "addi %2, %2, 128 \n\t" +- +- "stxvd2x 50, 0, %1 \n\t" +- "stxvd2x 51, %5, %1 \n\t" +- "lxvd2x 50, 0, %2 \n\t" +- "lxvd2x 51, %5, %2 \n\t" +- "stxvd2x 52, %6, %1 \n\t" +- "stxvd2x 53, %7, %1 \n\t" +- "lxvd2x 52, %6, %2 \n\t" +- "lxvd2x 53, %7, %2 \n\t" +- "stxvd2x 54, %8, %1 \n\t" +- "stxvd2x 55, %9, %1 \n\t" +- "lxvd2x 54, %8, %2 \n\t" +- "lxvd2x 55, %9, %2 \n\t" +- "stxvd2x 56, %10, %1 \n\t" +- "stxvd2x 57, %11, %1 \n\t" +- "lxvd2x 56, %10, %2 \n\t" +- "lxvd2x 57, %11, %2 \n\t" +- +- "addi %1, %1, 128 \n\t" +- "addi %2, %2, 128 \n\t" +- +- "addic. %0 , %0 , -16 \n\t" +- "bgt 1b \n\t" +- +- "2: \n\t" +- +- "stxvd2x 40, 0, %1 \n\t" +- "stxvd2x 41, %5, %1 \n\t" +- "stxvd2x 42, %6, %1 \n\t" +- "stxvd2x 43, %7, %1 \n\t" +- "stxvd2x 44, %8, %1 \n\t" +- "stxvd2x 45, %9, %1 \n\t" +- "stxvd2x 46, %10, %1 \n\t" +- "stxvd2x 47, %11, %1 \n\t" +- +- "addi %1, %1, 128 \n\t" +- +- "stxvd2x 50, 0, %1 \n\t" +- "stxvd2x 51, %5, %1 \n\t" +- "stxvd2x 52, %6, %1 \n\t" +- "stxvd2x 53, %7, %1 \n\t" +- "stxvd2x 54, %8, %1 \n\t" +- "stxvd2x 55, %9, %1 \n\t" +- "stxvd2x 56, %10, %1 \n\t" +- "stxvd2x 57, %11, %1 \n\t" +- +- +- : +- : +- "r" (i), // 0 +- "r" (y1), // 1 +- "r" (x1), // 2 +- "r" (alpha), // 3 +- "r" (pre), // 4 +- "r" (o16), // 5 +- "r" (o32), // 6 +- "r" (o48), // 7 +- "r" (o64), // 8 +- "r" (o80), // 9 +- "r" (o96), // 10 +- "r" (o112) // 11 +- : "cr0", "%0", "%2" , "%1", "memory" +- ); +- +-} +- +- ++ __asm__ ++ ( ++ "lxvd2x 32, 0, %2 \n\t" ++ "lxvd2x 33, %5, %2 \n\t" ++ "lxvd2x 34, %6, %2 \n\t" ++ "lxvd2x 35, %7, %2 \n\t" ++ "lxvd2x 36, %8, %2 \n\t" ++ "lxvd2x 37, %9, %2 \n\t" ++ "lxvd2x 38, %10, %2 \n\t" ++ "lxvd2x 39, %11, %2 \n\t" ++ ++ "addi %2, %2, 128 \n\t" ++ ++ "lxvd2x 40, 0, %2 \n\t" ++ "lxvd2x 41, %5, %2 \n\t" ++ "lxvd2x 42, %6, %2 \n\t" ++ "lxvd2x 43, %7, %2 \n\t" ++ "lxvd2x 44, %8, %2 \n\t" ++ "lxvd2x 45, %9, %2 \n\t" ++ "lxvd2x 46, %10, %2 \n\t" ++ "lxvd2x 47, %11, %2 \n\t" ++ ++ "addi %2, %2, 128 \n\t" ++ ++ "addic. %1, %1, -16 \n\t" ++ "ble 2f \n\t" ++ ++ ".p2align 5 \n" ++ "1: \n\t" ++ ++ "stxvd2x 32, 0, %3 \n\t" ++ "stxvd2x 33, %5, %3 \n\t" ++ "lxvd2x 32, 0, %2 \n\t" ++ "lxvd2x 33, %5, %2 \n\t" ++ "stxvd2x 34, %6, %3 \n\t" ++ "stxvd2x 35, %7, %3 \n\t" ++ "lxvd2x 34, %6, %2 \n\t" ++ "lxvd2x 35, %7, %2 \n\t" ++ "stxvd2x 36, %8, %3 \n\t" ++ "stxvd2x 37, %9, %3 \n\t" ++ "lxvd2x 36, %8, %2 \n\t" ++ "lxvd2x 37, %9, %2 \n\t" ++ "stxvd2x 38, %10, %3 \n\t" ++ "stxvd2x 39, %11, %3 \n\t" ++ "lxvd2x 38, %10, %2 \n\t" ++ "lxvd2x 39, %11, %2 \n\t" ++ ++ "addi %3, %3, 128 \n\t" ++ "addi %2, %2, 128 \n\t" ++ ++ "stxvd2x 40, 0, %3 \n\t" ++ "stxvd2x 41, %5, %3 \n\t" ++ "lxvd2x 40, 0, %2 \n\t" ++ "lxvd2x 41, %5, %2 \n\t" ++ "stxvd2x 42, %6, %3 \n\t" ++ "stxvd2x 43, %7, %3 \n\t" ++ "lxvd2x 42, %6, %2 \n\t" ++ "lxvd2x 43, %7, %2 \n\t" ++ "stxvd2x 44, %8, %3 \n\t" ++ "stxvd2x 45, %9, %3 \n\t" ++ "lxvd2x 44, %8, %2 \n\t" ++ "lxvd2x 45, %9, %2 \n\t" ++ "stxvd2x 46, %10, %3 \n\t" ++ "stxvd2x 47, %11, %3 \n\t" ++ "lxvd2x 46, %10, %2 \n\t" ++ "lxvd2x 47, %11, %2 \n\t" ++ ++ "addi %3, %3, 128 \n\t" ++ "addi %2, %2, 128 \n\t" ++ ++ "addic. %1, %1, -16 \n\t" ++ "bgt 1b \n" ++ ++ "2: \n\t" ++ ++ "stxvd2x 32, 0, %3 \n\t" ++ "stxvd2x 33, %5, %3 \n\t" ++ "stxvd2x 34, %6, %3 \n\t" ++ "stxvd2x 35, %7, %3 \n\t" ++ "stxvd2x 36, %8, %3 \n\t" ++ "stxvd2x 37, %9, %3 \n\t" ++ "stxvd2x 38, %10, %3 \n\t" ++ "stxvd2x 39, %11, %3 \n\t" ++ ++ "addi %3, %3, 128 \n\t" ++ ++ "stxvd2x 40, 0, %3 \n\t" ++ "stxvd2x 41, %5, %3 \n\t" ++ "stxvd2x 42, %6, %3 \n\t" ++ "stxvd2x 43, %7, %3 \n\t" ++ "stxvd2x 44, %8, %3 \n\t" ++ "stxvd2x 45, %9, %3 \n\t" ++ "stxvd2x 46, %10, %3 \n\t" ++ "stxvd2x 47, %11, %3 \n" ++ ++ "#n=%1 x=%4=%2 y=%0=%3 o16=%5 o32=%6 o48=%7 o64=%8 o80=%9 o96=%10 o112=%11" ++ : ++ "=m" (*y), ++ "+r" (n), // 1 ++ "+b" (x), // 2 ++ "+b" (y) // 3 ++ : ++ "m" (*x), ++ "b" (16), // 5 ++ "b" (32), // 6 ++ "b" (48), // 7 ++ "b" (64), // 8 ++ "b" (80), // 9 ++ "b" (96), // 10 ++ "b" (112) // 11 ++ : ++ "cr0", ++ "vs32","vs33","vs34","vs35","vs36","vs37","vs38","vs39", ++ "vs40","vs41","vs42","vs43","vs44","vs45","vs46","vs47" ++ ); ++} +diff --git a/kernel/power/zdot.c b/kernel/power/zdot.c +index bc1a95e22..b83f832b1 100644 +--- a/kernel/power/zdot.c ++++ b/kernel/power/zdot.c +@@ -43,8 +43,6 @@ USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. + + #ifndef HAVE_KERNEL_8 + +-static void zdot_kernel_8(BLASLONG n, FLOAT *x, FLOAT *y, FLOAT *d) __attribute__ ((noinline)); +- + static void zdot_kernel_8(BLASLONG n, FLOAT *x, FLOAT *y, FLOAT *d) + { + BLASLONG register i = 0; +diff --git a/kernel/power/zdot_microk_power8.c b/kernel/power/zdot_microk_power8.c +index 296d3d469..71078b66c 100644 +--- a/kernel/power/zdot_microk_power8.c ++++ b/kernel/power/zdot_microk_power8.c +@@ -34,186 +34,174 @@ USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. + **************************************************************************************/ + + #define HAVE_KERNEL_8 1 +-static void zdot_kernel_8( BLASLONG n, FLOAT *x, FLOAT *y , FLOAT *dot) __attribute__ ((noinline)); + +-static void zdot_kernel_8( BLASLONG n, FLOAT *x, FLOAT *y, FLOAT *dot) ++static void zdot_kernel_8 (long n, double *x, double *y, double *dot) + { +- +- +- BLASLONG i = n; +- BLASLONG o16 = 16; +- BLASLONG o32 = 32; +- BLASLONG o48 = 48; +- FLOAT *x1=x; +- FLOAT *y1=y; +- BLASLONG pre = 384; +- +- __asm__ __volatile__ +- ( +- "xxlxor 32,32,32 \n\t" +- "xxlxor 33,33,33 \n\t" +- "xxlxor 34,34,34 \n\t" +- "xxlxor 35,35,35 \n\t" +- "xxlxor 36,36,36 \n\t" +- "xxlxor 37,37,37 \n\t" +- "xxlxor 38,38,38 \n\t" +- "xxlxor 39,39,39 \n\t" +- +- "dcbt %2, %8 \n\t" +- "dcbt %3, %8 \n\t" +- +- "lxvd2x 40, 0, %2 \n\t" // x0_r, x0_i +- "lxvd2x 48, 0, %3 \n\t" // y0_r, y0_i +- "lxvd2x 41, %5, %2 \n\t" // x1_r, x1_i +- "lxvd2x 49, %5, %3 \n\t" // y1_r, y1_i +- "lxvd2x 42, %6, %2 \n\t" // x2_r, x2_i +- "lxvd2x 50, %6, %3 \n\t" // y2_r, y2_i +- "lxvd2x 43, %7, %2 \n\t" // x3_r, x3_i +- "lxvd2x 51, %7, %3 \n\t" // y3_r, y3_i +- +- "xxswapd 52,48 \n\t" // y0_i, y0_r +- "xxswapd 53,49 \n\t" // y1_i, y1_r +- "xxswapd 54,50 \n\t" // y2_i, y2_r +- "xxswapd 55,51 \n\t" // y3_i, y3_r +- +- "addi %2, %2, 64 \n\t" +- "addi %3, %3, 64 \n\t" +- +- +- "lxvd2x 44, 0, %2 \n\t" // x0_r, x0_i +- "lxvd2x 56, 0, %3 \n\t" // y0_r, y0_i +- "lxvd2x 45, %5, %2 \n\t" // x1_r, x1_i +- "lxvd2x 57, %5, %3 \n\t" // y1_r, y1_i +- "lxvd2x 46, %6, %2 \n\t" // x2_r, x2_i +- "lxvd2x 58, %6, %3 \n\t" // y2_r, y2_i +- "lxvd2x 47, %7, %2 \n\t" // x3_r, x3_i +- "lxvd2x 59, %7, %3 \n\t" // y3_r, y3_i +- +- "xxswapd 60,56 \n\t" // y0_i, y0_r +- "xxswapd 61,57 \n\t" // y1_i, y1_r +- "xxswapd 62,58 \n\t" // y2_i, y2_r +- "xxswapd 63,59 \n\t" // y3_i, y3_r +- +- "addi %2, %2, 64 \n\t" +- "addi %3, %3, 64 \n\t" +- +- "addic. %0 , %0 , -8 \n\t" +- "ble 2f \n\t" +- +- ".align 5 \n\t" +- "1: \n\t" +- +- "dcbt %2, %8 \n\t" +- "dcbt %3, %8 \n\t" +- +- "xvmaddadp 32, 40, 48 \n\t" // x0_r * y0_r , x0_i * y0_i +- "lxvd2x 48, 0, %3 \n\t" // y0_r, y0_i +- "xvmaddadp 34, 41, 49 \n\t" // x1_r * y1_r , x1_i * y1_i +- "lxvd2x 49, %5, %3 \n\t" // y1_r, y1_i +- +- "xvmaddadp 36, 42, 50 \n\t" // x2_r * y2_r , x2_i * y2_i +- "lxvd2x 50, %6, %3 \n\t" // y2_r, y2_i +- "xvmaddadp 38, 43, 51 \n\t" // x3_r * y3_r , x3_i * y3_i +- "lxvd2x 51, %7, %3 \n\t" // y3_r, y3_i +- +- "xvmaddadp 33, 40, 52 \n\t" // x0_r * y0_i , x0_i * y0_r +- "lxvd2x 40, 0, %2 \n\t" // x0_r, x0_i +- "xvmaddadp 35, 41, 53 \n\t" // x1_r * y1_i , x1_i * y1_r +- "lxvd2x 41, %5, %2 \n\t" // x1_r, x1_i +- +- "xvmaddadp 37, 42, 54 \n\t" // x2_r * y2_i , x2_i * y2_r +- "lxvd2x 42, %6, %2 \n\t" // x2_r, x2_i +- "xvmaddadp 39, 43, 55 \n\t" // x3_r * y3_i , x3_i * y3_r +- "lxvd2x 43, %7, %2 \n\t" // x3_r, x3_i +- +- "xxswapd 52,48 \n\t" // y0_i, y0_r +- "xxswapd 53,49 \n\t" // y1_i, y1_r +- +- "addi %2, %2, 64 \n\t" +- "addi %3, %3, 64 \n\t" +- +- "xxswapd 54,50 \n\t" // y2_i, y2_r +- "xxswapd 55,51 \n\t" // y3_i, y3_r +- +- "xvmaddadp 32, 44, 56 \n\t" // x0_r * y0_r , x0_i * y0_i +- "lxvd2x 56, 0, %3 \n\t" // y0_r, y0_i +- "xvmaddadp 34, 45, 57 \n\t" // x1_r * y1_r , x1_i * y1_i +- "lxvd2x 57, %5, %3 \n\t" // y1_r, y1_i +- "xvmaddadp 36, 46, 58 \n\t" // x2_r * y2_r , x2_i * y2_i +- "lxvd2x 58, %6, %3 \n\t" // y2_r, y2_i +- "xvmaddadp 38, 47, 59 \n\t" // x3_r * y3_r , x3_i * y3_i +- "lxvd2x 59, %7, %3 \n\t" // y3_r, y3_i +- +- "xvmaddadp 33, 44, 60 \n\t" // x0_r * y0_i , x0_i * y0_r +- "lxvd2x 44, 0, %2 \n\t" // x0_r, x0_i +- "xvmaddadp 35, 45, 61 \n\t" // x1_r * y1_i , x1_i * y1_r +- "lxvd2x 45, %5, %2 \n\t" // x1_r, x1_i +- "xvmaddadp 37, 46, 62 \n\t" // x2_r * y2_i , x2_i * y2_r +- "lxvd2x 46, %6, %2 \n\t" // x2_r, x2_i +- "xvmaddadp 39, 47, 63 \n\t" // x3_r * y3_i , x3_i * y3_r +- "lxvd2x 47, %7, %2 \n\t" // x3_r, x3_i +- +- "xxswapd 60,56 \n\t" // y0_i, y0_r +- "xxswapd 61,57 \n\t" // y1_i, y1_r +- +- "addi %2, %2, 64 \n\t" +- "addi %3, %3, 64 \n\t" +- +- "xxswapd 62,58 \n\t" // y2_i, y2_r +- "xxswapd 63,59 \n\t" // y3_i, y3_r +- +- "addic. %0 , %0 , -8 \n\t" +- "bgt 1b \n\t" +- +- "2: \n\t" +- +- "xvmaddadp 32, 40, 48 \n\t" // x0_r * y0_r , x0_i * y0_i +- "xvmaddadp 34, 41, 49 \n\t" // x1_r * y1_r , x1_i * y1_i +- "xvmaddadp 36, 42, 50 \n\t" // x2_r * y2_r , x2_i * y2_i +- "xvmaddadp 38, 43, 51 \n\t" // x3_r * y3_r , x3_i * y3_i +- +- "xvmaddadp 33, 40, 52 \n\t" // x0_r * y0_i , x0_i * y0_r +- "xvmaddadp 35, 41, 53 \n\t" // x1_r * y1_i , x1_i * y1_r +- "xvmaddadp 37, 42, 54 \n\t" // x2_r * y2_i , x2_i * y2_r +- "xvmaddadp 39, 43, 55 \n\t" // x3_r * y3_i , x3_i * y3_r +- +- "xvmaddadp 32, 44, 56 \n\t" // x0_r * y0_r , x0_i * y0_i +- "xvmaddadp 34, 45, 57 \n\t" // x1_r * y1_r , x1_i * y1_i +- "xvmaddadp 36, 46, 58 \n\t" // x2_r * y2_r , x2_i * y2_i +- "xvmaddadp 38, 47, 59 \n\t" // x3_r * y3_r , x3_i * y3_i +- +- "xvmaddadp 33, 44, 60 \n\t" // x0_r * y0_i , x0_i * y0_r +- "xvmaddadp 35, 45, 61 \n\t" // x1_r * y1_i , x1_i * y1_r +- "xvmaddadp 37, 46, 62 \n\t" // x2_r * y2_i , x2_i * y2_r +- "xvmaddadp 39, 47, 63 \n\t" // x3_r * y3_i , x3_i * y3_r +- +- +- "xvadddp 32, 32, 34 \n\t" +- "xvadddp 36, 36, 38 \n\t" +- +- "xvadddp 33, 33, 35 \n\t" +- "xvadddp 37, 37, 39 \n\t" +- +- "xvadddp 32, 32, 36 \n\t" +- "xvadddp 33, 33, 37 \n\t" +- +- "stxvd2x 32, 0, %4 \n\t" +- "stxvd2x 33, %5, %4 \n\t" +- +- : +- : +- "r" (i), // 0 +- "r" (n), // 1 +- "r" (x1), // 2 +- "r" (y1), // 3 +- "r" (dot), // 4 +- "r" (o16), // 5 +- "r" (o32), // 6 +- "r" (o48), // 7 +- "r" (pre) // 8 +- : "cr0", "%0", "%2" , "%3", "memory" +- ); +- +-} +- +- ++ __asm__ ++ ( ++ "dcbt 0, %2 \n\t" ++ "dcbt 0, %3 \n\t" ++ ++ "xxlxor 32, 32, 32 \n\t" ++ "xxlxor 33, 33, 33 \n\t" ++ "xxlxor 34, 34, 34 \n\t" ++ "xxlxor 35, 35, 35 \n\t" ++ "xxlxor 36, 36, 36 \n\t" ++ "xxlxor 37, 37, 37 \n\t" ++ "xxlxor 38, 38, 38 \n\t" ++ "xxlxor 39, 39, 39 \n\t" ++ ++ "lxvd2x 40, 0, %2 \n\t" // x0_r, x0_i ++ "lxvd2x 48, 0, %3 \n\t" // y0_r, y0_i ++ "lxvd2x 41, %7, %2 \n\t" // x1_r, x1_i ++ "lxvd2x 49, %7, %3 \n\t" // y1_r, y1_i ++ "lxvd2x 42, %8, %2 \n\t" // x2_r, x2_i ++ "lxvd2x 50, %8, %3 \n\t" // y2_r, y2_i ++ "lxvd2x 43, %9, %2 \n\t" // x3_r, x3_i ++ "lxvd2x 51, %9, %3 \n\t" // y3_r, y3_i ++ ++ "xxswapd 0, 48 \n\t" // y0_i, y0_r ++ "xxswapd 1, 49 \n\t" // y1_i, y1_r ++ "xxswapd 2, 50 \n\t" // y2_i, y2_r ++ "xxswapd 3, 51 \n\t" // y3_i, y3_r ++ ++ "addi %2, %2, 64 \n\t" ++ "addi %3, %3, 64 \n\t" ++ ++ "lxvd2x 44, 0, %2 \n\t" // x0_r, x0_i ++ "lxvd2x 4, 0, %3 \n\t" // y0_r, y0_i ++ "lxvd2x 45, %7, %2 \n\t" // x1_r, x1_i ++ "lxvd2x 5, %7, %3 \n\t" // y1_r, y1_i ++ "lxvd2x 46, %8, %2 \n\t" // x2_r, x2_i ++ "lxvd2x 6, %8, %3 \n\t" // y2_r, y2_i ++ "lxvd2x 47, %9, %2 \n\t" // x3_r, x3_i ++ "lxvd2x 7, %9, %3 \n\t" // y3_r, y3_i ++ ++ "xxswapd 8, 4 \n\t" // y0_i, y0_r ++ "xxswapd 9, 5 \n\t" // y1_i, y1_r ++ "xxswapd 10, 6 \n\t" // y2_i, y2_r ++ "xxswapd 11, 7 \n\t" // y3_i, y3_r ++ ++ "addi %2, %2, 64 \n\t" ++ "addi %3, %3, 64 \n\t" ++ ++ "addic. %1, %1, -8 \n\t" ++ "ble 2f \n\t" ++ ++ ".p2align 5 \n" ++ "1: \n\t" ++ ++ "xvmaddadp 32, 40, 48 \n\t" // x0_r * y0_r , x0_i * y0_i ++ "lxvd2x 48, 0, %3 \n\t" // y0_r, y0_i ++ "xvmaddadp 34, 41, 49 \n\t" // x1_r * y1_r , x1_i * y1_i ++ "lxvd2x 49, %7, %3 \n\t" // y1_r, y1_i ++ ++ "xvmaddadp 36, 42, 50 \n\t" // x2_r * y2_r , x2_i * y2_i ++ "lxvd2x 50, %8, %3 \n\t" // y2_r, y2_i ++ "xvmaddadp 38, 43, 51 \n\t" // x3_r * y3_r , x3_i * y3_i ++ "lxvd2x 51, %9, %3 \n\t" // y3_r, y3_i ++ ++ "xvmaddadp 33, 40, 0 \n\t" // x0_r * y0_i , x0_i * y0_r ++ "lxvd2x 40, 0, %2 \n\t" // x0_r, x0_i ++ "xvmaddadp 35, 41, 1 \n\t" // x1_r * y1_i , x1_i * y1_r ++ "lxvd2x 41, %7, %2 \n\t" // x1_r, x1_i ++ ++ "xvmaddadp 37, 42, 2 \n\t" // x2_r * y2_i , x2_i * y2_r ++ "lxvd2x 42, %8, %2 \n\t" // x2_r, x2_i ++ "xvmaddadp 39, 43, 3 \n\t" // x3_r * y3_i , x3_i * y3_r ++ "lxvd2x 43, %9, %2 \n\t" // x3_r, x3_i ++ ++ "xxswapd 0,48 \n\t" // y0_i, y0_r ++ "xxswapd 1,49 \n\t" // y1_i, y1_r ++ ++ "addi %2, %2, 64 \n\t" ++ "addi %3, %3, 64 \n\t" ++ ++ "xxswapd 2,50 \n\t" // y2_i, y2_r ++ "xxswapd 3,51 \n\t" // y3_i, y3_r ++ ++ "xvmaddadp 32, 44, 4 \n\t" // x0_r * y0_r , x0_i * y0_i ++ "lxvd2x 4, 0, %3 \n\t" // y0_r, y0_i ++ "xvmaddadp 34, 45, 5 \n\t" // x1_r * y1_r , x1_i * y1_i ++ "lxvd2x 5, %7, %3 \n\t" // y1_r, y1_i ++ "xvmaddadp 36, 46, 6 \n\t" // x2_r * y2_r , x2_i * y2_i ++ "lxvd2x 6, %8, %3 \n\t" // y2_r, y2_i ++ "xvmaddadp 38, 47, 7 \n\t" // x3_r * y3_r , x3_i * y3_i ++ "lxvd2x 7, %9, %3 \n\t" // y3_r, y3_i ++ ++ "xvmaddadp 33, 44, 8 \n\t" // x0_r * y0_i , x0_i * y0_r ++ "lxvd2x 44, 0, %2 \n\t" // x0_r, x0_i ++ "xvmaddadp 35, 45, 9 \n\t" // x1_r * y1_i , x1_i * y1_r ++ "lxvd2x 45, %7, %2 \n\t" // x1_r, x1_i ++ "xvmaddadp 37, 46, 10 \n\t" // x2_r * y2_i , x2_i * y2_r ++ "lxvd2x 46, %8, %2 \n\t" // x2_r, x2_i ++ "xvmaddadp 39, 47, 11 \n\t" // x3_r * y3_i , x3_i * y3_r ++ "lxvd2x 47, %9, %2 \n\t" // x3_r, x3_i ++ ++ "xxswapd 8,4 \n\t" // y0_i, y0_r ++ "xxswapd 9,5 \n\t" // y1_i, y1_r ++ ++ "addi %2, %2, 64 \n\t" ++ "addi %3, %3, 64 \n\t" ++ ++ "xxswapd 10,6 \n\t" // y2_i, y2_r ++ "xxswapd 11,7 \n\t" // y3_i, y3_r ++ ++ "addic. %1, %1, -8 \n\t" ++ "bgt 1b \n" ++ ++ "2: \n\t" ++ ++ "xvmaddadp 32, 40, 48 \n\t" // x0_r * y0_r , x0_i * y0_i ++ "xvmaddadp 34, 41, 49 \n\t" // x1_r * y1_r , x1_i * y1_i ++ "xvmaddadp 36, 42, 50 \n\t" // x2_r * y2_r , x2_i * y2_i ++ "xvmaddadp 38, 43, 51 \n\t" // x3_r * y3_r , x3_i * y3_i ++ ++ "xvmaddadp 33, 40, 0 \n\t" // x0_r * y0_i , x0_i * y0_r ++ "xvmaddadp 35, 41, 1 \n\t" // x1_r * y1_i , x1_i * y1_r ++ "xvmaddadp 37, 42, 2 \n\t" // x2_r * y2_i , x2_i * y2_r ++ "xvmaddadp 39, 43, 3 \n\t" // x3_r * y3_i , x3_i * y3_r ++ ++ "xvmaddadp 32, 44, 4 \n\t" // x0_r * y0_r , x0_i * y0_i ++ "xvmaddadp 34, 45, 5 \n\t" // x1_r * y1_r , x1_i * y1_i ++ "xvmaddadp 36, 46, 6 \n\t" // x2_r * y2_r , x2_i * y2_i ++ "xvmaddadp 38, 47, 7 \n\t" // x3_r * y3_r , x3_i * y3_i ++ ++ "xvmaddadp 33, 44, 8 \n\t" // x0_r * y0_i , x0_i * y0_r ++ "xvmaddadp 35, 45, 9 \n\t" // x1_r * y1_i , x1_i * y1_r ++ "xvmaddadp 37, 46, 10 \n\t" // x2_r * y2_i , x2_i * y2_r ++ "xvmaddadp 39, 47, 11 \n\t" // x3_r * y3_i , x3_i * y3_r ++ ++ "xvadddp 32, 32, 34 \n\t" ++ "xvadddp 36, 36, 38 \n\t" ++ ++ "xvadddp 33, 33, 35 \n\t" ++ "xvadddp 37, 37, 39 \n\t" ++ ++ "xvadddp 32, 32, 36 \n\t" ++ "xvadddp 33, 33, 37 \n\t" ++ ++ "stxvd2x 32, 0, %6 \n\t" ++ "stxvd2x 33, %7, %6 \n" ++ ++ "#n=%1 x=%4=%2 y=%5=%3 dot=%0=%6 o16=%7 o32=%8 o48=%9" ++ : ++ "=m" (*dot), ++ "+r" (n), // 1 ++ "+b" (x), // 2 ++ "+b" (y) // 3 ++ : ++ "m" (*x), ++ "m" (*y), ++ "b" (dot), // 6 ++ "b" (16), // 7 ++ "b" (32), // 8 ++ "b" (48) // 9 ++ : ++ "cr0", ++ "vs32","vs33","vs34","vs35","vs36","vs37","vs38","vs39", ++ "vs40","vs41","vs42","vs43","vs44","vs45","vs46","vs47", ++ "vs48","vs49","vs50","vs51","vs0","vs1","vs2","vs3", ++ "vs4","vs5","vs6","vs7","vs8","vs9","vs10","vs11" ++ ); ++} +diff --git a/kernel/power/zscal.c b/kernel/power/zscal.c +index 410fc9840..14d677f24 100644 +--- a/kernel/power/zscal.c ++++ b/kernel/power/zscal.c +@@ -47,15 +47,15 @@ USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. + + #ifndef HAVE_KERNEL_8 + +-static void zscal_kernel_8(BLASLONG n, FLOAT *x, FLOAT *alpha) ++static void zscal_kernel_8(BLASLONG n, FLOAT *x, FLOAT da_r, FLOAT da_i) + { + + BLASLONG i=0; + FLOAT *x1=x; +- FLOAT alpha_r1=alpha[0]; +- FLOAT alpha_r2=alpha[1]; +- FLOAT alpha_i1=alpha[2]; +- FLOAT alpha_i2=alpha[3]; ++ FLOAT alpha_r1=da_r; ++ FLOAT alpha_r2=da_r; ++ FLOAT alpha_i1=-da_i; ++ FLOAT alpha_i2=da_i; + FLOAT temp00, temp01, temp10, temp11, temp20, temp21, temp30, temp31; + FLOAT x0_r, x0_i, x1_r, x1_i, x2_r, x2_i, x3_r, x3_i; + +@@ -116,7 +116,6 @@ int CNAME(BLASLONG n, BLASLONG dummy0, BLASLONG dummy1, FLOAT da_r,FLOAT da_i, F + BLASLONG inc_x2; + BLASLONG ip = 0; + FLOAT temp; +- FLOAT alpha[4] __attribute__ ((aligned (16)));; + BLASLONG n1; + + if ( n <= 0 ) +@@ -147,11 +146,7 @@ int CNAME(BLASLONG n, BLASLONG dummy0, BLASLONG dummy1, FLOAT da_r,FLOAT da_i, F + n1 = n & -8; + if ( n1 > 0 ) + { +- alpha[0] = da_r; +- alpha[1] = da_r; +- alpha[2] = -da_i; +- alpha[3] = da_i; +- zscal_kernel_8(n1, x, alpha); ++ zscal_kernel_8(n1, x, da_r, da_i); + i=n1; + ip = n1 * 2; + +diff --git a/kernel/power/zscal_microk_power8.c b/kernel/power/zscal_microk_power8.c +index 5e09d8d79..aba9029a0 100644 +--- a/kernel/power/zscal_microk_power8.c ++++ b/kernel/power/zscal_microk_power8.c +@@ -38,187 +38,202 @@ USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. + + #define HAVE_KERNEL_8 1 + +-static void zscal_kernel_8( BLASLONG n, FLOAT *x, FLOAT *alpha) __attribute__ ((noinline)); +- +-static void zscal_kernel_8( BLASLONG n, FLOAT *x, FLOAT *alpha) ++static void zscal_kernel_8 (long n, double *x, double alpha_r, double alpha_i) + { +- +- +- BLASLONG i = n; +- BLASLONG o16 = 16; +- BLASLONG o32 = 32; +- BLASLONG o48 = 48; +- BLASLONG o64 = 64; +- BLASLONG o80 = 80; +- BLASLONG o96 = 96; +- BLASLONG o112 = 112; +- FLOAT *x1=x; +- FLOAT *x2=x+1; +- BLASLONG pre = 384; +- +- __asm__ __volatile__ +- ( +- +- "lxvd2x 32, 0, %3 \n\t" // alpha_r , alpha_r +- "lxvd2x 33, %5, %3 \n\t" // -alpha_i , alpha_i +- "addi %1, %1, -8 \n\t" +- +- "dcbt %2, %4 \n\t" +- +- "lxvd2x 40, 0, %2 \n\t" // x0_r, x0_i +- "lxvd2x 41, %5, %2 \n\t" +- "lxvd2x 42, %6, %2 \n\t" +- "lxvd2x 43, %7, %2 \n\t" +- "lxvd2x 44, %8, %2 \n\t" +- "lxvd2x 45, %9, %2 \n\t" +- "lxvd2x 46, %10, %2 \n\t" +- "lxvd2x 47, %11, %2 \n\t" +- +- "addi %2, %2, 128 \n\t" +- +- "addic. %0 , %0 , -8 \n\t" +- "ble 2f \n\t" +- +- ".align 5 \n\t" +- "1: \n\t" +- +- "dcbt %2, %4 \n\t" +- +- "xvmuldp 48, 40, 32 \n\t" // x0_r * alpha_r, x0_i * alpha_r +- "xvmuldp 49, 41, 32 \n\t" +- "xvmuldp 50, 42, 32 \n\t" +- "xvmuldp 51, 43, 32 \n\t" +- "xvmuldp 52, 44, 32 \n\t" +- "xvmuldp 53, 45, 32 \n\t" +- "xvmuldp 54, 46, 32 \n\t" +- "xvmuldp 55, 47, 32 \n\t" +- +- "xxswapd 56, 40 \n\t" +- "xxswapd 57, 41 \n\t" +- "xxswapd 58, 42 \n\t" +- "xxswapd 59, 43 \n\t" +- "xxswapd 60, 44 \n\t" +- "xxswapd 61, 45 \n\t" +- "xxswapd 62, 46 \n\t" +- "xxswapd 63, 47 \n\t" +- +- "xvmuldp 56, 56, 33 \n\t" // x0_i * -alpha_i, x0_r * alpha_i +- "xvmuldp 57, 57, 33 \n\t" +- +- "lxvd2x 40, 0, %2 \n\t" // x0_r, x0_i +- "lxvd2x 41, %5, %2 \n\t" +- +- "xvmuldp 58, 58, 33 \n\t" +- "xvmuldp 59, 59, 33 \n\t" +- +- "lxvd2x 42, %6, %2 \n\t" +- "lxvd2x 43, %7, %2 \n\t" +- +- "xvmuldp 60, 60, 33 \n\t" +- "xvmuldp 61, 61, 33 \n\t" +- +- "lxvd2x 44, %8, %2 \n\t" +- "lxvd2x 45, %9, %2 \n\t" +- +- "xvmuldp 62, 62, 33 \n\t" +- "xvmuldp 63, 63, 33 \n\t" +- +- "lxvd2x 46, %10, %2 \n\t" +- "lxvd2x 47, %11, %2 \n\t" +- +- "xvadddp 48, 48 , 56 \n\t" +- "xvadddp 49, 49 , 57 \n\t" +- "xvadddp 50, 50 , 58 \n\t" +- "xvadddp 51, 51 , 59 \n\t" +- +- "stxvd2x 48, 0, %1 \n\t" +- "stxvd2x 49, %5, %1 \n\t" +- +- "xvadddp 52, 52 , 60 \n\t" +- "xvadddp 53, 53 , 61 \n\t" +- +- "stxvd2x 50, %6, %1 \n\t" +- "stxvd2x 51, %7, %1 \n\t" +- +- "xvadddp 54, 54 , 62 \n\t" +- "xvadddp 55, 55 , 63 \n\t" +- +- "stxvd2x 52, %8, %1 \n\t" +- "stxvd2x 53, %9, %1 \n\t" +- "stxvd2x 54, %10, %1 \n\t" +- "stxvd2x 55, %11, %1 \n\t" +- +- "addi %1, %1, 128 \n\t" +- "addi %2, %2, 128 \n\t" +- +- "addic. %0 , %0 , -8 \n\t" +- "bgt 1b \n\t" +- +- "2: \n\t" +- +- "xvmuldp 48, 40, 32 \n\t" // x0_r * alpha_r, x0_i * alpha_r +- "xvmuldp 49, 41, 32 \n\t" +- "xvmuldp 50, 42, 32 \n\t" +- "xvmuldp 51, 43, 32 \n\t" +- "xvmuldp 52, 44, 32 \n\t" +- "xvmuldp 53, 45, 32 \n\t" +- "xvmuldp 54, 46, 32 \n\t" +- "xvmuldp 55, 47, 32 \n\t" +- +- "xxswapd 56, 40 \n\t" +- "xxswapd 57, 41 \n\t" +- "xxswapd 58, 42 \n\t" +- "xxswapd 59, 43 \n\t" +- "xxswapd 60, 44 \n\t" +- "xxswapd 61, 45 \n\t" +- "xxswapd 62, 46 \n\t" +- "xxswapd 63, 47 \n\t" +- +- "xvmuldp 56, 56, 33 \n\t" // x0_i * -alpha_i, x0_r * alpha_i +- "xvmuldp 57, 57, 33 \n\t" +- "xvmuldp 58, 58, 33 \n\t" +- "xvmuldp 59, 59, 33 \n\t" +- "xvmuldp 60, 60, 33 \n\t" +- "xvmuldp 61, 61, 33 \n\t" +- "xvmuldp 62, 62, 33 \n\t" +- "xvmuldp 63, 63, 33 \n\t" +- +- "xvadddp 48, 48 , 56 \n\t" +- "xvadddp 49, 49 , 57 \n\t" +- "xvadddp 50, 50 , 58 \n\t" +- "xvadddp 51, 51 , 59 \n\t" +- "xvadddp 52, 52 , 60 \n\t" +- "xvadddp 53, 53 , 61 \n\t" +- "xvadddp 54, 54 , 62 \n\t" +- "xvadddp 55, 55 , 63 \n\t" +- +- "stxvd2x 48, 0, %1 \n\t" +- "stxvd2x 49, %5, %1 \n\t" +- "stxvd2x 50, %6, %1 \n\t" +- "stxvd2x 51, %7, %1 \n\t" +- "stxvd2x 52, %8, %1 \n\t" +- "stxvd2x 53, %9, %1 \n\t" +- "stxvd2x 54, %10, %1 \n\t" +- "stxvd2x 55, %11, %1 \n\t" +- +- +- : +- : +- "r" (i), // 0 +- "r" (x2), // 1 +- "r" (x1), // 2 +- "r" (alpha), // 3 +- "r" (pre), // 4 +- "r" (o16), // 5 +- "r" (o32), // 6 +- "r" (o48), // 7 +- "r" (o64), // 8 +- "r" (o80), // 9 +- "r" (o96), // 10 +- "r" (o112) // 11 +- : "cr0", "%0", "%2" , "%1", "memory" +- ); +- +-} +- +- ++ __vector double t0; ++ __vector double t1; ++ __vector double t2; ++ __vector double t3; ++ __vector double t4; ++ __vector double t5; ++ __vector double t6; ++ __vector double t7; ++ __vector double t8; ++ __vector double t9; ++ __vector double t10; ++ __vector double t11; ++ ++ __asm__ ++ ( ++ "dcbt 0, %2 \n\t" ++ ++ "xsnegdp 33, %x16 \n\t" // -alpha_i ++ "xxspltd 32, %x15, 0 \n\t" // alpha_r , alpha_r ++ "xxmrghd 33, 33, %x16 \n\t" // -alpha_i , alpha_i ++ ++ "lxvd2x 40, 0, %2 \n\t" // x0_r, x0_i ++ "lxvd2x 41, %17, %2 \n\t" ++ "lxvd2x 42, %18, %2 \n\t" ++ "lxvd2x 43, %19, %2 \n\t" ++ "lxvd2x 44, %20, %2 \n\t" ++ "lxvd2x 45, %21, %2 \n\t" ++ "lxvd2x 46, %22, %2 \n\t" ++ "lxvd2x 47, %23, %2 \n\t" ++ ++ "addi %2, %2, 128 \n\t" ++ ++ "addic. %1, %1, -8 \n\t" ++ "ble 2f \n\t" ++ ++ ".p2align 5 \n" ++ "1: \n\t" ++ ++ "xvmuldp 48, 40, 32 \n\t" // x0_r * alpha_r, x0_i * alpha_r ++ "xvmuldp 49, 41, 32 \n\t" ++ "xvmuldp 50, 42, 32 \n\t" ++ "xvmuldp 51, 43, 32 \n\t" ++ "xvmuldp %x3, 44, 32 \n\t" ++ "xvmuldp %x4, 45, 32 \n\t" ++ "xvmuldp %x5, 46, 32 \n\t" ++ "xvmuldp %x6, 47, 32 \n\t" ++ ++ "xxswapd %x7, 40 \n\t" ++ "xxswapd %x8, 41 \n\t" ++ "xxswapd %x9, 42 \n\t" ++ "xxswapd %x10, 43 \n\t" ++ "xxswapd %x11, 44 \n\t" ++ "xxswapd %x12, 45 \n\t" ++ "xxswapd %x13, 46 \n\t" ++ "xxswapd %x14, 47 \n\t" ++ ++ "xvmuldp %x7, %x7, 33 \n\t" // x0_i * -alpha_i, x0_r * alpha_i ++ "xvmuldp %x8, %x8, 33 \n\t" ++ ++ "lxvd2x 40, 0, %2 \n\t" // x0_r, x0_i ++ "lxvd2x 41, %17, %2 \n\t" ++ ++ "xvmuldp %x9, %x9, 33 \n\t" ++ "xvmuldp %x10, %x10, 33 \n\t" ++ ++ "lxvd2x 42, %18, %2 \n\t" ++ "lxvd2x 43, %19, %2 \n\t" ++ ++ "xvmuldp %x11, %x11, 33 \n\t" ++ "xvmuldp %x12, %x12, 33 \n\t" ++ ++ "lxvd2x 44, %20, %2 \n\t" ++ "lxvd2x 45, %21, %2 \n\t" ++ ++ "xvmuldp %x13, %x13, 33 \n\t" ++ "xvmuldp %x14, %x14, 33 \n\t" ++ ++ "lxvd2x 46, %22, %2 \n\t" ++ "lxvd2x 47, %23, %2 \n\t" ++ ++ "addi %2, %2, -128 \n\t" ++ ++ "xvadddp 48, 48, %x7 \n\t" ++ "xvadddp 49, 49, %x8 \n\t" ++ "xvadddp 50, 50, %x9 \n\t" ++ "xvadddp 51, 51, %x10 \n\t" ++ ++ "stxvd2x 48, 0, %2 \n\t" ++ "stxvd2x 49, %17, %2 \n\t" ++ ++ "xvadddp %x3, %x3, %x11 \n\t" ++ "xvadddp %x4, %x4, %x12 \n\t" ++ ++ "stxvd2x 50, %18, %2 \n\t" ++ "stxvd2x 51, %19, %2 \n\t" ++ ++ "xvadddp %x5, %x5, %x13 \n\t" ++ "xvadddp %x6, %x6, %x14 \n\t" ++ ++ "stxvd2x %x3, %20, %2 \n\t" ++ "stxvd2x %x4, %21, %2 \n\t" ++ "stxvd2x %x5, %22, %2 \n\t" ++ "stxvd2x %x6, %23, %2 \n\t" ++ ++ "addi %2, %2, 256 \n\t" ++ ++ "addic. %1, %1, -8 \n\t" ++ "bgt 1b \n" ++ ++ "2: \n\t" ++ ++ "xvmuldp 48, 40, 32 \n\t" // x0_r * alpha_r, x0_i * alpha_r ++ "xvmuldp 49, 41, 32 \n\t" ++ "xvmuldp 50, 42, 32 \n\t" ++ "xvmuldp 51, 43, 32 \n\t" ++ "xvmuldp %x3, 44, 32 \n\t" ++ "xvmuldp %x4, 45, 32 \n\t" ++ "xvmuldp %x5, 46, 32 \n\t" ++ "xvmuldp %x6, 47, 32 \n\t" ++ ++ "xxswapd %x7, 40 \n\t" ++ "xxswapd %x8, 41 \n\t" ++ "xxswapd %x9, 42 \n\t" ++ "xxswapd %x10, 43 \n\t" ++ "xxswapd %x11, 44 \n\t" ++ "xxswapd %x12, 45 \n\t" ++ "xxswapd %x13, 46 \n\t" ++ "xxswapd %x14, 47 \n\t" ++ ++ "addi %2, %2, -128 \n\t" ++ ++ "xvmuldp %x7, %x7, 33 \n\t" // x0_i * -alpha_i, x0_r * alpha_i ++ "xvmuldp %x8, %x8, 33 \n\t" ++ "xvmuldp %x9, %x9, 33 \n\t" ++ "xvmuldp %x10, %x10, 33 \n\t" ++ "xvmuldp %x11, %x11, 33 \n\t" ++ "xvmuldp %x12, %x12, 33 \n\t" ++ "xvmuldp %x13, %x13, 33 \n\t" ++ "xvmuldp %x14, %x14, 33 \n\t" ++ ++ "xvadddp 48, 48, %x7 \n\t" ++ "xvadddp 49, 49, %x8 \n\t" ++ "xvadddp 50, 50, %x9 \n\t" ++ "xvadddp 51, 51, %x10 \n\t" ++ ++ "stxvd2x 48, 0, %2 \n\t" ++ "stxvd2x 49, %17, %2 \n\t" ++ ++ "xvadddp %x3, %x3, %x11 \n\t" ++ "xvadddp %x4, %x4, %x12 \n\t" ++ ++ "stxvd2x 50, %18, %2 \n\t" ++ "stxvd2x 51, %19, %2 \n\t" ++ ++ "xvadddp %x5, %x5, %x13 \n\t" ++ "xvadddp %x6, %x6, %x14 \n\t" ++ ++ "stxvd2x %x3, %20, %2 \n\t" ++ "stxvd2x %x4, %21, %2 \n\t" ++ "stxvd2x %x5, %22, %2 \n\t" ++ "stxvd2x %x6, %23, %2 \n" ++ ++ "#n=%1 x=%0=%2 alpha=(%15,%16) o16=%17 o32=%18 o48=%19 o64=%20 o80=%21 o96=%22 o112=%23\n" ++ "#t0=%x3 t1=%x4 t2=%x5 t3=%x6 t4=%x7 t5=%x8 t6=%x9 t7=%x10 t8=%x11 t9=%x12 t10=%x13 t11=%x14" ++ : ++ "+m" (*x), ++ "+r" (n), // 1 ++ "+b" (x), // 2 ++ "=wa" (t0), // 3 ++ "=wa" (t1), // 4 ++ "=wa" (t2), // 5 ++ "=wa" (t3), // 6 ++ "=wa" (t4), // 7 ++ "=wa" (t5), // 8 ++ "=wa" (t6), // 9 ++ "=wa" (t7), // 10 ++ "=wa" (t8), // 11 ++ "=wa" (t9), // 12 ++ "=wa" (t10), // 13 ++ "=wa" (t11) // 14 ++ : ++ "d" (alpha_r), // 15 ++ "d" (alpha_i), // 16 ++ "b" (16), // 17 ++ "b" (32), // 18 ++ "b" (48), // 19 ++ "b" (64), // 20 ++ "b" (80), // 21 ++ "b" (96), // 22 ++ "b" (112) // 23 ++ : ++ "cr0", ++ "vs32","vs33","vs34","vs35","vs36","vs37","vs38","vs39", ++ "vs40","vs41","vs42","vs43","vs44","vs45","vs46","vs47", ++ "vs48","vs49","vs50","vs51" ++ ); ++} +diff --git a/kernel/power/zswap_microk_power8.c b/kernel/power/zswap_microk_power8.c +index 9e5623752..54391ba5d 100644 +--- a/kernel/power/zswap_microk_power8.c ++++ b/kernel/power/zswap_microk_power8.c +@@ -35,146 +35,123 @@ USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. + + #define HAVE_KERNEL_16 1 + +-static void zswap_kernel_16( BLASLONG n, FLOAT *x, FLOAT *y) __attribute__ ((noinline)); +- +-static void zswap_kernel_16( BLASLONG n, FLOAT *x, FLOAT *y) ++static void ++zswap_kernel_16 (long n, double *x, double *y) + { +- +- +- BLASLONG i = n; +- BLASLONG o16 = 16; +- BLASLONG o32 = 32; +- BLASLONG o48 = 48; +- BLASLONG o64 = 64; +- BLASLONG o80 = 80; +- BLASLONG o96 = 96; +- BLASLONG o112 = 112; +- FLOAT *x1=x; +- FLOAT *y1=y; +- FLOAT *x2=x+1; +- FLOAT *y2=y+1; +- BLASLONG pre = 384; +- BLASLONG alpha=0; +- +- __asm__ __volatile__ +- ( +- +- "addi %3, %3, -8 \n\t" +- "addi %4, %4, -8 \n\t" +- +- ".align 5 \n\t" +- "1: \n\t" +- +- "lxvd2x 32, 0, %2 \n\t" +- "lxvd2x 33, %5, %2 \n\t" +- "lxvd2x 34, %6, %2 \n\t" +- "lxvd2x 35, %7, %2 \n\t" +- "lxvd2x 36, %8, %2 \n\t" +- "lxvd2x 37, %9, %2 \n\t" +- "lxvd2x 38, %10, %2 \n\t" +- "lxvd2x 39, %11, %2 \n\t" +- +- "addi %2, %2, 128 \n\t" +- +- "lxvd2x 40, 0, %2 \n\t" +- "lxvd2x 41, %5, %2 \n\t" +- "lxvd2x 42, %6, %2 \n\t" +- "lxvd2x 43, %7, %2 \n\t" +- "lxvd2x 44, %8, %2 \n\t" +- "lxvd2x 45, %9, %2 \n\t" +- "lxvd2x 46, %10, %2 \n\t" +- "lxvd2x 47, %11, %2 \n\t" +- +- "addi %2, %2, 128 \n\t" +- +- "lxvd2x 48, 0, %1 \n\t" +- "lxvd2x 49, %5, %1 \n\t" +- "lxvd2x 50, %6, %1 \n\t" +- "lxvd2x 51, %7, %1 \n\t" +- "lxvd2x 52, %8, %1 \n\t" +- "lxvd2x 53, %9, %1 \n\t" +- "lxvd2x 54, %10, %1 \n\t" +- "lxvd2x 55, %11, %1 \n\t" +- +- "addi %1, %1, 128 \n\t" +- +- "lxvd2x 56, 0, %1 \n\t" +- "lxvd2x 57, %5, %1 \n\t" +- "lxvd2x 58, %6, %1 \n\t" +- "lxvd2x 59, %7, %1 \n\t" +- "lxvd2x 60, %8, %1 \n\t" +- "lxvd2x 61, %9, %1 \n\t" +- "lxvd2x 62, %10, %1 \n\t" +- "lxvd2x 63, %11, %1 \n\t" +- +- "addi %1, %1, 128 \n\t" +- +- "stxvd2x 32, 0, %3 \n\t" +- "stxvd2x 33, %5, %3 \n\t" +- "stxvd2x 34, %6, %3 \n\t" +- "stxvd2x 35, %7, %3 \n\t" +- "stxvd2x 36, %8, %3 \n\t" +- "stxvd2x 37, %9, %3 \n\t" +- "stxvd2x 38, %10, %3 \n\t" +- "stxvd2x 39, %11, %3 \n\t" +- +- "addi %3, %3, 128 \n\t" +- +- "stxvd2x 40, 0, %3 \n\t" +- "stxvd2x 41, %5, %3 \n\t" +- "stxvd2x 42, %6, %3 \n\t" +- "stxvd2x 43, %7, %3 \n\t" +- "stxvd2x 44, %8, %3 \n\t" +- "stxvd2x 45, %9, %3 \n\t" +- "stxvd2x 46, %10, %3 \n\t" +- "stxvd2x 47, %11, %3 \n\t" +- +- "addi %3, %3, 128 \n\t" +- +- "stxvd2x 48, 0, %4 \n\t" +- "stxvd2x 49, %5, %4 \n\t" +- "stxvd2x 50, %6, %4 \n\t" +- "stxvd2x 51, %7, %4 \n\t" +- "stxvd2x 52, %8, %4 \n\t" +- "stxvd2x 53, %9, %4 \n\t" +- "stxvd2x 54, %10, %4 \n\t" +- "stxvd2x 55, %11, %4 \n\t" +- +- "addi %4, %4, 128 \n\t" +- +- "stxvd2x 56, 0, %4 \n\t" +- "stxvd2x 57, %5, %4 \n\t" +- "stxvd2x 58, %6, %4 \n\t" +- "stxvd2x 59, %7, %4 \n\t" +- "stxvd2x 60, %8, %4 \n\t" +- "stxvd2x 61, %9, %4 \n\t" +- "stxvd2x 62, %10, %4 \n\t" +- "stxvd2x 63, %11, %4 \n\t" +- +- "addi %4, %4, 128 \n\t" +- +- "addic. %0 , %0 , -16 \n\t" +- "bgt 1b \n\t" +- +- "2: \n\t" +- +- : +- : +- "r" (i), // 0 +- "r" (y1), // 1 +- "r" (x1), // 2 +- "r" (y2), // 3 +- "r" (x2), // 4 +- "r" (o16), // 5 +- "r" (o32), // 6 +- "r" (o48), // 7 +- "r" (o64), // 8 +- "r" (o80), // 9 +- "r" (o96), // 10 +- "r" (o112) // 11 +- : "cr0", "%0", "%2" , "%1", "%3", "%4", "memory" +- ); +- +-} +- +- ++ __asm__ ++ ( ++ ".p2align 5 \n" ++ "1: \n\t" ++ "lxvd2x 32, 0, %4 \n\t" ++ "lxvd2x 33, %5, %4 \n\t" ++ "lxvd2x 34, %6, %4 \n\t" ++ "lxvd2x 35, %7, %4 \n\t" ++ "lxvd2x 36, %8, %4 \n\t" ++ "lxvd2x 37, %9, %4 \n\t" ++ "lxvd2x 38, %10, %4 \n\t" ++ "lxvd2x 39, %11, %4 \n\t" ++ ++ "addi %4, %4, 128 \n\t" ++ ++ "lxvd2x 40, 0, %4 \n\t" ++ "lxvd2x 41, %5, %4 \n\t" ++ "lxvd2x 42, %6, %4 \n\t" ++ "lxvd2x 43, %7, %4 \n\t" ++ "lxvd2x 44, %8, %4 \n\t" ++ "lxvd2x 45, %9, %4 \n\t" ++ "lxvd2x 46, %10, %4 \n\t" ++ "lxvd2x 47, %11, %4 \n\t" ++ ++ "addi %4, %4, -128 \n\t" ++ ++ "lxvd2x 48, 0, %3 \n\t" ++ "lxvd2x 49, %5, %3 \n\t" ++ "lxvd2x 50, %6, %3 \n\t" ++ "lxvd2x 51, %7, %3 \n\t" ++ "lxvd2x 0, %8, %3 \n\t" ++ "lxvd2x 1, %9, %3 \n\t" ++ "lxvd2x 2, %10, %3 \n\t" ++ "lxvd2x 3, %11, %3 \n\t" ++ ++ "addi %3, %3, 128 \n\t" ++ ++ "lxvd2x 4, 0, %3 \n\t" ++ "lxvd2x 5, %5, %3 \n\t" ++ "lxvd2x 6, %6, %3 \n\t" ++ "lxvd2x 7, %7, %3 \n\t" ++ "lxvd2x 8, %8, %3 \n\t" ++ "lxvd2x 9, %9, %3 \n\t" ++ "lxvd2x 10, %10, %3 \n\t" ++ "lxvd2x 11, %11, %3 \n\t" ++ ++ "addi %3, %3, -128 \n\t" ++ ++ "stxvd2x 32, 0, %3 \n\t" ++ "stxvd2x 33, %5, %3 \n\t" ++ "stxvd2x 34, %6, %3 \n\t" ++ "stxvd2x 35, %7, %3 \n\t" ++ "stxvd2x 36, %8, %3 \n\t" ++ "stxvd2x 37, %9, %3 \n\t" ++ "stxvd2x 38, %10, %3 \n\t" ++ "stxvd2x 39, %11, %3 \n\t" ++ ++ "addi %3, %3, 128 \n\t" ++ ++ "stxvd2x 40, 0, %3 \n\t" ++ "stxvd2x 41, %5, %3 \n\t" ++ "stxvd2x 42, %6, %3 \n\t" ++ "stxvd2x 43, %7, %3 \n\t" ++ "stxvd2x 44, %8, %3 \n\t" ++ "stxvd2x 45, %9, %3 \n\t" ++ "stxvd2x 46, %10, %3 \n\t" ++ "stxvd2x 47, %11, %3 \n\t" ++ ++ "addi %3, %3, 128 \n\t" ++ ++ "stxvd2x 48, 0, %4 \n\t" ++ "stxvd2x 49, %5, %4 \n\t" ++ "stxvd2x 50, %6, %4 \n\t" ++ "stxvd2x 51, %7, %4 \n\t" ++ "stxvd2x 0, %8, %4 \n\t" ++ "stxvd2x 1, %9, %4 \n\t" ++ "stxvd2x 2, %10, %4 \n\t" ++ "stxvd2x 3, %11, %4 \n\t" ++ ++ "addi %4, %4, 128 \n\t" ++ ++ "stxvd2x 4, 0, %4 \n\t" ++ "stxvd2x 5, %5, %4 \n\t" ++ "stxvd2x 6, %6, %4 \n\t" ++ "stxvd2x 7, %7, %4 \n\t" ++ "stxvd2x 8, %8, %4 \n\t" ++ "stxvd2x 9, %9, %4 \n\t" ++ "stxvd2x 10, %10, %4 \n\t" ++ "stxvd2x 11, %11, %4 \n\t" ++ ++ "addi %4, %4, 128 \n\t" ++ "addic. %2, %2, -16 \n\t" ++ "bgt 1b \n" ++ ++ "#n=%2 x=%0=%3 y=%1=%4 o16=%5 o32=%6 o48=%7 o64=%8 o80=%9 o96=%10 o112=%11" ++ : ++ "+m" (*x), ++ "+m" (*y), ++ "+r" (n), // 2 ++ "+b" (x), // 3 ++ "+b" (y) // 4 ++ : ++ "b" (16), // 5 ++ "b" (32), // 6 ++ "b" (48), // 7 ++ "b" (64), // 8 ++ "b" (80), // 9 ++ "b" (96), // 10 ++ "b" (112) // 11 ++ : ++ "cr0", ++ "vs32","vs33","vs34","vs35","vs36","vs37","vs38","vs39", ++ "vs40","vs41","vs42","vs43","vs44","vs45","vs46","vs47", ++ "vs48","vs49","vs50","vs51","vs0","vs1","vs2","vs3", ++ "vs4","vs5","vs6","vs7","vs8","vs9","vs10","vs11" ++ ); ++} diff --git a/repos/forked/packages/openblas/test_cblas_dgemm.c b/repos/forked/packages/openblas/test_cblas_dgemm.c new file mode 100644 index 00000000..2cb90fb8 --- /dev/null +++ b/repos/forked/packages/openblas/test_cblas_dgemm.c @@ -0,0 +1,49 @@ +#include +#include + +double m[] = { + 3, 1, 3, + 1, 5, 9, + 2, 6, 5 +}; + +double x[] = { + -1, 3, -3 +}; + +#ifdef __cplusplus +extern "C" { +#endif + + void dgesv_(int *n, int *nrhs, double *a, int *lda, + int *ipivot, double *b, int *ldb, int *info); + +#ifdef __cplusplus +} +#endif + +int main(void) { + int i; + // blas: + double A[6] = {1.0, 2.0, 1.0, -3.0, 4.0, -1.0}; + double B[6] = {1.0, 2.0, 1.0, -3.0, 4.0, -1.0}; + double C[9] = {.5, .5, .5, .5, .5, .5, .5, .5, .5}; + cblas_dgemm(CblasColMajor, CblasNoTrans, CblasTrans, + 3, 3, 2, 1, A, 3, B, 3, 2, C, 3); + for (i = 0; i < 9; i++) + printf("%f\n", C[i]); + + // lapack: + int ipiv[3]; + int j; + int info; + int n = 1; + int nrhs = 1; + int lda = 3; + int ldb = 3; + dgesv_(&n,&nrhs, &m[0], &lda, ipiv, &x[0], &ldb, &info); + for (i=0; i<3; ++i) + printf("%5.1f\n", x[i]); + + return 0; +} diff --git a/repos/forked/packages/openblas/test_cblas_dgemm.output b/repos/forked/packages/openblas/test_cblas_dgemm.output new file mode 100644 index 00000000..01404462 --- /dev/null +++ b/repos/forked/packages/openblas/test_cblas_dgemm.output @@ -0,0 +1,12 @@ +11.000000 +-9.000000 +5.000000 +-9.000000 +21.000000 +-1.000000 +5.000000 +-1.000000 +3.000000 + -0.3 + 3.0 + -3.0 diff --git a/repos/forked/packages/openblas/xcode15-fortran.patch b/repos/forked/packages/openblas/xcode15-fortran.patch new file mode 100644 index 00000000..7f56a3b5 --- /dev/null +++ b/repos/forked/packages/openblas/xcode15-fortran.patch @@ -0,0 +1,22 @@ +From 47b03fd4b4ce7bc51d5b56397e52e6da3c5f3f36 Mon Sep 17 00:00:00 2001 +From: Martin Kroeker +Date: Sat, 18 Nov 2023 23:45:02 +0100 +Subject: [PATCH] Copy XCode15-specific workaround to Fortran flags to fix + build of tests + +--- + Makefile.system | 1 + + 1 file changed, 1 insertion(+) + +diff --git a/Makefile.system b/Makefile.system +index 1b84195e45..ff06e503cb 100644 +--- a/Makefile.system ++++ b/Makefile.system +@@ -407,6 +407,7 @@ XCVER = $(shell pkgutil --pkg-info=com.apple.pkg.CLTools_Executables |awk '/vers + endif + ifeq (x$(XCVER), x 15) + CCOMMON_OPT += -Wl,-ld_classic ++FCOMMON_OPT += -Wl,-ld_classic + endif + endif + diff --git a/repos/forked/packages/openmm b/repos/forked/packages/openmm new file mode 120000 index 00000000..296622fe --- /dev/null +++ b/repos/forked/packages/openmm @@ -0,0 +1 @@ +/cvmfs/hpc.ucdavis.edu/sw/spack/src/main/var/spack/repos/builtin/packages/openmm \ No newline at end of file diff --git a/repos/forked/packages/phyluce/package.py b/repos/forked/packages/phyluce/package.py new file mode 100644 index 00000000..2c74d073 --- /dev/null +++ b/repos/forked/packages/phyluce/package.py @@ -0,0 +1,48 @@ +# Copyright 2013-2024 Lawrence Livermore National Security, LLC and other +# Spack Project Developers. See the top-level COPYRIGHT file for details. +# +# SPDX-License-Identifier: (Apache-2.0 OR MIT) + +from spack.package import * + + +class Phyluce(PythonPackage): + """phyluce (phy-loo-chee) is a software package that was initially + developed for analyzing data collected from ultraconserved + elements in organismal genomes""" + + homepage = "https://github.com/faircloth-lab/phyluce" + url = "https://github.com/faircloth-lab/phyluce/archive/v1.6.7.tar.gz" + + version("1.7.3", sha256="931fd512730bb101266b27728576df00277858d256e1ab30d64b474588362e11") + version("1.7.1", sha256="d5e82aa8072f411ae30b0b44613870477bffeff37c02c48ae7ee42c1b46242ea") + version("1.6.7", sha256="98c213ab1610506722ad1440ffc93f9cbc78d8b3aaf3d9a47837e1231452cdb6") + + extends("python") + + depends_on("python@2.7", type=("build", "run"), when="@:1.6.7") + depends_on("python@3.10:", type=("build", "run"), when="@1.7.0:") + + depends_on("py-rich", type="run", when="@1.7.0:") + depends_on("snakemake", type="run", when="@1.7.0:") + + depends_on("py-setuptools", type=("build", "run")) + depends_on("py-biopython", type="run") + + # runtime binary dependencies + depends_on("abyss", type="run") + depends_on("bcftools", type="run") + depends_on("bwa", type="run") + depends_on("gatk", type="run") + depends_on("gblocks", type="run") + depends_on("lastz", type="run") + depends_on("mafft", type="run") + depends_on("muscle", type="run") + depends_on("picard", type="run") + depends_on("raxml+pthreads", type="run") + depends_on("samtools", type="run") + depends_on("seqtk", type="run") + depends_on("spades", type="run") + depends_on("trimal", type="run") + depends_on("trinity", type="run") + depends_on("velvet", type="run") diff --git a/repos/forked/packages/plink-ng/package.py b/repos/forked/packages/plink-ng/package.py new file mode 100644 index 00000000..62514746 --- /dev/null +++ b/repos/forked/packages/plink-ng/package.py @@ -0,0 +1,37 @@ +# Copyright 2013-2024 Lawrence Livermore National Security, LLC and other +# Spack Project Developers. See the top-level COPYRIGHT file for details. +# +# SPDX-License-Identifier: (Apache-2.0 OR MIT) + +from spack.package import * + +import llnl.util.filesystem as fs + + +class PlinkNg(Package): + """A comprehensive update to the PLINK association analysis toolset.""" + + homepage = "https://www.cog-genomics.org/plink/2.0/" + url = "https://github.com/chrchang/plink-ng/archive/refs/tags/v2.00a3.7.tar.gz" + + version('2.00a3.7', sha256='145717350205f5562a01292a0fcbd617b7500758f20cad0393c7cc54665a614e') + + depends_on("zlib-api") + depends_on("zstd@1.4.4:") + depends_on("cblas") + depends_on("blas") + depends_on("lapack") + + conflicts("%gcc@:4") + + def setup_build_environment(self, env): + zlib = join_path(self.spec["zlib-api"].prefix.lib, "libz.a") + env.set("ZLIB", zlib) + + def install(self, spec, prefix): + ld_flags = [spec["lapack"].libs.ld_flags, spec["blas"].libs.ld_flags] + + with fs.working_dir('2.0'): + filter_file("-llapack -lcblas -lblas", " ".join(ld_flags), "build.sh", string=True) + which("sh")("build.sh") + install_tree(".", prefix) diff --git a/repos/forked/packages/plink/dynamic_zlib.patch b/repos/forked/packages/plink/dynamic_zlib.patch new file mode 100644 index 00000000..301f4a0e --- /dev/null +++ b/repos/forked/packages/plink/dynamic_zlib.patch @@ -0,0 +1,70 @@ +diff -ur a/1.9/dose2plink.c b/1.9/dose2plink.c +--- a/1.9/dose2plink.c 2022-12-19 11:00:05.000000000 -0600 ++++ b/1.9/dose2plink.c 2022-12-19 13:08:50.022275377 -0600 +@@ -15,6 +15,8 @@ + // You should have received a copy of the GNU General Public License + // along with this program. If not, see . + ++#include "plink_common.h" ++ + #include + #include + #include +@@ -96,7 +98,11 @@ + #endif + #endif + +-#include "../zlib-1.2.12/zlib.h" ++#ifdef DYNAMIC_ZLIB ++ #include ++#else ++ #include "../zlib-1.2.12/zlib.h" ++#endif + + #ifdef __APPLE__ + #include +diff -ur a/1.9/pigz.c b/1.9/pigz.c +--- a/1.9/pigz.c 2022-12-19 11:00:05.000000000 -0600 ++++ b/1.9/pigz.c 2022-12-19 13:06:08.562023953 -0600 +@@ -485,6 +485,8 @@ + } + #else + ++#include "pigz.h" ++ + #define VERSION "pigz 2.3\n" + + /* use large file functions if available */ +@@ -543,8 +545,6 @@ + release(), peek_lock(), free_lock(), yarn_name */ + #endif + +-#include "pigz.h" +- + + /* for local functions and globals */ + #define local static +diff -ur a/1.9/pigz.h b/1.9/pigz.h +--- a/1.9/pigz.h 2022-12-19 11:00:05.000000000 -0600 ++++ b/1.9/pigz.h 2022-12-19 12:58:40.385103423 -0600 +@@ -1,6 +1,8 @@ + #ifndef __PIGZ_H__ + #define __PIGZ_H__ + ++#include "plink_common.h" ++ + #include + #include + +diff -ur a/1.9/plink_common.h b/1.9/plink_common.h +--- a/1.9/plink_common.h 2022-12-19 11:00:06.000000000 -0600 ++++ b/1.9/plink_common.h 2022-12-19 12:58:06.819259147 -0600 +@@ -41,6 +41,8 @@ + // Uncomment this to build this without CBLAS/CLAPACK. + // #define NOLAPACK + ++#define DYNAMIC_ZLIB ++ + // Uncomment this to prevent all unstable features from being accessible from + // the command line. + #define STABLE_BUILD diff --git a/repos/forked/packages/plink/dynamic_zlib_1.9-beta7.1.patch b/repos/forked/packages/plink/dynamic_zlib_1.9-beta7.1.patch new file mode 100644 index 00000000..de699a52 --- /dev/null +++ b/repos/forked/packages/plink/dynamic_zlib_1.9-beta7.1.patch @@ -0,0 +1,70 @@ +diff -ur a/1.9/dose2plink.c b/1.9/dose2plink.c +--- a/1.9/dose2plink.c 2022-12-19 11:00:05.000000000 -0600 ++++ b/1.9/dose2plink.c 2022-12-19 13:08:50.022275377 -0600 +@@ -15,6 +15,8 @@ + // You should have received a copy of the GNU General Public License + // along with this program. If not, see . + ++#include "plink_common.h" ++ + #include + #include + #include +@@ -96,7 +98,11 @@ + #endif + #endif + +-#include "../zlib-1.3/zlib.h" ++#ifdef DYNAMIC_ZLIB ++ #include ++#else ++ #include "../zlib-1.3/zlib.h" ++#endif + + #ifdef __APPLE__ + #include +diff -ur a/1.9/pigz.c b/1.9/pigz.c +--- a/1.9/pigz.c 2022-12-19 11:00:05.000000000 -0600 ++++ b/1.9/pigz.c 2022-12-19 13:06:08.562023953 -0600 +@@ -485,6 +485,8 @@ + } + #else + ++#include "pigz.h" ++ + #define VERSION "pigz 2.3\n" + + /* use large file functions if available */ +@@ -543,8 +545,6 @@ + release(), peek_lock(), free_lock(), yarn_name */ + #endif + +-#include "pigz.h" +- + + /* for local functions and globals */ + #define local static +diff -ur a/1.9/pigz.h b/1.9/pigz.h +--- a/1.9/pigz.h 2022-12-19 11:00:05.000000000 -0600 ++++ b/1.9/pigz.h 2022-12-19 12:58:40.385103423 -0600 +@@ -1,6 +1,8 @@ + #ifndef __PIGZ_H__ + #define __PIGZ_H__ + ++#include "plink_common.h" ++ + #include + #include + +diff -ur a/1.9/plink_common.h b/1.9/plink_common.h +--- a/1.9/plink_common.h 2022-12-19 11:00:06.000000000 -0600 ++++ b/1.9/plink_common.h 2022-12-19 12:58:06.819259147 -0600 +@@ -41,6 +41,8 @@ + // Uncomment this to build this without CBLAS/CLAPACK. + // #define NOLAPACK + ++#define DYNAMIC_ZLIB ++ + // Uncomment this to prevent all unstable features from being accessible from + // the command line. + #define STABLE_BUILD diff --git a/repos/forked/packages/plink/package.py b/repos/forked/packages/plink/package.py new file mode 100644 index 00000000..e7c4ea13 --- /dev/null +++ b/repos/forked/packages/plink/package.py @@ -0,0 +1,77 @@ +# Copyright 2013-2023 Lawrence Livermore National Security, LLC and other +# Spack Project Developers. See the top-level COPYRIGHT file for details. +# +# SPDX-License-Identifier: (Apache-2.0 OR MIT) + +from spack.package import * + + +class Plink(Package): + """PLINK is a free, open-source whole genome association analysis toolset, + designed to perform a range of basic, large-scale analyses in a + computationally efficient manner.""" + + homepage = "https://www.cog-genomics.org/plink/1.9/" + + version( + "1.9-beta7.1", + commit="1eb5dced75ee883e08c89c01cf2c979b996feb88", + git="https://github.com/chrchang/plink-ng.git", + ) + version( + "1.9-beta6.27", + commit="a2ea957c893fbb0558358edef27f3ecbf3d360f8", + git="https://github.com/chrchang/plink-ng.git", + ) + version( + "1.9-beta6.10", + sha256="f8438656996c55a5edd95c223cce96277de6efaab1b9b1d457bfee0c272058d8", + url="https://s3.amazonaws.com/plink1-assets/plink_linux_x86_64_20190617.zip", + ) + version( + "1.9-beta5", + sha256="e00ef16ac5abeb6b4c4d77846bd655fafc62669fbebf8cd2e941f07b3111907e", + url="https://github.com/chrchang/plink-ng/archive/b15c19f.tar.gz", + ) + version( + "1.07", + sha256="70c52ee47eed854293832639dbabb41c7c036db3a4881c136e6a71ecff4ac7f4", + url="https://zzz.bwh.harvard.edu/plink/dist/plink-1.07-x86_64.zip", + preferred=True, + ) + + depends_on("atlas", when="@1.9-beta5:1.9-beta6.10") + depends_on("netlib-lapack", when="@1.9-beta5:1.9-beta6.10") + + with when("@1.9-beta-6.27:"): + depends_on("zlib-api", when="@1.9-beta6.27:") + depends_on("blas", when="@1.9-beta6.27:") + depends_on("lapack", when="@1.9-beta6.27:") + + patch("dynamic_zlib_1.9-beta7.1.patch", when="@1.9-beta7.1:") + patch("dynamic_zlib.patch", when="@1.9-beta6.27") + + def install(self, spec, prefix): + mkdirp(prefix.bin) + if spec.version == Version("1.07"): + install("plink", prefix.bin) + install("gPLINK.jar", prefix.bin) + if spec.version == Version("1.9-beta5"): + with working_dir("1.9"): + first_compile = Executable("./plink_first_compile") + first_compile() + install("plink", prefix.bin) + if spec.version == Version("1.9-beta6.10"): + install("plink", prefix.bin) + + @when("@1.9-beta6.27:") + def setup_build_environment(self, env): + env.set("BLASFLAGS", self.spec["blas"].libs.ld_flags) + env.set("ZLIB", self.spec["zlib-api"].libs.ld_flags) + + @when("@1.9-beta6.27:") + def install(self, spec, prefix): + with working_dir("1.9"): + make() + mkdir(prefix.bin) + install("plink", prefix.bin) diff --git a/repos/hpccf/packages/pslib/package.py b/repos/forked/packages/pslib/package.py similarity index 100% rename from repos/hpccf/packages/pslib/package.py rename to repos/forked/packages/pslib/package.py diff --git a/repos/forked/packages/py-alphafold/package.py b/repos/forked/packages/py-alphafold/package.py new file mode 100644 index 00000000..8a8ad418 --- /dev/null +++ b/repos/forked/packages/py-alphafold/package.py @@ -0,0 +1,92 @@ +# Copyright 2013-2023 Lawrence Livermore National Security, LLC and other +# Spack Project Developers. See the top-level COPYRIGHT file for details. +# +# SPDX-License-Identifier: (Apache-2.0 OR MIT) + +import glob + +from spack.package import * + + +class PyAlphafold(PythonPackage, CudaPackage): + """AlphaFold is an AI system developed by DeepMind that predicts a + protein's 3D structure from its amino acid sequence. It regularly + achieves accuracy competitive with experiment.""" + + homepage = "https://github.com/deepmind/alphafold" + url = "https://github.com/deepmind/alphafold/archive/refs/tags/v2.1.1.tar.gz" + maintainers("aweits") + + version("2.3.2", sha256="4ea8005ba1b573fa1585e4c29b7d188c5cbfa59b4e4761c9f0c15c9db9584a8e") + version("2.2.4", sha256="8d756e16f6dc7897331d834aade8493820d0ff6a03bf60ce511bac4756c1b1e8") + version("2.1.1", sha256="1adb6e213ba9ac321fc1acb1c563ba9b4fc054c1cebe1191bc0e2aaa671dadf7") + + conflicts("platform=darwin", msg="alphafold is only supported on Linux") + + # lots of hints on versions and patching taken from docker/Dockerfile + # and requirements.txt + depends_on("python@3.7:", type=("build", "run")) + depends_on("py-setuptools", type="build") + depends_on("py-absl-py@0.13.0:", type=("build", "run"), when="@2.1.1") + depends_on("py-absl-py@1.0.0:", type=("build", "run"), when="@2.2.4:") + depends_on("py-biopython@1.79:", type=("build", "run")) + depends_on("py-chex@0.0.7:", type=("build", "run")) + depends_on("py-dm-haiku@0.0.4:", type=("build", "run"), when="@2.1.1") + depends_on("py-dm-haiku@0.0.7:", type=("build", "run"), when="@2.2.4") + depends_on("py-dm-haiku@0.0.9:", type=("build", "run"), when="@2.3.2:") + depends_on("py-dm-tree@0.1.6:", type=("build", "run")) + depends_on("py-docker", type=("build", "run")) + depends_on("py-immutabledict@2.0.0:", type=("build", "run")) + depends_on("py-jax@0.2.14:", type=("build", "run"), when="@2.1.1") + depends_on("py-jax@0.3.17:", type=("build", "run"), when="@2.2.4") + depends_on("py-jax@0.3.25:", type=("build", "run"), when="@2.3.2:") + depends_on("py-ml-collections@0.1.0:", type=("build", "run")) + depends_on("py-numpy@1.19.5:", type=("build", "run"), when="@2.1.1") + depends_on("py-numpy@1.21.6:", type=("build", "run"), when="@2.2.4:") + depends_on("py-pandas@1.3.4:", type=("build", "run")) + depends_on("py-protobuf@3.19:", type=("build", "run"), when="@2.2.4:") + depends_on("py-scipy@1.7.0:", type=("build", "run")) + depends_on("py-pdbfixer@1.7", type=("build", "run")) + depends_on("py-tensorflow@2.5:", type=("build", "run"), when="@2.1.1") + depends_on("py-tensorflow@2.9:", type=("build", "run"), when="@2.2.4:") + depends_on( + "openmm@7.5.1+cuda", + type="run", + patches=[ + patch( + "https://raw.githubusercontent.com/deepmind/alphafold/main/docker/openmm.patch", + sha256="a5a0ced820f3ecc56ae634c3111f80614863559b0587954a2658c8d4b2a07ae3", + working_dir="wrappers/python", + level=0, + ) + ], + ) + depends_on("hmmer", type="run") + depends_on("kalign", type="run") + depends_on("hh-suite", type="run") + depends_on("aria2", type="run") + + resource( + name="chemprops", + url="https://git.scicore.unibas.ch/schwede/openstructure/-/raw/7102c63615b64735c4941278d92b554ec94415f8/modules/mol/alg/src/stereo_chemical_props.txt", + destination="", + sha256="24510899eeb49167cffedec8fa45363a4d08279c0c637a403b452f7d0ac09451", + expand=False, + placement="chemprops", + ) + + @run_after("install") + def install_scripts(self): + mkdirp(self.prefix.bin) + shebang = "#!{0}\n".format(self.spec["python"].command) + for fname in glob.glob("run_alphafold*.py"): + destfile = join_path(self.prefix.bin, fname) + with open(fname, "r") as src: + srcdata = src.read() + with open(destfile, "w") as dest: + dest.write(shebang + srcdata) + set_executable(destfile) + + python_dir = join_path(self.prefix, python_platlib, "alphafold", "common") + install("chemprops/stereo_chemical_props.txt", python_dir) + install_tree("scripts", self.prefix.scripts) diff --git a/repos/forked/packages/py-cyvcf2/package.py b/repos/forked/packages/py-cyvcf2/package.py new file mode 100644 index 00000000..99ca953f --- /dev/null +++ b/repos/forked/packages/py-cyvcf2/package.py @@ -0,0 +1,28 @@ +# Copyright 2013-2024 Lawrence Livermore National Security, LLC and other +# Spack Project Developers. See the top-level COPYRIGHT file for details. +# +# SPDX-License-Identifier: (Apache-2.0 OR MIT) + +from spack.package import * + + +class PyCyvcf2(PythonPackage): + """fast vcf parsing with cython + htslib""" + + homepage = "https://github.com/brentp/cyvcf2" + pypi = "cyvcf2/cyvcf2-0.11.7.tar.gz" + + license("MIT") + + version("0.11.7", sha256="a4b6229b89a0a1043684c65cbdd702c366a8800dc3591fb44c4b5a08640cbeec") + + depends_on("python@2.7:", type=("build", "run")) + depends_on("py-setuptools", type="build") + + depends_on("py-cython@0.23.3:", type="build") + depends_on("py-numpy", type=("build", "run")) + depends_on("py-coloredlogs", type=("build", "run")) + depends_on("py-click", type=("build", "run")) + + depends_on("curl") + depends_on("htslib") diff --git a/repos/forked/packages/py-dm-haiku/package.py b/repos/forked/packages/py-dm-haiku/package.py new file mode 100644 index 00000000..f11410a7 --- /dev/null +++ b/repos/forked/packages/py-dm-haiku/package.py @@ -0,0 +1,32 @@ +# Copyright 2013-2024 Lawrence Livermore National Security, LLC and other +# Spack Project Developers. See the top-level COPYRIGHT file for details. +# +# SPDX-License-Identifier: (Apache-2.0 OR MIT) + + +from spack.package import * + + +class PyDmHaiku(PythonPackage): + """JAX-based neural network library""" + + homepage = "https://github.com/deepmind/dm-haiku" + pypi = "dm-haiku/dm-haiku-0.0.5.tar.gz" + + license("Apache-2.0") + + version("0.0.10", sha256="ca85e0a5eaafb2eb9111b954e56eff1595e55511482434a4d41e7969a0f31a20") + version("0.0.7", sha256="86c34af6952a305a4bbfda6b9925998577acc4aa2ad9333da3d6047f4f8ed7c1") + version("0.0.5", sha256="e986237e1f840aa3bd26217ecad84b611bf1456e2139f0f79ea71f9c6222d231") + + depends_on("python@3.7:", type=("build", "run")) + depends_on("py-setuptools", type="build") + depends_on("py-absl-py@0.7.1:", type=("build", "run")) + depends_on("py-jmp@0.0.2:", type=("build", "run")) + depends_on("py-numpy@1.18.0:", type=("build", "run")) + depends_on("py-tabulate@0.8.9:", type=("build", "run")) + depends_on("py-typing-extensions", when="^python@:3.7", type=("build", "run")) + # from README.md: + # Because JAX installation is different depending on your CUDA version, Haiku does + # not list JAX as a dependency in `requirements.txt`. + depends_on("py-jax", type=("build", "run")) diff --git a/repos/forked/packages/py-gdc-client/package.py b/repos/forked/packages/py-gdc-client/package.py new file mode 100644 index 00000000..53e67125 --- /dev/null +++ b/repos/forked/packages/py-gdc-client/package.py @@ -0,0 +1,22 @@ +# Copyright 2013-2024 Lawrence Livermore National Security, LLC and other +# Spack Project Developers. See the top-level COPYRIGHT file for details. +# +# SPDX-License-Identifier: (Apache-2.0 OR MIT) + +from spack.package import * + + +class PyGdcClient(PythonPackage): + """The gdc-client provides several convenience functions + over the GDC API which provides general download/upload via HTTPS.""" + + homepage = "https://github.com/NCI-GDC/gdc-client" + url = "https://github.com/NCI-GDC/gdc-client/archive/1.4.0.tar.gz" + + license("Apache-2.0") + + # HPCCF: we add version 1.6.0 + version('1.6.0', sha256='021c54ff63babff59d15b5f3e9763f0fd18bb64a4a34bc273237e3571fb24889') + version('1.4.0', sha256='3ae6664f9666c75ffbf3c883409cfa51333f61d23b7aa99010925a084b4c9582') + + depends_on('py-setuptools', type='build') diff --git a/repos/forked/packages/py-multiqc/package.py b/repos/forked/packages/py-multiqc/package.py new file mode 100644 index 00000000..270d59cf --- /dev/null +++ b/repos/forked/packages/py-multiqc/package.py @@ -0,0 +1,52 @@ +# Copyright 2013-2024 Lawrence Livermore National Security, LLC and other +# Spack Project Developers. See the top-level COPYRIGHT file for details. +# +# SPDX-License-Identifier: (Apache-2.0 OR MIT) + +from spack.package import * + + +class PyMultiqc(PythonPackage): + """MultiQC is a tool to aggregate bioinformatics results across many + samples into a single report. It is written in Python and contains modules + for a large number of common bioinformatics tools.""" + + homepage = "https://multiqc.info" + pypi = "multiqc/multiqc-1.0.tar.gz" + + license("GPL-3.0-only", checked_by="A_N_Other") + maintainers("ewels", "vladsavelyev") + + version("1.23", sha256="4e84664000fec69a0952a0457a8d780dcc1ce9e36d14680dbdba5610b9766265") + + # dependency defintions move from setup.py to pyproject.toml as of @1.23: + + # build deps + depends_on("py-setuptools", type="build") + + # current run deps + depends_on("py-click", type=("build", "run")) + depends_on("py-humanize", type=("build", "run"), when="@1.18:") + depends_on("py-importlib-metadata", type=("build", "run"), when="@1.16:") + depends_on("py-jinja2@3.0.0:", type=("build", "run"), when="@1.14:") + depends_on("py-jinja2@2.9:", type=("build", "run"), when="@:1.13") + depends_on("py-kaleido", type=("build", "run"), when="@1.20:") + depends_on("py-markdown", type=("build", "run"), when="@1.3:") + depends_on("py-natsort", type=("build", "run")) + depends_on("py-numpy", type=("build", "run")) + depends_on("py-packaging", type=("build", "run"), when="@1.16:") + depends_on("py-requests", type=("build", "run"), when="@1.3:") + depends_on("py-pillow@10:", type=("build", "run"), when="@1.20:") + depends_on("py-plotly@5.18:", type=("build", "run"), when="@1.21:") + depends_on("py-plotly", type=("build", "run"), when="@1.20") + depends_on("py-pydantic", type=("build", "run")) + depends_on("py-pyyaml@4:", type=("build", "run"), when="@1.13:") + depends_on("py-pyyaml", type=("build", "run")) + depends_on("py-pyaml-env", type=("build", "run"), when="@1.18:") + depends_on("py-rich@10:", type=("build", "run"), when="@1.13:") + depends_on("py-rich-click", type=("build", "run"), when="@1.13:") + depends_on("py-coloredlogs", type=("build", "run"), when="@1.13:") + depends_on("py-spectra@0.0.10:", type=("build", "run"), when="@1.4:") + depends_on("py-spectra", type=("build", "run"), when="@1.18:") + depends_on("py-typeguard", type=("build", "run"), when="@1.23:") + depends_on("py-tqdm", type=("build", "run"), when="@1.23:") diff --git a/repos/forked/packages/qualimap/package.py b/repos/forked/packages/qualimap/package.py new file mode 100644 index 00000000..f6cefeaf --- /dev/null +++ b/repos/forked/packages/qualimap/package.py @@ -0,0 +1,33 @@ +# Copyright 2013-2024 Lawrence Livermore National Security, LLC and other +# Spack Project Developers. See the top-level COPYRIGHT file for details. +# +# SPDX-License-Identifier: (Apache-2.0 OR MIT) + +from spack.package import * + + +class Qualimap(Package): + """Qualimap 2 is a platform-independent application written in Java + and R that provides both a Graphical User Inteface (GUI) and a + command-line interface to facilitate the quality control of alignment + sequencing data and its derivatives like feature counts.""" + + homepage = "http://qualimap.conesalab.org/" + url = "https://bitbucket.org/kokonech/qualimap/downloads/qualimap_v2.2.1.zip" + + license("GPL-2.0-or-later") + + version("2.3", sha256="2a04dd864b712da30923cce3bc8dfc6ea59612118e8b0ff1a246fe43b8d34c40") + version("2.2.1", sha256="08f1d66e49c83c76c56c4225c53aee44f41e0592c8bdc84b8c4ecd975700e045") + + depends_on("java", type="run") + + def setup_run_environment(self, env): + env.prepend_path("PATH", prefix) + + def install(self, spec, prefix): + install_tree(".", prefix) + + def patch(self): + """Bring qualimap into the future and allow it to work with Java > 8.""" + filter_file(r"\s+-XX:MaxPermSize=1024m", "", "qualimap") diff --git a/repos/hpccf/packages/relion/0002-Simple-patch-to-fix-intel-mkl-linking.patch b/repos/forked/packages/relion/0002-Simple-patch-to-fix-intel-mkl-linking.patch similarity index 100% rename from repos/hpccf/packages/relion/0002-Simple-patch-to-fix-intel-mkl-linking.patch rename to repos/forked/packages/relion/0002-Simple-patch-to-fix-intel-mkl-linking.patch diff --git a/repos/hpccf/packages/relion/delay_gpu_start.patch b/repos/forked/packages/relion/delay_gpu_start.patch similarity index 100% rename from repos/hpccf/packages/relion/delay_gpu_start.patch rename to repos/forked/packages/relion/delay_gpu_start.patch diff --git a/repos/forked/packages/relion/package.py b/repos/forked/packages/relion/package.py new file mode 100644 index 00000000..a2e31a9c --- /dev/null +++ b/repos/forked/packages/relion/package.py @@ -0,0 +1,204 @@ +# Copyright 2013-2022 Lawrence Livermore National Security, LLC and other +# Spack Project Developers. See the top-level COPYRIGHT file for details. +# +# SPDX-License-Identifier: (Apache-2.0 OR MIT) + +import os + +from spack.package import * + + +class Relion(CMakePackage, CudaPackage): + """RELION (for REgularised LIkelihood OptimisatioN, pronounce rely-on) is a + stand-alone computer program that employs an empirical Bayesian approach to + refinement of (multiple) 3D reconstructions or 2D class averages in + electron cryo-microscopy (cryo-EM).""" + + homepage = "http://www2.mrc-lmb.cam.ac.uk/relion" + git = "https://github.com/3dem/relion.git" + url = "https://github.com/3dem/relion/archive/3.1.3.zip" + + version("5.0-beta", branch="ver5.0") + version("4.0.1", + commit="ec417f5", + preferred=True) + + version("4.0.0", commit="04079953afd9f74c8705e24004091575b4fd71e0") + + version("3.1.3", sha256="e67277200b54d1814045cfe02c678a58d88eb8f988091573453c8568bfde90fc") + version("3.1.2", sha256="dcdf6f214f79a03d29f0fed2de58054efa35a9d8401543bdc52bfb177987931f") + version("3.1.1", sha256="63e9b77e1ba9ec239375020ad6ff631424d1a5803cba5c608c09fd44d20b1618") + version("3.1.0", sha256="8a7e751fa6ebcdf9f36046499b3d88e170c4da86d5ff9ad1914b5f3d178867a8") + + # 3.0.8 latest release in 3.0 branch + version("3.0.8", sha256="18cdd58e3a612d32413eb37e473fe8fbf06262d2ed72e42da20356f459260973") + version("3.0.7", sha256="a6d37248fc4d0bfc18f4badb7986dc1b6d6849baa2128b0b4dade13cb6991a99") + + # relion master contains development code + # contains 3.0 branch code + version("master") + + variant("gui", default=True, description="build the gui") + variant("cuda", default=True, description="enable compute on gpu") + variant("double", default=True, description="double precision (cpu) code") + variant("double-gpu", default=False, description="double precision gpu") + + # if built with purpose=cluster then relion will link to gpfs libraries + # if that's not desirable then use purpose=desktop + variant( + "purpose", + default="cluster", + values=("cluster", "desktop"), + description="build relion for use in cluster or desktop", + ) + + variant( + "build_type", + default="RelWithDebInfo", + description="The build type to build", + values=("Debug", "Release", "RelWithDebInfo", "Profiling", "Benchmarking"), + ) + + # these new values were added in relion 3 + # do not seem to cause problems with < 3 + variant("mklfft", default=True, description="Use MKL rather than FFTW for FFT") + #variant("amdfftw", default=False, description="Use AMD-optimized FFTW") + variant( + "allow_ctf_in_sagd", + default=True, + description=( + "Allow CTF-modulation in SAGD, " "as specified in Claim 1 of patent US10,282,513B2" + ), + ) + variant("altcpu", default=False, description="Use CPU acceleration", when="~cuda") + + variant( + "external_motioncor2", + default=False, + description="Have external motioncor2 available in addition to Relion builtin", + ) + variant( + "gctf", + default=False, + description="Install gctf dependency (requires manual download)" + ) + + variant("gpu_delay", default=False, description="Delay GPU start to alleviate power spikes.") + variant("conda_python", + default='CONDA_PYTHON', + validator=lambda cls_name, var_name, v: os.path.isfile(v[0]) and os.access(v[0], os.X_OK), + when="@5:") + variant("torch_home", + default='TORCH_HOME', + when="@5:") + + depends_on("mpi") + depends_on("cmake@3:", type="build") + depends_on("fftw-api precision=float,double", when="~mklfft") + #depends_on("amdfftw precision=float,double", when="+amdfftw") + + # use the +xft variant so the interface is not so horrible looking + depends_on("fltk+xft", when="+gui") + + depends_on("libtiff") + depends_on("libpng", when="@4:") + + depends_on("cuda", when="+cuda") + depends_on("cuda@9:", when="@3: +cuda") + depends_on("tbb", when="+altcpu") + depends_on("mkl", when="+mklfft") + depends_on("ctffind", type="run") + depends_on("motioncor2", type="run", when="+external_motioncor2") + depends_on("gctf", type="run", when="+gctf") + + # TODO: more externals to add + # Spack packages needed + # - ResMap + patch("0002-Simple-patch-to-fix-intel-mkl-linking.patch", when="@:3.1.1 os=ubuntu18.04") + patch("delay_gpu_start.patch", when="@4.0.0: +gpu_delay") + + def cmake_args(self): + args = [ + "-DCMAKE_C_FLAGS=-g", + "-DCMAKE_CXX_FLAGS=-g", + "-DGUI=%s" % ("+gui" in self.spec), + "-DDoublePrec_CPU=%s" % ("+double" in self.spec), + "-DDoublePrec_GPU=%s" % ("+double-gpu" in self.spec), + "-DALLOW_CTF_IN_SAGD=%s" % ("+allow_ctf_in_sagd" in self.spec), + "-DMKLFFT=%s" % ("+mklfft" in self.spec), + "-DALTCPU=%s" % ("+altcpu" in self.spec), + ] + + if "+cuda" in self.spec: + carch = self.spec.variants["cuda_arch"].value[0] + + # relion+cuda requires selecting cuda_arch + if carch == "none": + raise ValueError("Must select a value for cuda_arch") + else: + args += [ + "-DCUDA=ON", + "-DCudaTexture=ON", + "-DCUDA_ARCH=%s" % (carch), + ] + + if "+mklfft" not in self.spec and int(carch) >= 11: + args += [ + "-DTHRUST_IGNORE_CUB_VERSION_CHECK=1" + ] + + if "^amdfftw" in self.spec: + args += [ + "-DAMDFFTW=ON" + ] + + if "+altcpu" in self.spec: + args += [ + "-DFORCE_OWN_TBB=OFF", + self.define("TBB_INCLUDE_DIR", self.spec["tbb"].headers.directories[0]), + self.define("TBB_LIBRARY", self.spec["tbb"].libs.directories[0]) + ] + + if 'conda_python' in self.spec.variants: + args += [ + self.define_from_variant("PYTHON_EXE_PATH", "conda_python") + ] + + if "torch_home" in self.spec.variants: + args += [ + self.define_from_variant("TORCH_HOME_PATH", "torch_home") + ] + + return args + + def patch(self): + # Remove flags not recognized by the NVIDIA compilers + if self.spec.satisfies("%nvhpc"): + filter_file("-std=c99", "-c99", "src/apps/CMakeLists.txt") + + # set up some defaults + filter_file( + r"(#define DEFAULTQSUBLOCATION).*", + r'\1 "{0}"'.format(join_path(self.spec.prefix.bin, "relion_qsub.csh")), + join_path("src", "pipeline_jobs.h"), + ) + filter_file( + r"(#define DEFAULTCTFFINDLOCATION).*", + r'\1 "{0}"'.format(join_path(self.spec["ctffind"].prefix.bin, "ctffind")), + join_path("src", "pipeline_jobs.h"), + ) + + if "+external_motioncor2" in self.spec: + filter_file( + r"(#define DEFAULTMOTIONCOR2LOCATION).*", + r'\1 "{0}"'.format(join_path(self.spec["motioncor2"].prefix.bin, "MotionCor2")), + join_path("src", "pipeline_jobs.h"), + ) + + if "+cuda" in self.spec: + carch = self.spec.variants["cuda_arch"].value[0] + if int(carch) >= 11: + # see: https://github.com/3dem/relion/commit/554e0ed993e5ac8a3fee4be7c5cf64a62216a8c7 + filter_file(r'^#define CUB_NS_QUALIFIER ::cub # for compatibility with CUDA 11.5', + r'#define CUB_NS_QUALIFIER ::cub // for compatibility with CUDA 11.5', + join_path("src", "acc", "cuda", "cuda_utils_cub.cuh")) diff --git a/repos/hpccf/packages/rstudio/0004-use-system-node.patch b/repos/forked/packages/rstudio/0004-use-system-node.patch similarity index 100% rename from repos/hpccf/packages/rstudio/0004-use-system-node.patch rename to repos/forked/packages/rstudio/0004-use-system-node.patch diff --git a/repos/forked/packages/rstudio/package.py b/repos/forked/packages/rstudio/package.py new file mode 100644 index 00000000..81f8725e --- /dev/null +++ b/repos/forked/packages/rstudio/package.py @@ -0,0 +1,248 @@ +# Copyright 2013-2024 Lawrence Livermore National Security, LLC and other +# Spack Project Developers. See the top-level COPYRIGHT file for details. +# +# SPDX-License-Identifier: (Apache-2.0 OR MIT) + +import os + +from spack.package import * +from spack.pkg.builtin.boost import Boost + + +class Rstudio(CMakePackage): + """RStudio is an integrated development environment (IDE) for R.""" + + homepage = "www.rstudio.com/products/rstudio/" + + version("2024.09.0-375", + sha256="8a29b77c53a3db8379d824a9f4a491843036003d105ed71981cd40fe39d2c8c8") + + version("2023.12.1-402", + sha256="196d31094d580a74737fbf689d2d0b302da5fec13694aa1d63f8875d3e45e4dd") + + version("2022.12.0-353", + sha256="e4f3503e2ad4229301360f56fd5288e5c8e769c490073dae7fe40366237ecce0") + + version("1.4.1717", + url="https://github.com/rstudio/rstudio/archive/refs/tags/v1.4.1717.tar.gz", + sha256="3af234180fd7cef451aef40faac2c7b52860f14a322244c1c7aede029814d261") + + # https://github.com/rstudio/rstudio/archive/refs/tags/2023.12.1+402.tar.gz + def url_for_version(self, version): + url = "https://github.com/rstudio/rstudio/archive/refs/tags/v{0}.tar.gz" + return url.format(str(version).replace('-', '+')) + + variant("notebook", default=False, description="Enable notebook support.") + variant("server", default=False, when="@2022.12.0-353:", description="Build server version.") + + depends_on("r@3.0.1:", type="build") + depends_on("cmake@3.4.3:", type="build") + depends_on("pkgconfig", type="build") + depends_on("ant", type="build") + #depends_on("qt+webkit@5.12:5.14") + depends_on("qt@5.15.8:") + depends_on("patchelf@0.9:") + depends_on("yaml-cpp@:0.6.3") # find_package fails with newest version + depends_on("yarn") + depends_on("pandoc@2.11.4:") + depends_on("icu4c") + depends_on("soci~static~mysql+boost+postgresql+sqlite cxxstd=14") + depends_on("java@8:") + depends_on("libpam", when="+server") + depends_on("openssl@3:") + depends_on("gettext") + + # require EXACT node version to match rstudio expectation + with when("@2022.12.0"): + depends_on("{0}@:1.82.9999+pic".format(Boost.with_default_variants)) + depends_on("node-js@16:") + depends_on("yarn@1.22.4:") + depends_on("npm@9.8.1") + + # require EXACT node version to match rstudio expectation + with when("@2023.12.1-402"): + depends_on("{0}@1.83.0 +pic".format(Boost.with_default_variants)) + depends_on("node-js@18.18.2") + depends_on("yarn@1.22.4:") + depends_on("npm@9.8.1") + depends_on("openssl@3.2:") + + # require EXACT node version to match rstudio expectation + with when("@2024.09.0-375"): + depends_on("{0}@1.83.0 +pic".format(Boost.with_default_variants)) # grep 'set(RSTUDIO_BOOST_REQUESTED_VERSION' src/cpp/CMakeLists.txt + depends_on("node-js@20.15.1") # grep 'set(RSTUDIO_INSTALLED_NODE_VERSION' cmake/globals.cmake + depends_on("yarn@1.22.4:") + depends_on("npm@10.9.0") # Not specified in rstudio source, grabbing newest. + depends_on("openssl@3.2:") + #Necessary to exactly match?# depends_on("pandoc@2.18") # grep PANDOC_VERSION= dependencies/common/install-pandoc + + + with when("+notebook"): + depends_on("r-base64enc") + depends_on("r-digest") + depends_on("r-evaluate") + depends_on("r-glue") + depends_on("r-highr") + depends_on("r-htmltools") + depends_on("r-jsonlite") + depends_on("r-knitr") + depends_on("r-magrittr") + depends_on("r-markdown") + depends_on("r-mime") + depends_on("r-rmarkdown") + depends_on("r-stringi") + depends_on("r-stringr") + depends_on("r-tinytex") + depends_on("r-xfun") + depends_on("r-yaml") + + + def cmake_args(self): + + args = [ + "-DRSTUDIO_PACKAGE_BUILD=1", + "-DCMAKE_BUILD_TYPE=Release", + "-DRSTUDIO_USE_SYSTEM_YAML_CPP=Yes", + "-DRSTUDIO_USE_SYSTEM_BOOST=Yes", + "-DRSTUDIO_USE_SYSTEM_SOCI=Yes", + "-DQUARTO_ENABLED=No", # temporary? + '-DQT_QMAKE_EXECUTABLE="{0}"'.format(self.spec["qt"].prefix.bin.qmake), + "-DCMAKE_INSTALL_RPATH_USE_LINK_PATH=True" + ] + + if '+server' in self.spec: + args.extend([ + "-DRSTUDIO_TARGET=Server" + ]) + else: + args.extend([ + "-DRSTUDIO_TARGET=Desktop", + ]) + + return args + + def setup_build_environment(self, env): + env.set("RSTUDIO_TOOLS_ROOT", self.prefix.tools) + + def patch(self): + if self.spec.satisfies("@2022.12.0:"): + filter_file( + '', + ''.format(self.spec["node-js"].prefix), + "src/gwt/build.xml", + string=True, + ) + + if self.spec.satisfies("@2022.12.0-353"): + filter_file( + '', + '', + "src/gwt/build.xml", + string=True, + ) + else: + # to use node-js provided by spack: first patches this portion of config to a single line + patch("0004-use-system-node.patch") + + # Now patch that single line for node to the spack provided version + filter_file( + '', + ''.format(self.spec["node-js"].prefix.bin.node), + "src/gwt/build.xml", + string=True, + ) + + # remove hardcoded soci path to use spack soci + if self.spec["soci"].version <= Version("4.0.0"): + soci_lib = self.spec["soci"].prefix.lib64 + else: + soci_lib = self.spec["soci"].prefix.lib + filter_file( + 'set(SOCI_LIBRARY_DIR "/usr/lib")', + 'set(SOCI_LIBRARY_DIR "{0}")'.format(soci_lib), + "src/cpp/CMakeLists.txt", + string=True, + ) + + # unbundle icu libraries + #filter_file( + # "${QT_LIBRARY_DIR}/${ICU_LIBRARY}.so", + # join_path(self.spec["icu4c"].prefix.lib, "${ICU_LIBRARY}.so"), + # "src/cpp/desktop/CMakeLists.txt", + # string=True, + #) + + @run_before("cmake") + def install_deps(self): + deps = Executable("./dependencies/common/install-dictionaries") + deps() + deps = Executable("./dependencies/common/install-mathjax") + deps() + + if self.spec.satisfies("@2023.12.1:"): + deps = Executable("./dependencies/common/install-panmirror") + deps() + + # two methods for pandoc + # 1) replace install-pandoc: + # - link pandoc into tools/pandoc/$PANDOC_VERSION + # (this is what install-pandoc would do) + # - cmake then installs pandoc files from there into bin + # 2) remove install-pandoc and cmake install step + link directly into bin + + # method 1) + + if self.spec.satisfies("@1.4.1717"): + filter_file( + 'set(PANDOC_VERSION "2.11.4" CACHE INTERNAL "Pandoc version")', + 'set(PANDOC_VERSION "{0}" CACHE INTERNAL "Pandoc version")'.format( + self.spec["pandoc"].version + ), + "src/cpp/session/CMakeLists.txt", + string=True, + ) + elif self.spec.satisfies("@2022.12.0-353:2023.12.1-402"): + # grep PANDOC_VERSION= dependencies/common/install-pandoc + filter_file( + 'set(PANDOC_VERSION "2.18" CACHE INTERNAL "Pandoc version")', + 'set(PANDOC_VERSION "{0}" CACHE INTERNAL "Pandoc version")'.format( + self.spec["pandoc"].version + ), + "CMakeGlobals.txt", + string=True, + ) + elif self.spec.satisfies("@2024.09.0-375:"): + # grep PANDOC_VERSION= dependencies/common/install-pandoc + filter_file( + 'set(PANDOC_VERSION "2.18" CACHE INTERNAL "Pandoc version")', + 'set(PANDOC_VERSION "{0}" CACHE INTERNAL "Pandoc version")'.format( + self.spec["pandoc"].version + ), + 'cmake/globals.cmake', + string=True, + ) + + + + pandoc_dir = join_path(self.prefix.tools, "pandoc", self.spec["pandoc"].version) + os.makedirs(pandoc_dir) + with working_dir(pandoc_dir): + os.symlink(self.spec["pandoc"].prefix.bin.pandoc, "pandoc") + os.symlink( + os.path.join(self.spec["pandoc"].prefix.bin, "pandoc-citeproc"), "pandoc-citeproc" + ) + + if self.spec.satisfies("@2022.12.0:"): + node_shim_dir = f"dependencies/common/node/{self.spec['node-js'].version}/bin" + os.makedirs(node_shim_dir) + with working_dir(node_shim_dir): + os.symlink(self.spec["node-js"].prefix.bin.node, "node") + os.symlink(self.spec["node-js"].prefix.bin.corepack, "corepack") + os.symlink(self.spec["yarn"].prefix.bin.yarn, "yarn") + os.symlink(self.spec["npm"].prefix.bin.npm, "npm") + os.symlink(self.spec["npm"].prefix.bin.npx, "npx") + + if self.spec.satisfies("@2024.09.0-375:"): + node_version = self.spec['node-js'].version + with working_dir('dependencies/common/node'): + os.symlink(str(node_version), f'{node_version}-patched') diff --git a/repos/forked/packages/sailfish/package.py b/repos/forked/packages/sailfish/package.py new file mode 100644 index 00000000..df1de469 --- /dev/null +++ b/repos/forked/packages/sailfish/package.py @@ -0,0 +1,38 @@ +# Copyright 2013-2024 Lawrence Livermore National Security, LLC and other +# Spack Project Developers. See the top-level COPYRIGHT file for details. +# +# SPDX-License-Identifier: (Apache-2.0 OR MIT) + +from spack.package import * +from spack.pkg.builtin.boost import Boost + + +class Sailfish(CMakePackage): + """Sailfish is a tool for transcript quantification from RNA-seq data.""" + + homepage = "https://www.cs.cmu.edu/~ckingsf/software/sailfish" + url = "https://github.com/kingsfordgroup/sailfish/archive/v0.10.1.tar.gz" + + license("GPL-3.0-only") + + version("0.10.1", sha256="a0d6d944382f2e07ffbfd0371132588e2f22bb846ecfc3d3435ff3d81b30d6c6") + + depends_on("boost@1.55:") + + # TODO: replace this with an explicit list of components of Boost, + # for instance depends_on('boost +filesystem') + # See https://github.com/spack/spack/pull/22303 for reference + depends_on(Boost.with_default_variants) + depends_on("tbb") + depends_on("jemalloc") + depends_on("jellyfish") + depends_on("libgff") + depends_on("sparsehash") + + def patch(self): + filter_file("/opt/intel/tbb", + "{0}".format(self.spec["intel-tbb"].prefix.include), + "cmake/Modules/FindTBB.cmake") + + def cmake_args(self): + return ["-DTBB_INSTALL_DIR={0}".format(self.spec["intel-tbb"].prefix)] diff --git a/repos/forked/packages/slurm/package.py b/repos/forked/packages/slurm/package.py new file mode 100644 index 00000000..dfa1a71c --- /dev/null +++ b/repos/forked/packages/slurm/package.py @@ -0,0 +1,252 @@ +# Copyright 2013-2024 Lawrence Livermore National Security, LLC and other +# Spack Project Developers. See the top-level COPYRIGHT file for details. +# +# SPDX-License-Identifier: (Apache-2.0 OR MIT) + + +import re + +from spack.package import * + + +class Slurm(AutotoolsPackage): + """Slurm is an open source, fault-tolerant, and highly scalable cluster + management and job scheduling system for large and small Linux clusters. + + Slurm requires no kernel modifications for its operation and is relatively + self-contained. As a cluster workload manager, Slurm has three key + functions. First, it allocates exclusive and/or non-exclusive access to + resources (compute nodes) to users for some duration of time so they can + perform work. Second, it provides a framework for starting, executing, + and monitoring work (normally a parallel job) on the set of allocated + nodes. Finally, it arbitrates contention for resources by managing a + queue of pending work. + """ + + homepage = "https://slurm.schedmd.com" + url = "https://github.com/SchedMD/slurm/archive/slurm-21-08-8-2.tar.gz" + + license("GPL-2.0-or-later") + + version("24-05-5-1", sha256="be944c8ab78d54a79cbff47128fc2b99589a7d2279c10b2e0bf0507d5f426080") + version("23-11-1-1", sha256="31506df24c6d24e0ea0329cac1395ab9b645bbde1518f5c469f7711df5e22c11") + version("23-11-0-1", sha256="3780773a80b73ea2edb4353318b4220188f4eda92c31ab3a2bdd3a4fdec76be9") + version("23-02-7-1", sha256="3f60ad5b5a492312d1febb9f9167caa3aee7f8438bb032590a993f5a65c5e4db") + version("23-02-6-1", sha256="ed44d4e591c0f91874d535cb8c9ea67dd2a38bfa4e96fa6c71687293f6a1d3bb") + version("23-02-5-1", sha256="4fee743a34514d8fe487080048256f5ee032374ed5f42d0eae342110dcd59edf") + version("23-02-4-1", sha256="7290143a71ce2797d0df3423f08396fd5c0ae4504749ff372d6860b2d6a3a1b0") + version("23-02-3-1", sha256="c41747e4484011cf376d6d4bc73b6c4696cdc0f7db4f64174f111bb9f53fb603") + version("23-02-2-1", sha256="71edcf187a7d68176cca06143adf98e8f332d42cdf000cb534b03b13834ad537") + version("23-02-1-1", sha256="d827553496ee9158bbf6a862b563cfd48566e6d815ad2f8349950fe6f04934da") + version("22-05-9-1", sha256="c9aaa2362b5bf7a4745c8bf90e8dd2ca50802f1241dd1f5220aec8448c09b514") + version("22-05-8-1", sha256="8c8f6a26a5d51e6c63773f2e02653eb724540ee8b360125c8d7732314ce737d6") + version("22-05-7-1", sha256="2ad7e8a415d54d45977ab64b4e73c891154d2f41a04505fedf6f8d3df385acb1") + version("21-08-8-2", sha256="876d7dfa716990d7e579cfb9c6ffc123258e03a1450e993ade596d2ee90afcdd") + version("21-08-8-1", sha256="47d4dd2f391abcb856ecfddb51145c86ead89554f24efb586c59f0e38491ff36") + version("20-11-9-1", sha256="98d36f3487e95af610db305a3ee1c1a7d370a3e1efef9fabee8b0edb98a6604b") + # Due to CVE 2022-29500, CVE 2022-29501, and CVE 2022-29502, prior to 21.08.8 and + # 20.11.9 are deprecated + version( + "21-08-1-1", + sha256="23321719101762b055a6b1da6ff4261f5e6c469bce038c6c23549840453862e7", + deprecated=True, + ) + version( + "21-08-0-1", + sha256="c8caf9b5f715c02b6f9e55e9737ee7b99f93c5efc8dcc34c2ce40bed0aea5402", + deprecated=True, + ) + version( + "20-11-8-1", + sha256="1cafed56ae9d90387a5dc6092090c174e144a6e5a31330f748d1fd3a616ae92f", + deprecated=True, + ) + version( + "20-11-7-1", + sha256="7d92babd97d0b8750b8c25eced4507323aff32a9d85af3a644c1acedbddb9d2f", + deprecated=True, + ) + version( + "20-02-7-1", + sha256="060acf966af53e75c7eaae83c4f42abdcc60702838c2dcd35cb01468b45a68a1", + deprecated=True, + ) + # Due to CVE-2021-31215, all versions prior to 20.11.7 or 20.02.7 are deprecated. + version( + "20-11-5-1", + sha256="d0634c6c6cc79bde38d19f0ef0de0de3b07907830f5e45be6f4a9ca4259f8f67", + deprecated=True, + ) + version( + "20-11-4-1", + sha256="06c5333e85f531730bf1c6eb48a8d48a551d9090540ce37b78181024273fb6bd", + deprecated=True, + ) + version( + "20-11-0-1", + sha256="404f72c287c5aad887a5b141304e4962548c12f79b04fc9c88550bc024604228", + deprecated=True, + ) + version( + "20-02-4-1", + sha256="d32a39df20a99430973de6692870269f38443d8b963c32b4d6475c9d5e92cd73", + deprecated=True, + ) + version( + "19-05-6-1", + sha256="1b83bce4260af06d644253b1f2ec2979b80b4418c631e9c9f48c2729ae2c95ba", + deprecated=True, + ) + version( + "19-05-5-1", + sha256="e53e67bd0bb4c37a9c481998764a746467a96bc41d6527569080514f36452c07", + deprecated=True, + ) + version( + "18-08-9-1", + sha256="32eb0b612ca18ade1e35c3c9d3b4d71aba2b857446841606a9e54d0a417c3b03", + deprecated=True, + ) + version( + "18-08-0-1", + sha256="62129d0f2949bc8a68ef86fe6f12e0715cbbf42f05b8da6ef7c3e7e7240b50d9", + deprecated=True, + ) + version( + "17-11-9-2", + sha256="6e34328ed68262e776f524f59cca79ac75bcd18030951d45ea545a7ba4c45906", + deprecated=True, + ) + version( + "17-02-6-1", + sha256="97b3a3639106bd6d44988ed018e2657f3d640a3d5c105413d05b4721bc8ee25e", + deprecated=True, + ) + + depends_on("c", type="build") # generated + + variant("gtk", default=False, description="Enable GTK+ support") + variant("mariadb", default=False, description="Use MariaDB instead of MySQL") + + variant("hwloc", default=False, description="Enable hwloc support") + variant("hdf5", default=False, description="Enable hdf5 support") + variant("readline", default=True, description="Enable readline support") + variant("pmix", default=False, description="Enable PMIx support") + variant( + "sysconfdir", + default="PREFIX/etc", + values=any, + description="Set system configuration path (possibly /etc/slurm)", + ) + variant("restd", default=False, description="Enable the slurmrestd server") + variant("nvml", default=False, description="Enable NVML autodetection") + variant("cgroup", default=False, description="Enable cgroup plugin") + variant("pam", default=False, description="Enable PAM support") + variant("rsmi", default=False, description="Enable ROCm SMI support") + + # TODO: add variant for BG/Q and Cray support + + # TODO: add support for checkpoint/restart (BLCR) + + # TODO: add support for lua + + depends_on("curl") + depends_on("glib") + depends_on("json-c") + depends_on("lz4") + depends_on("munge") + depends_on("openssl") + depends_on("pkgconfig", type="build") + depends_on("readline", when="+readline") + depends_on("zlib-api") + + depends_on("gtkplus", when="+gtk") + depends_on("hdf5", when="+hdf5") + depends_on("hwloc", when="+hwloc") + depends_on("mariadb", when="+mariadb") + depends_on("pmix@:4.2.99", when="+pmix") + + depends_on("http-parser", when="+restd") + depends_on("libyaml", when="+restd") + depends_on("libjwt", when="+restd") + + depends_on("cuda", when="+nvml") + depends_on("dbus", when="+cgroup") + depends_on("linux-pam", when="+pam") + depends_on("rocm-smi-lib", when="+rsmi") + + executables = ["^srun$", "^salloc$"] + + @classmethod + def determine_version(cls, exe): + output = Executable(exe)("--version", output=str).rstrip() + match = re.search(r"slurm\s*([0-9.]+)", output) + return match.group(1) if match else None + + def flag_handler(self, name, flags): + wrapper_flags = None + + if name == "cflags": + if self.spec.satisfies("@:20-02-1 %gcc@10:"): + wrapper_flags = ["-fcommon"] + + return (wrapper_flags, None, flags) + + def configure_args(self): + spec = self.spec + + args = [ + "--with-libcurl={0}".format(spec["curl"].prefix), + "--with-json={0}".format(spec["json-c"].prefix), + "--with-lz4={0}".format(spec["lz4"].prefix), + "--with-munge={0}".format(spec["munge"].prefix), + "--with-ssl={0}".format(spec["openssl"].prefix), + "--with-zlib={0}".format(spec["zlib-api"].prefix), + ] + + if "~gtk" in spec: + args.append("--disable-gtktest") + + if "~readline" in spec: + args.append("--without-readline") + + if "+hdf5" in spec: + args.append("--with-hdf5={0}".format(spec["hdf5"].prefix.bin.h5cc)) + else: + args.append("--without-hdf5") + + if "+restd" in spec: + args.append("--enable-slurmrestd") + args.append("--with-http-parser={0}".format(spec["http-parser"].prefix)) + args.append("--with-jwt={0}".format(spec["libjwt"].prefix)) + else: + args.append("--disable-slurmrestd") + + if "+hwloc" in spec: + args.append("--with-hwloc={0}".format(spec["hwloc"].prefix)) + else: + args.append("--without-hwloc") + + if "+pmix" in spec: + args.append("--with-pmix={0}".format(spec["pmix"].prefix)) + else: + args.append("--without-pmix") + + if spec.satisfies("+nvml"): + args.append(f"--with-nvml={spec['cuda'].prefix}") + + if spec.satisfies("+pam"): + args.append(f"--with-pam_dir={spec['linux-pam'].prefix}") + + if spec.satisfies("+rsmi"): + args.append(f"--with-rsmi={spec['rocm-smi-lib'].prefix}") + + sysconfdir = spec.variants["sysconfdir"].value + if sysconfdir != "PREFIX/etc": + args.append("--sysconfdir={0}".format(sysconfdir)) + + return args + + def install(self, spec, prefix): + make("install") + make("-C", "contribs/pmi2", "install") diff --git a/repos/hpccf/packages/soci/package.py b/repos/forked/packages/soci/package.py similarity index 100% rename from repos/hpccf/packages/soci/package.py rename to repos/forked/packages/soci/package.py diff --git a/repos/forked/packages/stream/package.py b/repos/forked/packages/stream/package.py new file mode 100644 index 00000000..4477aba3 --- /dev/null +++ b/repos/forked/packages/stream/package.py @@ -0,0 +1,69 @@ +# Copyright 2013-2023 Lawrence Livermore National Security, LLC and other +# Spack Project Developers. See the top-level COPYRIGHT file for details. +# +# SPDX-License-Identifier: (Apache-2.0 OR MIT) + +from spack.package import * + + +class Stream(MakefilePackage): + """The STREAM benchmark is a simple synthetic benchmark program that + measures sustainable memory bandwidth (in MB/s) and the corresponding + computation rate for simple vector kernels.""" + + homepage = "https://www.cs.virginia.edu/stream/ref.html" + git = "https://github.com/jeffhammond/STREAM.git" + + version("5.10") + + variant("openmp", default=False, description="Build with OpenMP support") + + variant("stream_array_size", default="none", description="Size of work arrays in elements") + variant( + "ntimes", + default="none", + description='STREAM runs each kernel "NTIMES" times and reports the *best* result', + ) + variant("offset", default="none", description="Relative alignment between arrays") + variant( + "stream_type", + default="none", + values=("none", "float", "double", "int", "long"), + description="Datatype of arrays elements", + ) + + def edit(self, spec, prefix): + makefile = FileFilter("Makefile") + + # Use the Spack compiler wrappers + makefile.filter("CC = .*", "CC = {0}".format(spack_cc)) + makefile.filter("FC = .*", "FC = {0}".format(spack_f77)) + + cflags = "-O2 -mcmodel=large -fno-PIC" + fflags = "-O2 -mcmodel=large -fno-PIC" + if "+openmp" in self.spec: + cflags += " " + self.compiler.openmp_flag + fflags += " " + self.compiler.openmp_flag + if "%aocc" in self.spec: + cflags += " -mcmodel=large -ffp-contract=fast -fnt-store" + + if self.spec.variants["stream_array_size"].value != "none": + cflags += " -DSTREAM_ARRAY_SIZE={0}".format( + self.spec.variants["stream_array_size"].value + ) + if self.spec.variants["ntimes"].value != "none": + cflags += " -DNTIMES={0}".format(self.spec.variants["ntimes"].value) + if self.spec.variants["offset"].value != "none": + cflags += " -DOFFSET={0}".format(self.spec.variants["offset"].value) + if self.spec.variants["stream_type"].value != "none": + cflags += " -DSTREAM_TYPE={0}".format(self.spec.variants["stream_type"].value) + + # Set the appropriate flags for this compiler + makefile.filter("CFLAGS = .*", "CFLAGS = {0}".format(cflags)) + makefile.filter("FFLAGS = .*", "FFLAGS = {0}".format(fflags)) + + def install(self, spec, prefix): + # Manual installation + mkdir(prefix.bin) + install("stream_c.exe", prefix.bin) + install("stream_f.exe", prefix.bin) diff --git a/repos/forked/packages/userspace-rcu/examples.patch b/repos/forked/packages/userspace-rcu/examples.patch new file mode 100644 index 00000000..ef65ab4b --- /dev/null +++ b/repos/forked/packages/userspace-rcu/examples.patch @@ -0,0 +1,13 @@ +diff --git a/doc/examples/Makefile.am b/doc/examples/Makefile.am +index edf00eb..cd491df 100644 +--- a/doc/examples/Makefile.am ++++ b/doc/examples/Makefile.am +@@ -141,7 +141,7 @@ all-local: + else \ + rel_build_subdir="../"; \ + fi; \ +- $(MAKE) -f dist-files/Makefile CC="$(CC)" CPPFLAGS="$(CPPFLAGS)" AM_CPPFLAGS="$(AM_CPPFLAGS) -I"$${rel_src_subdir}/$(top_srcdir)/include/" -I"$${rel_src_subdir}/$(top_srcdir)/src/" -I"$${rel_build_subdir}$(top_builddir)/include/" -I"$${rel_build_subdir}$(top_builddir)/include/src/"" CFLAGS="$(CFLAGS)" AM_CFLAGS="$(AM_CFLAGS)" LDFLAGS="$(LDFLAGS)" AM_LDFLAGS="$(AM_LDFLAGS) -L../../../src/.libs/ -Wl,-rpath "$(PWD)/../../src/.libs/"" AM_V_P="$(AM_V_P)" AM_V_at="$(AM_V_at)" $(AM_MAKEFLAGS) all; ++ $(MAKE) -f dist-files/Makefile CC="$(CC)" CPPFLAGS="$(CPPFLAGS)" AM_CPPFLAGS="$(AM_CPPFLAGS) -I"$${rel_src_subdir}/$(top_srcdir)/include/" -I"$${rel_src_subdir}/$(top_srcdir)/src/" -I"$${rel_build_subdir}$(top_builddir)/include/" -I"$${rel_build_subdir}$(top_builddir)/include/src/"" CFLAGS="$(CFLAGS)" AM_CFLAGS="$(AM_CFLAGS)" LDFLAGS="$(LDFLAGS)" AM_LDFLAGS="$(AM_LDFLAGS) -L../../../src/.libs/ -Wl,-rpath="$(PWD)/../../src/.libs/"" AM_V_P="$(AM_V_P)" AM_V_at="$(AM_V_at)" $(AM_MAKEFLAGS) all; + + clean-local: + $(AM_V_at)$(MAKE) -f dist-files/Makefile $(AM_MAKEFLAGS) clean; \ diff --git a/repos/forked/packages/userspace-rcu/package.py b/repos/forked/packages/userspace-rcu/package.py new file mode 100644 index 00000000..99cfec2f --- /dev/null +++ b/repos/forked/packages/userspace-rcu/package.py @@ -0,0 +1,45 @@ +# Copyright 2013-2023 Lawrence Livermore National Security, LLC and other +# Spack Project Developers. See the top-level COPYRIGHT file for details. +# +# SPDX-License-Identifier: (Apache-2.0 OR MIT) + +from spack.package import * + + +class UserspaceRcu(AutotoolsPackage): + """liburcu is a LGPLv2.1 userspace RCU (read-copy-update) library. This + data synchronization library provides read-side access which scales + linearly with the number of cores.""" + + homepage = "https://liburcu.org/" + url = "https://github.com/urcu/userspace-rcu/archive/v0.11.1.tar.gz" + + version("0.13.1", sha256="b810481f0c859a5859d82e23eddd2856b410802009f94663d64c330dc2f4403e") + version("0.13.0", sha256="c457d17ec9dff7db0e90b103ef1a03737efdeaec13098af82f83a03091c835b5") + version("0.12.3", sha256="a61b5aca001f70cb576505cc4869bd74a758484343466cc49cb1342c67028a54") + version("0.12.2", sha256="d282169cdfa9fcc4cfbacab3757bb739debf4559a7f9ad537bb8b2061e98351a") + version("0.12.1", sha256="19f31563db5078f47cabbb06bd7a3935a0964e31449efedd267f311ae79443c6") + version("0.12.0", sha256="6b0cdee07a651c56daea8d03285f379afab898ebc83c785a23927320e45a3012") + version("0.11.4", sha256="d995598482221587ff6753d2a8da6ac74ff0fa79fbea29ccee196f295834531d") + version("0.11.3", sha256="fa7a3be0fe1bb000be0a5b28c5b33fdbc13d7cf5a4816b9bcbc60e2adf8ec8d5") + version("0.11.2", sha256="072da1b9cf864a4cb9f7b9bb6c208979682ce018cbd1ead0ee84e294e3035cbd") + version("0.11.1", sha256="a0ed8995edfbeac5f5eb2f152a8f3654040ecfc99a746bfe3da3bccf435b7d5d") + version("0.11.0", sha256="7834e4692565b491b9d2d258095d6c05089c9bae8a1bef280c338d15ba02e9ac") + version("0.10.2", sha256="e117c416fced894e24720cc1b38247074a13020f19d6704b38e554cbcb993d06") + version("0.9.6", sha256="4d9e4ca40c079e0b0e9f912a9092589b97fbaf80eb6537e9ae70d48c09472efa") + + depends_on("m4", type="build") + depends_on("autoconf", type="build") + depends_on("automake", type="build") + depends_on("libtool", type="build") + + patch( + "examples.patch", sha256="49aa8fa99d3a1315c639d2a90014079c34a7d0a6dde110b6cbb7b02f87324742" + ) + + # HPCCF: needs out of source build + build_directory = 'spack-build' + + def autoreconf(self, spec, prefix): + bash = which("bash") + bash("./bootstrap") diff --git a/repos/forked/packages/virtualgl/package.py b/repos/forked/packages/virtualgl/package.py new file mode 100644 index 00000000..a46c4dc1 --- /dev/null +++ b/repos/forked/packages/virtualgl/package.py @@ -0,0 +1,26 @@ +# Copyright 2013-2024 Lawrence Livermore National Security, LLC and other +# Spack Project Developers. See the top-level COPYRIGHT file for details. +# +# SPDX-License-Identifier: (Apache-2.0 OR MIT) + +from spack.package import * + + +class Virtualgl(CMakePackage): + """VirtualGL redirects 3D commands from a Unix/Linux OpenGL application + onto a server-side GPU and converts the rendered 3D images into a video + stream with which remote clients can interact to view and control the + 3D application in real time.""" + + homepage = "https://www.virtualgl.org/" + url = "https://github.com/VirtualGL/virtualgl/releases/download/3.1.1/VirtualGL-3.1.1.tar.gz" + + license("LGPL-2.1-or-later") + + version("3.1.1", sha256="1e4fd7a78f29d07a689f601a6f3db81e4f2ecf4e29baddf7e6dec0cfc90d7345") + version("2.5.2", sha256="4f43387678b289a24139c5b7c3699740ca555a9f10011c979e51aa4df2b93238") + + # This package will only work with libjpeg-turbo, not other jpeg providers + depends_on("libjpeg-turbo") + depends_on("libjpeg-turbo@3.0.4:", when="@3.1.1:") + depends_on("glu") diff --git 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a/repos/hpccf/packages/gcc/sys_ustat.h.patch b/repos/hpccf/deprecated/gcc/sys_ustat.h.patch similarity index 100% rename from repos/hpccf/packages/gcc/sys_ustat.h.patch rename to repos/hpccf/deprecated/gcc/sys_ustat.h.patch diff --git a/repos/hpccf/packages/gcc/ucontext_t-java.patch b/repos/hpccf/deprecated/gcc/ucontext_t-java.patch similarity index 100% rename from repos/hpccf/packages/gcc/ucontext_t-java.patch rename to repos/hpccf/deprecated/gcc/ucontext_t-java.patch diff --git a/repos/hpccf/packages/gcc/ucontext_t.patch b/repos/hpccf/deprecated/gcc/ucontext_t.patch similarity index 100% rename from repos/hpccf/packages/gcc/ucontext_t.patch rename to repos/hpccf/deprecated/gcc/ucontext_t.patch diff --git a/repos/hpccf/packages/gcc/zstd.patch b/repos/hpccf/deprecated/gcc/zstd.patch similarity index 100% rename from repos/hpccf/packages/gcc/zstd.patch rename to repos/hpccf/deprecated/gcc/zstd.patch diff --git a/repos/hpccf/deprecated/gdal/package.py b/repos/hpccf/deprecated/gdal/package.py index acf70e4c..7238815e 100644 --- a/repos/hpccf/deprecated/gdal/package.py +++ b/repos/hpccf/deprecated/gdal/package.py @@ -1,21 +1,20 @@ -# Copyright 2013-2022 Lawrence Livermore National Security, LLC and other +# Copyright 2013-2023 Lawrence Livermore National Security, LLC and other # Spack Project Developers. See the top-level COPYRIGHT file for details. # # SPDX-License-Identifier: (Apache-2.0 OR MIT) -# -# TODO: This is a backport! Remove when base spack is upgraded. -# - import os import sys +from spack.build_systems.autotools import AutotoolsBuilder +from spack.build_systems.cmake import CMakeBuilder from spack.package import * from spack.util.environment import filter_system_paths -class Gdal(CMakePackage): +class Gdal(CMakePackage, AutotoolsPackage, PythonExtension): """GDAL: Geospatial Data Abstraction Library. + GDAL is a translator library for raster and vector geospatial data formats that is released under an MIT style Open Source License by the Open Source Geospatial Foundation. As a library, it presents a single raster abstract data model and @@ -29,8 +28,12 @@ class Gdal(CMakePackage): list_url = "https://download.osgeo.org/gdal/" list_depth = 1 - maintainers = ["adamjstewart"] + #maintainers("adamjstewart") + version("3.6.2", sha256="35f40d2e08061b342513cdcddc2b997b3814ef8254514f0ef1e8bc7aa56cf681") + version("3.6.1", sha256="68f1c03547ff7152289789db7f67ee634167c9b7bfec4872b88406b236f9c230") + version("3.6.0", sha256="f7afa4aa8d32d0799e011a9f573c6a67e9471f78e70d3d0d0b45b45c8c0c1a94") + version("3.5.3", sha256="d32223ddf145aafbbaec5ccfa5dbc164147fb3348a3413057f9b1600bb5b3890") version("3.5.2", sha256="0874dfdeb9ac42e53c37be4184b19350be76f0530e1f4fa8004361635b9030c2") version("3.5.1", sha256="d12c30a9eacdeaab493c0d1c9f88eb337c9cbb5bb40744c751bdd5a5af166ab6") version("3.5.0", sha256="d49121e5348a51659807be4fb866aa840f8dbec4d1acba6d17fdefa72125bfc9") @@ -86,13 +89,18 @@ class Gdal(CMakePackage): default=False, description="Speed up computations related to the Thin Plate Spline transformer", ) - variant("arrow", default=False, when="@3.5:", description="Required for Arrow driver") + variant( + "arrow", default=False, when="build_system=cmake", description="Required for Arrow driver" + ) + variant( + "basisu", default=False, when="@3.6:", description="Required for BASISU and KTX2 drivers" + ) variant("blosc", default=False, when="@3.4:", description="Required for Zarr driver") - variant("brunsli", default=True, when="@3.4:", description="Required for MRF driver") + variant("brunsli", default=False, when="@3.4:", description="Required for MRF driver") variant("bsb", default=False, when="@:2", description="Required for BSB driver") variant("cfitsio", default=False, description="Required for FITS driver") variant("crnlib", default=False, description="Required for DDS driver") - variant("curl", default=False, description="Required for network access") + variant("curl", default=True, description="Required for network access") variant("cryptopp", default=False, when="@2.1:", description="Required for EEDAI driver") variant("deflate", default=False, when="@3.2:", description="Required for Deflate compression") variant("dods", default=False, when="@:3.4", description="Required for DODS driver") @@ -122,7 +130,7 @@ class Gdal(CMakePackage): variant("jxl", default=False, when="@3.4:", description="Required for JPEGXL driver") variant("kdu", default=False, description="Required for JP2KAK and JPIPKAK drivers") variant("kea", default=False, description="Required for KEA driver") - variant("lerc", default=True, when="@2.4:", description="Required for LERC compression") + variant("lerc", default=False, when="@2.4:", description="Required for LERC compression") variant("libcsf", default=False, description="Required for PCRaster driver") variant("libkml", default=False, description="Required for LIBKML driver") variant("liblzma", default=False, description="Required for Zarr driver") @@ -139,23 +147,41 @@ class Gdal(CMakePackage): "mrsid_lidar", default=False, when="@:3.4", description="Required for MrSID/MG4 driver" ) variant( - "mssql_ncli", default=False, when="@3.5:", description="Required for MSSQLSpatial driver" + "mssql_ncli", + default=False, + when="build_system=cmake", + description="Required for MSSQLSpatial driver", ) variant( - "mssql_odbc", default=False, when="@3.5:", description="Required for MSSQLSpatial driver" + "mssql_odbc", + default=False, + when="build_system=cmake", + description="Required for MSSQLSpatial driver", ) variant("mysql", default=False, description="Required for MySQL driver") variant("netcdf", default=False, description="Required for NetCDF driver") variant("odbc", default=False, description="Required for many OGR drivers") - variant("odbccpp", default=False, when="@3.5:", description="Required for SAP HANA driver") + variant( + "odbccpp", + default=False, + when="build_system=cmake", + description="Required for SAP HANA driver", + ) variant("ogdi", default=False, description="Required for OGDI driver") - variant("opencad", default=False, when="@3.5:", description="Required for CAD driver") + variant( + "opencad", default=False, when="build_system=cmake", description="Required for CAD driver" + ) variant("opencl", default=False, description="Required to accelerate warping computations") variant("openexr", default=False, when="@3.1:", description="Required for EXR driver") variant("openjpeg", default=False, description="Required for JP2OpenJPEG driver") variant("openssl", default=False, when="@2.3:", description="Required for EEDAI driver") variant("oracle", default=False, description="Required for OCI and GeoRaster drivers") - variant("parquet", default=False, when="@3.5:", description="Required for Parquet driver") + variant( + "parquet", + default=False, + when="build_system=cmake", + description="Required for Parquet driver", + ) variant("pcidsk", default=False, description="Required for PCIDSK driver") variant( "pcre", default=False, description="Required for REGEXP operator in drivers using SQLite3" @@ -169,9 +195,10 @@ class Gdal(CMakePackage): default=False, description="Required for PostgreSQL and PostGISRaster drivers", ) + variant("qb3", default=False, when="@3.6:", description="Required for MRF driver") variant( "qhull", - default=True, + default=False, when="@2.1:", description="Used for linear interpolation of gdal_grid", ) @@ -197,14 +224,25 @@ class Gdal(CMakePackage): # Language bindings variant("python", default=False, description="Build Python bindings") variant("java", default=False, description="Build Java bindings") - variant("csharp", default=False, when="@3.5:", description="Build C# bindings") + variant("csharp", default=False, when="build_system=cmake", description="Build C# bindings") variant("perl", default=False, when="@:3.4", description="Build Perl bindings") variant("php", default=False, when="@:2.3", description="Build PHP bindings") + # Build system + build_system( + conditional("cmake", when="@3.5:"), + conditional("autotools", when="@:3.5"), + default="cmake", + ) + + with when("build_system=cmake"): + depends_on("cmake@3.9:", type="build") + depends_on("ninja", type="build") + + with when("build_system=autotools"): + depends_on("gmake", type="build") + # Required dependencies - depends_on("cmake@3.9:", when="@3.5:", type="build") - depends_on("ninja", when="@3.5:", type="build") - depends_on("gmake", when="@:3.4", type="build") depends_on("pkgconfig@0.25:", type="build") depends_on("proj@6:", when="@3:") depends_on("proj@:6", when="@2.5:2") @@ -224,6 +262,7 @@ class Gdal(CMakePackage): depends_on("blas", when="+armadillo") depends_on("lapack", when="+armadillo") depends_on("arrow", when="+arrow") + # depends_on("basis-universal", when="+basisu") depends_on("c-blosc", when="+blosc") depends_on("brunsli", when="+brunsli") # depends_on('bsb', when='+bsb') @@ -297,6 +336,7 @@ class Gdal(CMakePackage): depends_on("poppler@:0.71", when="@:2.4 +poppler") depends_on("poppler@:21", when="@:3.4.1 +poppler") depends_on("postgresql", when="+postgresql") + depends_on("qb3", when="+qb3") depends_on("qhull", when="+qhull") depends_on("qhull@2015:", when="@3.5:+qhull") depends_on("qhull@:2020.1", when="@:3.3+qhull") @@ -306,7 +346,7 @@ class Gdal(CMakePackage): # depends_on('sde', when='+sde') depends_on("sfcgal", when="+sfcgal") depends_on("libspatialite", when="+spatialite") - depends_on("sqlite+rtree@3:", when="+sqlite3") + depends_on("sqlite@3:", when="+sqlite3") # depends_on('teigha', when='+teigha') # depends_on('tiledb', when='+tiledb') depends_on("libwebp", when="+webp") @@ -395,30 +435,12 @@ class Gdal(CMakePackage): sha256="9f9824296e75b34b3e78284ec772a5ac8f8ba92c17253ea9ca242caf766767ce", ) - generator = "Ninja" executables = ["^gdal-config$"] @classmethod def determine_version(cls, exe): return Executable(exe)("--version", output=str, error=str).rstrip() - @property - def import_modules(self): - modules = ["osgeo"] - if self.spec.satisfies("@3.3:"): - modules.append("osgeo_utils") - else: - modules.append("osgeo.utils") - return modules - - @when("@:3.4") - def setup_build_environment(self, env): - # Needed to install Python bindings to GDAL installation - # prefix instead of Python installation prefix. - # See swig/python/GNUmakefile for more details. - env.set("PREFIX", self.prefix) - env.set("DESTDIR", "/") - def setup_run_environment(self, env): if "+java" in self.spec: class_paths = find(self.prefix, "*.jar") @@ -440,6 +462,10 @@ def patch(self): if "+java platform=darwin" in self.spec: filter_file("linux", "darwin", "swig/java/java.opt", string=True) + +class CMakeBuilder(CMakeBuilder): + generator = "Ninja" + def cmake_args(self): # https://gdal.org/build_hints.html args = [ @@ -454,6 +480,7 @@ def cmake_args(self): # Optional dependencies self.define_from_variant("GDAL_USE_ARMADILLO", "armadillo"), self.define_from_variant("GDAL_USE_ARROW", "arrow"), + self.define_from_variant("GDAL_USE_BASISU", "basisu"), self.define_from_variant("GDAL_USE_BLOSC", "blosc"), self.define_from_variant("GDAL_USE_BRUNSLI", "brunsli"), self.define_from_variant("GDAL_USE_CFITSIO", "cfitsio"), @@ -508,6 +535,7 @@ def cmake_args(self): self.define_from_variant("GDAL_USE_PODOFO", "podofo"), self.define_from_variant("GDAL_USE_POPPLER", "poppler"), self.define_from_variant("GDAL_USE_POSTGRESQL", "postgresql"), + self.define_from_variant("GDAL_USE_LIBQB3", "qb3"), self.define_from_variant("GDAL_USE_QHULL", "qhull"), self.define_from_variant("GDAL_USE_RASDAMAN", "rasdaman"), self.define_from_variant("GDAL_USE_RASTERLITE2", "rasterlite2"), @@ -531,11 +559,20 @@ def cmake_args(self): return args + +class AutotoolsBuilder(AutotoolsBuilder): + def setup_build_environment(self, env): + # Needed to install Python bindings to GDAL installation + # prefix instead of Python installation prefix. + # See swig/python/GNUmakefile for more details. + env.set("PREFIX", self.prefix) + env.set("DESTDIR", "/") + def with_or_without(self, name, variant=None, package=None, attribute=None): if not variant: variant = name - if variant not in self.variants: + if variant not in self.pkg.variants: msg = '"{}" is not a variant of "{}"' raise KeyError(msg.format(variant, self.name)) @@ -687,49 +724,26 @@ def configure_args(self): return args - @when("@:3.4") - def cmake(self, spec, prefix): - configure(*self.configure_args()) - - @when("@:3.4") - def build(self, spec, prefix): + def build(self, pkg, spec, prefix): # https://trac.osgeo.org/gdal/wiki/GdalOgrInJavaBuildInstructionsUnix make() if "+java" in spec: with working_dir("swig/java"): make() - @when("@:3.4") def check(self): # no top-level test target if "+java" in self.spec: with working_dir("swig/java"): make("test") - @when("@:3.4") - def install(self, spec, prefix): + def install(self, pkg, spec, prefix): make("install") if "+java" in spec: with working_dir("swig/java"): make("install") install("*.jar", prefix) - @run_after("install") - def darwin_fix(self): # The shared library is not installed correctly on Darwin; fix this - if self.spec.satisfies("@:3.4 platform=darwin"): + if self.spec.satisfies("platform=darwin"): fix_darwin_install_name(self.prefix.lib) - - def test(self): - """Attempts to import modules of the installed package.""" - - if "+python" in self.spec: - # Make sure we are importing the installed modules, - # not the ones in the source directory - for module in self.import_modules: - self.run_test( - self.spec["python"].command.path, - ["-c", "import {0}".format(module)], - purpose="checking import of {0}".format(module), - work_dir="spack-test", - ) diff --git a/repos/hpccf/deprecated/gdal/package.py.GIT b/repos/hpccf/deprecated/gdal/package.py.GIT deleted file mode 100644 index 724e0a33..00000000 --- a/repos/hpccf/deprecated/gdal/package.py.GIT +++ /dev/null @@ -1,707 +0,0 @@ -# Copyright 2013-2022 Lawrence Livermore National Security, LLC and other -# Spack Project Developers. See the top-level COPYRIGHT file for details. -# -# SPDX-License-Identifier: (Apache-2.0 OR MIT) - -import os -import sys - -from spack.package import * -from spack.util.environment import filter_system_paths - - -class Gdal(CMakePackage): - """GDAL: Geospatial Data Abstraction Library. - - GDAL is a translator library for raster and vector geospatial data formats that - is released under an MIT style Open Source License by the Open Source Geospatial - Foundation. As a library, it presents a single raster abstract data model and - single vector abstract data model to the calling application for all supported - formats. It also comes with a variety of useful command line utilities for data - translation and processing. - """ - - homepage = "https://www.gdal.org/" - url = "https://download.osgeo.org/gdal/3.2.0/gdal-3.2.0.tar.xz" - list_url = "https://download.osgeo.org/gdal/" - list_depth = 1 - - maintainers = ['adamjstewart'] - - version('3.5.1', sha256='d12c30a9eacdeaab493c0d1c9f88eb337c9cbb5bb40744c751bdd5a5af166ab6') - version('3.5.0', sha256='d49121e5348a51659807be4fb866aa840f8dbec4d1acba6d17fdefa72125bfc9') - version('3.4.3', sha256='02a27b35899e1c4c3bcb6007da900128ddd7e8ab7cd6ccfecf338a301eadad5a') - version('3.4.2', sha256='16baf03dfccf9e3f72bb2e15cd2d5b3f4be0437cdff8a785bceab0c7be557335') - version('3.4.1', sha256='332f053516ca45101ef0f7fa96309b64242688a8024780a5d93be0230e42173d') - version('3.4.0', sha256='ac7bd2bb9436f3fc38bc7309704672980f82d64b4d57627d27849259b8f71d5c') - version('3.3.3', sha256='1e8fc8b19c77238c7f4c27857d04857b65d8b7e8050d3aac256d70fa48a21e76') - version('3.3.2', sha256='630e34141cf398c3078d7d8f08bb44e804c65bbf09807b3610dcbfbc37115cc3') - version('3.3.1', sha256='48ab00b77d49f08cf66c60ccce55abb6455c3079f545e60c90ee7ce857bccb70') - version('3.3.0', sha256='190c8f4b56afc767f43836b2a5cd53cc52ee7fdc25eb78c6079c5a244e28efa7') - version('3.2.3', sha256='d9ec8458fe97fd02bf36379e7f63eaafce1005eeb60e329ed25bb2d2a17a796f') - version('3.2.2', sha256='a7e1e414e5c405af48982bf4724a3da64a05770254f2ce8affb5f58a7604ca57') - version('3.2.1', sha256='6c588b58fcb63ff3f288eb9f02d76791c0955ba9210d98c3abd879c770ae28ea') - version('3.2.0', sha256='b051f852600ffdf07e337a7f15673da23f9201a9dbb482bd513756a3e5a196a6') - version('3.1.4', sha256='7b82486f71c71cec61f9b237116212ce18ef6b90f068cbbf9f7de4fc50b576a8') - version('3.1.3', sha256='161cf55371a143826f1d76ce566db1f0a666496eeb4371aed78b1642f219d51d') - version('3.1.2', sha256='767c8d0dfa20ba3283de05d23a1d1c03a7e805d0ce2936beaff0bb7d11450641') - version('3.1.1', sha256='97154a606339a6c1d87c80fb354d7456fe49828b2ef9a3bc9ed91771a03d2a04') - version('3.1.0', sha256='e754a22242ccbec731aacdb2333b567d4c95b9b02d3ba1ea12f70508d244fcda') - version('3.0.4', sha256='5569a4daa1abcbba47a9d535172fc335194d9214fdb96cd0f139bb57329ae277') - version('3.0.3', sha256='e20add5802265159366f197a8bb354899e1693eab8dbba2208de14a457566109') - version('3.0.2', sha256='c3765371ce391715c8f28bd6defbc70b57aa43341f6e94605f04fe3c92468983') - version('3.0.1', sha256='45b4ae25dbd87282d589eca76481c426f72132d7a599556470d5c38263b09266') - version('3.0.0', sha256='ad316fa052d94d9606e90b20a514b92b2dd64e3142dfdbd8f10981a5fcd5c43e') - version('2.4.4', sha256='a383bd3cf555d6e1169666b01b5b3025b2722ed39e834f1b65090f604405dcd8') - version('2.4.3', sha256='d52dc3e0cff3af3e898d887c4151442989f416e839948e73f0994f0224bbff60') - version('2.4.2', sha256='dcc132e469c5eb76fa4aaff238d32e45a5d947dc5b6c801a123b70045b618e0c') - version('2.4.1', sha256='fd51b4900b2fc49b98d8714f55fc8a78ebfd07218357f93fb796791115a5a1ad') - version('2.4.0', sha256='c3791dcc6d37e59f6efa86e2df2a55a4485237b0a48e330ae08949f0cdf00f27') - version('2.3.3', sha256='c3635e41766a648f945d235b922e3c5306e26a2ee5bbd730d2181e242f5f46fe') - version('2.3.2', sha256='3f6d78fe8807d1d6afb7bed27394f19467840a82bc36d65e66316fa0aa9d32a4') - version('2.3.1', sha256='9c4625c45a3ee7e49a604ef221778983dd9fd8104922a87f20b99d9bedb7725a') - version('2.3.0', sha256='6f75e49aa30de140525ccb58688667efe3a2d770576feb7fbc91023b7f552aa2') - version('2.2.4', sha256='441eb1d1acb35238ca43a1a0a649493fc91fdcbab231d0747e9d462eea192278') - version('2.2.3', sha256='a328d63d476b3653f5a25b5f7971e87a15cdf8860ab0729d4b1157ba988b8d0b') - version('2.2.2', sha256='eb25d6ee85f4f5ac1d5581958f8c6eed9b1d50746f82866fe92e507541def35b') - version('2.2.1', sha256='927098d54083ac919a497f787b835b099e9a194f2e5444dbff901f7426b86066') - version('2.2.0', sha256='0d4c326862e0f118e17418c042c2bcd037b25abd3fb198e1fc5d40b11a9fc8ea') - version('2.1.4', sha256='e06a7ae4c4ed2fd678cd045ff50a10ff5002f3b81cdfcd8ab03c39ce962d9b63') - version('2.1.3', sha256='b489793627e6cb8d2ff8d7737b61daf58382fe189fae4c581ddfd48c04b49005') - version('2.1.2', sha256='b597f36bd29a2b4368998ddd32b28c8cdf3c8192237a81b99af83cc17d7fa374') - version('2.1.1', sha256='87ce516ce757ad1edf1e21f007fbe232ed2e932af422e9893f40199711c41f92') - version('2.1.0', sha256='568b43441955b306364fcf97fb47d4c1512ac6f2f5f76b2ec39a890d2418ee03') - version('2.0.3', sha256='3c6c5ade299c7a52fc9c5d2111110c97032e1f0c2593ce6091c364b1a43b442a') - version('2.0.2', sha256='90f838853cc1c07e55893483faa7e923e4b4b1659c6bc9df3538366030a7e622') - version('2.0.1', sha256='2564c91ed8ed36274ee31002a25798f5babc4221e879cb5013867733d80f9920') - version('2.0.0', sha256='91704fafeea2349c5e268dc1e2d03921b3aae64b05ee01d59fdfc1a6b0ffc061') - - # Optional dependencies - variant('armadillo', default=False, description='Speed up computations related to the Thin Plate Spline transformer') - variant('arrow', default=False, when='@3.5:', description='Required for Arrow driver') - variant('blosc', default=False, when='@3.4:', description='Required for Zarr driver') - variant('brunsli', default=True, when='@3.4:', description='Required for MRF driver') - variant('bsb', default=False, when='@:2', description='Required for BSB driver') - variant('cfitsio', default=False, description='Required for FITS driver') - variant('crnlib', default=False, description='Required for DDS driver') - variant('curl', default=False, description='Required for network access') - variant('cryptopp', default=False, when='@2.1:', description='Required for EEDAI driver') - variant('deflate', default=False, when='@3.2:', description='Required for Deflate compression') - variant('dods', default=False, when='@:3.4', description='Required for DODS driver') - variant('ecw', default=False, description='Required for ECW driver') - variant('epsilon', default=False, when='@:3.2', description='Required for EPSILON driver') - variant('expat', default=True, description='Required for XML parsing in many OGR drivers') - variant('filegdb', default=False, description='Required for FileGDB driver') - variant('fme', default=False, when='@:3.4', description='Required for FME driver') - variant('freexl', default=False, description='Required for XLS driver') - variant('fyba', default=False, description='Required for SOSI driver') - variant('geos', default=True, description='Required for geometry processing operations in OGR') - variant('gif', default=False, description='Required for GIF driver') - variant('grass', default=False, when='@:3.4', description='Required for GRASS driver') - variant('grib', default=False, when='@:2', description='Required for GRIB driver') - variant('gta', default=False, description='Required for GTA driver') - variant('heif', default=False, when='@3.2:', description='Required for HEIF driver') - variant('hdf4', default=False, description='Required for HDF4 driver') - variant('hdf5', default=False, description='Required for HDF5, BAG, and KEA drivers') - variant('hdfs', default=False, when='@2.4:', description='Required for Hadoop filesystem support') - variant('iconv', default=False, description='Required for text encoding conversion') - variant('idb', default=False, description='Required for IDB driver') - variant('ingres', default=False, when='@:3.4', description='Required for Ingres driver') - variant('jasper', default=False, when='@:3.4', description='Optional JPEG-200 library') - variant('jpeg', default=True, description='Required for JPEG driver') - variant('jxl', default=False, when='@3.4:', description='Required for JPEGXL driver') - variant('kdu', default=False, description='Required for JP2KAK and JPIPKAK drivers') - variant('kea', default=False, description='Required for KEA driver') - variant('lerc', default=True, when='@2.4:', description='Required for LERC compression') - variant('libcsf', default=False, description='Required for PCRaster driver') - variant('libkml', default=False, description='Required for LIBKML driver') - variant('liblzma', default=False, description='Required for Zarr driver') - variant('libxml2', default=False, description='Required for XML validation in many OGR drivers') - variant('luratech', default=False, when='@2.2:', description='Required for JP2Lura driver') - variant('lz4', default=False, when='@3.4:', description='Required for Zarr driver') - variant('mdb', default=False, when='@:3.4', description='Required for MDB driver') - variant('mongocxx', default=False, when='@2.1:', description='Required for MongoDBv3 driver') - variant('mrf', default=False, when='@2.1:2', description='Required for MRF driver') - variant('mrsid', default=False, description='Required for MrSID driver') - variant('mrsid_lidar', default=False, when='@:3.4', description='Required for MrSID/MG4 driver') - variant('mssql_ncli', default=False, when='@3.5:', description='Required for MSSQLSpatial driver') - variant('mssql_odbc', default=False, when='@3.5:', description='Required for MSSQLSpatial driver') - variant('mysql', default=False, description='Required for MySQL driver') - variant('netcdf', default=False, description='Required for NetCDF driver') - variant('odbc', default=False, description='Required for many OGR drivers') - variant('odbccpp', default=False, when='@3.5:', description='Required for SAP HANA driver') - variant('ogdi', default=False, description='Required for OGDI driver') - variant('opencad', default=False, when='@3.5:', description='Required for CAD driver') - variant('opencl', default=False, description='Required to accelerate warping computations') - variant('openexr', default=False, when='@3.1:', description='Required for EXR driver') - variant('openjpeg', default=False, description='Required for JP2OpenJPEG driver') - variant('openssl', default=False, when='@2.3:', description='Required for EEDAI driver') - variant('oracle', default=False, description='Required for OCI and GeoRaster drivers') - variant('parquet', default=False, when='@3.5:', description='Required for Parquet driver') - variant('pcidsk', default=False, description='Required for PCIDSK driver') - variant('pcre', default=False, description='Required for REGEXP operator in drivers using SQLite3') - variant('pdfium', default=False, when='@2.1:', description='Possible backend for PDF driver') - variant('png', default=True, description='Required for PNG driver') - variant('podofo', default=False, description='Possible backend for PDF driver') - variant('poppler', default=False, description='Possible backend for PDF driver') - variant('postgresql', default=False, description='Required for PostgreSQL and PostGISRaster drivers') - variant('qhull', default=True, when='@2.1:', description='Used for linear interpolation of gdal_grid') - variant('rasdaman', default=False, description='Required for Rasdaman driver') - variant('rasterlite2', default=False, when='@2.2:', description='Required for RasterLite2 driver') - variant('rdb', default=False, when='@3.1:', description='Required for RDB driver') - variant('sde', default=False, when='@:3.1', description='Required for SDE driver') - variant('sfcgal', default=False, when='@2.2:', description='Provides 3D geometry operations') - variant('spatialite', default=False, description='Required for SQLite and GPKG drivers') - variant('sqlite3', default=True, description='Required for SQLite and GPKG drivers') - variant('teigha', default=False, description='Required for DWG and DGNv8 drivers') - variant('tiledb', default=False, when='@3:', description='Required for TileDB driver') - variant('webp', default=False, description='Required for WEBP driver') - variant('xercesc', default=False, description='Required for XML parsing capabilities in many OGR drivers') - variant('zstd', default=False, when='@2.3:', description='Required for Zarr driver') - - # Language bindings - variant('python', default=False, description='Build Python bindings') - variant('java', default=False, description='Build Java bindings') - variant('csharp', default=False, when='@3.5:', description='Build C# bindings') - variant('perl', default=False, when='@:3.4', description='Build Perl bindings') - variant('php', default=False, when='@:2.3', description='Build PHP bindings') - - # Required dependencies - depends_on('cmake@3.9:', when='@3.5:', type='build') - depends_on('ninja', when='@3.5:', type='build') - depends_on('gmake', when='@:3.4', type='build') - depends_on('pkgconfig@0.25:', type='build') - depends_on('proj@6:', when='@3:') - depends_on('proj@:6', when='@2.5:2') - depends_on('proj@:5', when='@2.4') - depends_on('proj@:4', when='@:2.3') - depends_on('zlib') - depends_on('libtiff@4:', when='@3:') - depends_on('libtiff@3.6.0:') # 3.9.0+ needed to pass testsuite - depends_on('libgeotiff@1.5:', when='@3:') - depends_on('libgeotiff@1.2.1:1.5', when='@2.4.1:2') - depends_on('libgeotiff@1.2.1:1.4', when='@:2.4.0') - depends_on('json-c') - depends_on('json-c@0.12.1', when='@:2.2') - - # Optional dependencies - depends_on('armadillo', when='+armadillo') - depends_on('blas', when='+armadillo') - depends_on('lapack', when='+armadillo') - depends_on('arrow', when='+arrow') - depends_on('c-blosc', when='+blosc') - depends_on('brunsli', when='+brunsli') - # depends_on('bsb', when='+bdb') - depends_on('cfitsio', when='+cfitsio') - # depends_on('crunch', when='+crnlib') - depends_on('curl', when='+curl') - depends_on('cryptopp', when='+cryptopp') - depends_on('libdeflate', when='+deflate') - # depends_on('dods', when='+dods') - # depends_on('ecw', when='+ecw') - # depends_on('libepsilon', when='+epsilon') - depends_on('expat@1.95:', when='+expat') - # depends_on('filegdb', when='+filegdb') - # depends_on('fme', when='+fme') - depends_on('freexl', when='+freexl') - depends_on('fyba', when='+fyba') - depends_on('geos@3.1:', when='+geos') - depends_on('giflib', when='+gif') - depends_on('grass@5.7:', when='+grass') - depends_on('grib-api', when='+grib') - # depends_on('gta', when='+gta') - # depends_on('heif@1.1:', when='+heif') - depends_on('hdf', when='+hdf4') - depends_on('hdf5+cxx', when='+hdf5') - depends_on('hdf5@:1.12', when='@:3.4.1 +hdf5') - depends_on('hadoop', when='+hdfs') - depends_on('iconv', when='+iconv') - # depends_on('idb', when='+idb') - # depends_on('ingres', when='+ingres') - depends_on('jasper@1.900.1', patches=[patch('uuid.patch')], when='+jasper') - depends_on('jpeg', when='+jpeg') - # depends_on('libjxl', when='+jxl') - # depends_on('kakadu', when='+kdu') - depends_on('kealib', when='+kea') - depends_on('lerc', when='+lerc') - # depends_on('libcsf', when='+libcsf') - depends_on('libkml@1.3:', when='+libkml') - depends_on('xz', when='+liblzma') - depends_on('libxml2', when='+libxml2') - # depends_on('luratech', when='+luratech') - depends_on('lz4', when='+lz4') - depends_on('jackcess@1.2', type='run', when='+mdb') - depends_on('mongo-cxx-driver', when='+mongocxx') - # depends_on('bsoncxx', when='+mongocxx') - # depends_on('mrf', when='+mrf') - # depends_on('mrsid', when='+mrsid') - # depends_on('lizardtech-lidar', when='+mrsid_lidar') - # depends_on('mssql_ncli', when='+mssql_ncli') - # depends_on('mssql_odbc', when='+mssql_odbc') - depends_on('mysql', when='+mysql') - depends_on('netcdf-c', when='+netcdf') - depends_on('unixodbc', when='+odbc') - # depends_on('odbc-cpp-wrapper', when='+odbccpp') - # depends_on('ogdi', when='+ogdi') - # depends_on('lib-opencad', when='+opencad') - depends_on('opencl', when='+opencl') - depends_on('openexr@2.2:', when='+openexr') - depends_on('openjpeg', when='+openjpeg') - depends_on('openssl', when='+openssl') - depends_on('oracle-instant-client', when='+oracle') - depends_on('parquet-cpp', when='+parquet') - # depends_on('pcidsk', when='+pcidsk') - depends_on('pcre2', when='@3.5:+pcre') - depends_on('pcre', when='@:3.4+pcre') - # depends_on('pdfium', when='+pdfium') - depends_on('libpng', when='+png') - # depends_on('podofo', when='+podofo') - depends_on('poppler', when='+poppler') - depends_on('poppler@0.24:', when='@3: +poppler') - depends_on('poppler@:0.63', when='@:2.3 +poppler') - depends_on('poppler@:0.71', when='@:2.4 +poppler') - depends_on('poppler@:21', when='@:3.4.1 +poppler') - depends_on('postgresql', when='+postgresql') - depends_on('qhull', when='+qhull') - depends_on('qhull@2015:', when='@3.5:+qhull') - depends_on('qhull@:2020.1', when='@:3.3+qhull') - # depends_on('rasdaman', when='+rasdaman') - # depends_on('rasterlite2@1.1:', when='+rasterlite2') - # depends_on('rdblib', when='+rdb') - # depends_on('sde', when='+sde') - depends_on('sfcgal', when='+sfcgal') - depends_on('libspatialite', when='+spatialite') - depends_on('sqlite@3:', when='+sqlite3') - # depends_on('teigha', when='+teigha') - # depends_on('tiledb', when='+tiledb') - depends_on('libwebp', when='+webp') - depends_on('xerces-c@3.1:', when='+xercesc') - depends_on('zstd', when='+zstd') - - # Language bindings - # FIXME: Allow packages to extend multiple packages - # See https://github.com/spack/spack/issues/987 - extends('python', when='+python') - # extends('openjdk', when='+java') - # extends('perl', when='+perl') - - # see gdal_version_and_min_supported_python_version - # in swig/python/osgeo/__init__.py - depends_on('python@3.6:', type=('build', 'link', 'run'), when='@3.3:+python') - depends_on('python@2.0:', type=('build', 'link', 'run'), when='@3.2:+python') - depends_on('python', type=('build', 'link', 'run'), when='+python') - # swig/python/setup.py - depends_on('py-setuptools@:57', type='build', when='@:3.2+python') # needs 2to3 - depends_on('py-setuptools', type='build', when='+python') - depends_on('py-numpy@1.0.0:', type=('build', 'run'), when='+python') - depends_on('swig', type='build', when='+python') - depends_on('java@7:', type=('build', 'link', 'run'), when='@3.2:+java') - depends_on('java@6:', type=('build', 'link', 'run'), when='@2.4:+java') - depends_on('java@5:', type=('build', 'link', 'run'), when='@2.1:+java') - depends_on('java@4:', type=('build', 'link', 'run'), when='@:2.0+java') - depends_on('ant', type='build', when='+java') - depends_on('swig', type='build', when='+java') - depends_on('perl', type=('build', 'run'), when='+perl') - depends_on('swig', type='build', when='+perl') - depends_on('php', type=('build', 'link', 'run'), when='+php') - depends_on('swig', type='build', when='+php') - - # https://trac.osgeo.org/gdal/wiki/SupportedCompilers - msg = 'GDAL requires C++11 support' - conflicts('%gcc@:4.8.0', msg=msg) - conflicts('%clang@:3.2', msg=msg) - conflicts('%intel@:12', msg=msg) - conflicts('%xl@:13.0', msg=msg) - conflicts('%xl_r@:13.0', msg=msg) - - # https://github.com/OSGeo/gdal/issues/5994 - conflicts('~png', when='@3:3.5.0') - conflicts('~jpeg', when='@3:3.5.0') - # TODO: investigate build issues - conflicts('+brunsli', when='@3.4') - conflicts('+qhull', when='@2.1') - conflicts('+mdb', when='~java', msg='MDB driver requires Java') - - # TODO: add packages for the following dependencies - conflicts('+bsb') - conflicts('+crnlib') - conflicts('+dods') - conflicts('+ecw') - conflicts('+epsilon') - conflicts('+filegdb') - conflicts('+fme') - conflicts('+gta') - conflicts('+heif') - conflicts('+idb') - conflicts('+ingres') - conflicts('+jxl') - conflicts('+kdu') - conflicts('+libcsf') - conflicts('+luratech') - conflicts('+mrf') - conflicts('+mrsid') - conflicts('+mrsid_lidar') - conflicts('+mssql_ncli') - conflicts('+mssql_odbc') - conflicts('+odbccpp') - conflicts('+ogdi') - conflicts('+opencad') - conflicts('+pcidsk') - conflicts('+pdfium') - conflicts('+podofo') - conflicts('+rasdaman') - conflicts('+rasterlite2') - conflicts('+rdb') - conflicts('+sde') - conflicts('+teigha') - conflicts('+tiledb') - - # https://github.com/OSGeo/gdal/issues/3782 - patch('https://github.com/OSGeo/gdal/pull/3786.patch?full_index=1', when='@3.3.0', level=2, - sha256='9f9824296e75b34b3e78284ec772a5ac8f8ba92c17253ea9ca242caf766767ce') - - generator = 'Ninja' - executables = ['^gdal-config$'] - - @classmethod - def determine_version(cls, exe): - return Executable(exe)('--version', output=str, error=str).rstrip() - - @property - def import_modules(self): - modules = ['osgeo'] - if self.spec.satisfies('@3.3:'): - modules.append('osgeo_utils') - else: - modules.append('osgeo.utils') - return modules - - @when('@:3.4') - def setup_build_environment(self, env): - # Needed to install Python bindings to GDAL installation - # prefix instead of Python installation prefix. - # See swig/python/GNUmakefile for more details. - env.set('PREFIX', self.prefix) - env.set('DESTDIR', '/') - - def setup_run_environment(self, env): - if '+java' in self.spec: - class_paths = find(self.prefix, '*.jar') - classpath = os.pathsep.join(class_paths) - env.prepend_path('CLASSPATH', classpath) - - # `spack test run gdal+python` requires these for the Python bindings - # to find the correct libraries - libs = [] - for dep in self.spec.dependencies(deptype='link'): - query = self.spec[dep.name] - libs.extend(filter_system_paths(query.libs.directories)) - if sys.platform == 'darwin': - env.prepend_path('DYLD_FALLBACK_LIBRARY_PATH', ':'.join(libs)) - else: - env.prepend_path('LD_LIBRARY_PATH', ':'.join(libs)) - - def patch(self): - if '+java platform=darwin' in self.spec: - filter_file('linux', 'darwin', 'swig/java/java.opt', string=True) - - def cmake_args(self): - # https://gdal.org/build_hints.html - args = [ - # Only use Spack-installed dependencies - self.define('GDAL_USE_EXTERNAL_LIBS', False), - self.define('GDAL_USE_INTERNAL_LIBS', False), - - # Required dependencies - self.define('GDAL_USE_GEOTIFF', True), - self.define('GDAL_USE_JSONC', True), - self.define('GDAL_USE_TIFF', True), - self.define('GDAL_USE_ZLIB', True), - - # Optional dependencies - self.define_from_variant('GDAL_USE_ARMADILLO', 'armadillo'), - self.define_from_variant('GDAL_USE_ARROW', 'arrow'), - self.define_from_variant('GDAL_USE_BLOSC', 'blosc'), - self.define_from_variant('GDAL_USE_BRUNSLI', 'brunsli'), - self.define_from_variant('GDAL_USE_CFITSIO', 'cfitsio'), - self.define_from_variant('GDAL_USE_CRNLIB', 'crnlib'), - self.define_from_variant('GDAL_USE_CRYPTOPP', 'cryptopp'), - self.define_from_variant('GDAL_USE_CURL', 'curl'), - self.define_from_variant('GDAL_USE_DEFLATE', 'deflate'), - self.define_from_variant('GDAL_USE_ECW', 'ecw'), - self.define_from_variant('GDAL_USE_EXPAT', 'expat'), - self.define_from_variant('GDAL_USE_FILEGDB', 'filegdb'), - self.define_from_variant('GDAL_USE_FREEXL', 'freexl'), - self.define_from_variant('GDAL_USE_FYBA', 'fyba'), - self.define_from_variant('GDAL_USE_GEOS', 'geos'), - self.define_from_variant('GDAL_USE_GIF', 'gif'), - self.define_from_variant('GDAL_USE_GTA', 'gta'), - self.define_from_variant('GDAL_USE_HEIF', 'heif'), - self.define_from_variant('GDAL_USE_HDF4', 'hdf4'), - self.define_from_variant('GDAL_USE_HDF5', 'hdf5'), - self.define_from_variant('GDAL_USE_HDFS', 'hdfs'), - self.define_from_variant('GDAL_USE_ICONV', 'iconv'), - self.define_from_variant('GDAL_USE_IDB', 'idb'), - self.define_from_variant('GDAL_USE_JPEG', 'jpeg'), - self.define_from_variant('GDAL_USE_JXL', 'jxl'), - self.define_from_variant('GDAL_USE_KDU', 'kdu'), - self.define_from_variant('GDAL_USE_KEA', 'kea'), - self.define_from_variant('GDAL_USE_LERC', 'lerc'), - self.define_from_variant('GDAL_USE_LIBCSF', 'libcsf'), - self.define_from_variant('GDAL_USE_LIBKML', 'libkml'), - self.define_from_variant('GDAL_USE_LIBLZMA', 'liblzma'), - self.define_from_variant('GDAL_USE_LIBXML2', 'libxml2'), - self.define_from_variant('GDAL_USE_LURATECH', 'luratech'), - self.define_from_variant('GDAL_USE_LZ4', 'lz4'), - self.define_from_variant('GDAL_USE_MONGOCXX', 'mongocxx'), - self.define_from_variant('GDAL_USE_MRSID', 'mrsid'), - self.define_from_variant('GDAL_USE_MSSQL_NCLI', 'mssql_ncli'), - self.define_from_variant('GDAL_USE_MSSQL_ODBC', 'mssql_odbc'), - self.define_from_variant('GDAL_USE_MYSQL', 'mysql'), - self.define_from_variant('GDAL_USE_NETCDF', 'netcdf'), - self.define_from_variant('GDAL_USE_ODBC', 'odbc'), - self.define_from_variant('GDAL_USE_ODBCCPP', 'odbccpp'), - self.define_from_variant('GDAL_USE_OGDI', 'ogdi'), - self.define_from_variant('GDAL_USE_OPENCAD', 'opencad'), - self.define_from_variant('GDAL_USE_OPENCL', 'opencl'), - self.define_from_variant('GDAL_USE_OPENEXR', 'openexr'), - self.define_from_variant('GDAL_USE_OPENJPEG', 'openjpeg'), - self.define_from_variant('GDAL_USE_OPENSSL', 'openssl'), - self.define_from_variant('GDAL_USE_ORACLE', 'oracle'), - self.define_from_variant('GDAL_USE_PARQUET', 'parquet'), - self.define_from_variant('GDAL_USE_PCRE2', 'pcre'), - self.define_from_variant('GDAL_USE_PDFIUM', 'pdfium'), - self.define_from_variant('GDAL_USE_PNG', 'png'), - self.define_from_variant('GDAL_USE_PODOFO', 'podofo'), - self.define_from_variant('GDAL_USE_POPPLER', 'poppler'), - self.define_from_variant('GDAL_USE_POSTGRESQL', 'postgresql'), - self.define_from_variant('GDAL_USE_QHULL', 'qhull'), - self.define_from_variant('GDAL_USE_RASDAMAN', 'rasdaman'), - self.define_from_variant('GDAL_USE_RASTERLITE2', 'rasterlite2'), - self.define_from_variant('GDAL_USE_RDB', 'rdb'), - self.define_from_variant('GDAL_USE_SFCGAL', 'sfcgal'), - self.define_from_variant('GDAL_USE_SPATIALITE', 'spatialite'), - self.define_from_variant('GDAL_USE_SQLITE3', 'sqlite3'), - self.define_from_variant('GDAL_USE_TEIGHA', 'teigha'), - self.define_from_variant('GDAL_USE_TILEDB', 'tiledb'), - self.define_from_variant('GDAL_USE_WEBP', 'webp'), - self.define_from_variant('GDAL_USE_XERCESC', 'xercesc'), - self.define_from_variant('GDAL_USE_ZSTD', 'zstd'), - - # Language bindings - self.define_from_variant('BUILD_PYTHON_BINDINGS', 'python'), - self.define_from_variant('BUILD_JAVA_BINDINGS', 'java'), - self.define_from_variant('BUILD_CSHARP_BINDINGS', 'csharp'), - ] - - # Remove empty strings - args = [arg for arg in args if arg] - - return args - - def with_or_without(self, name, variant=None, package=None, attribute=None): - if not variant: - variant = name - - if variant not in self.variants: - msg = '"{}" is not a variant of "{}"' - raise KeyError(msg.format(variant, self.name)) - - if variant not in self.spec.variants: - return '' - - if self.spec.variants[variant].value: - if package: - value = self.spec[package].prefix - if attribute == 'command': - value = self.spec[package].command.path - elif attribute == 'libs': - value = self.spec[package].libs.directories[0] - return '--with-{}={}'.format(name, value) - else: - return '--with-{}'.format(name) - else: - return '--without-{}'.format(name) - - def configure_args(self): - # https://trac.osgeo.org/gdal/wiki/BuildHints - args = [ - '--prefix={}'.format(self.prefix), - - # Required dependencies - '--with-geotiff={}'.format(self.spec['libgeotiff'].prefix), - '--with-libjson-c={}'.format(self.spec['json-c'].prefix), - '--with-libtiff={}'.format(self.spec['libtiff'].prefix), - '--with-libz={}'.format(self.spec['zlib'].prefix), - - # Optional dependencies - self.with_or_without('armadillo', package='armadillo'), - self.with_or_without('blosc', package='c-blosc'), - self.with_or_without('brunsli'), - self.with_or_without('bsb'), - self.with_or_without('cfitsio', package='cfitsio'), - self.with_or_without('dds', variant='crnlib', package='crunch'), - self.with_or_without('curl', package='curl', attribute='command'), - self.with_or_without('cryptopp', package='cryptopp'), - self.with_or_without('libdeflate', variant='deflate', package='libdeflate'), - self.with_or_without('dods-root', variant='dods', package='dods'), - self.with_or_without('ecw', package='ecw'), - self.with_or_without('epsilon', package='libepsilon'), - self.with_or_without('expat', package='expat'), - self.with_or_without('fgdb', variant='filegdb', package='filegdb'), - self.with_or_without('fme', package='fme'), - self.with_or_without('freexl', package='freexl'), - self.with_or_without('sosi', variant='fyba', package='fyba'), - self.with_or_without('geos', package='geos', attribute='command'), - self.with_or_without('gif', package='giflib'), - self.with_or_without('grass', package='grass'), - self.with_or_without('grib'), - self.with_or_without('libgrass', variant='grass'), - self.with_or_without('gta', package='gta'), - self.with_or_without('heif'), - self.with_or_without('hdf4', package='hdf'), - self.with_or_without('hdf5', package='hdf5'), - self.with_or_without('hdfs', package='hadoop'), - self.with_or_without('libiconv-prefix', variant='iconv', package='iconv'), - self.with_or_without('idb', package='idb'), - self.with_or_without('ingres', package='ingres'), - self.with_or_without('jasper', package='jasper'), - self.with_or_without('jpeg', package='jpeg'), - self.with_or_without('jxl'), - self.with_or_without('kakadu', variant='kdu'), - self.with_or_without('kea', package='kealib', attribute='command'), - self.with_or_without('lerc', package='lerc'), - self.with_or_without('pcraster', variant='libcsf', package='libcsf'), - self.with_or_without('libkml', package='libkml'), - self.with_or_without('liblzma'), - self.with_or_without('jp2lura', variant='luratech', package='luratech'), - self.with_or_without('lz4', package='lz4'), - self.with_or_without('mdb'), - self.with_or_without('mrf'), - self.with_or_without('mrsid', package='mrsid'), - self.with_or_without('mrsid_lidar', package='lizardtech-lidar'), - self.with_or_without('mysql', package='mysql', attribute='command'), - self.with_or_without('netcdf', package='netcdf-c'), - self.with_or_without('odbc', package='unixodbc'), - self.with_or_without('hana', variant='odbccpp', package='odbc-cpp-wrapper'), - self.with_or_without('ogdi', package='ogdi'), - self.with_or_without('opencl'), - self.with_or_without('exr', variant='openexr'), - self.with_or_without('openjpeg'), - self.with_or_without('crypto', variant='openssl', package='openssl'), - self.with_or_without( - 'oci', variant='oracle', package='oracle-instant-client' - ), - self.with_or_without('pcidsk', package='pcidsk'), - self.with_or_without('pcre'), - self.with_or_without('pdfium', package='pdfium'), - self.with_or_without('png', package='libpng'), - self.with_or_without('podofo', package='podofo'), - self.with_or_without('poppler', package='poppler'), - self.with_or_without('qhull'), - self.with_or_without('rasdaman', package='rasdaman'), - self.with_or_without('rasterlite2', package='rasterlite2'), - self.with_or_without('rdb', package='rdb'), - self.with_or_without('sde', package='sde'), - self.with_or_without('spatialite', package='libspatialite'), - self.with_or_without('sqlite3', package='sqlite'), - self.with_or_without('sfcgal', package='sfcgal', attribute='command'), - self.with_or_without('tiledb', package='tiledb'), - self.with_or_without('webp', package='libwebp'), - self.with_or_without('xerces', variant='xercesc', package='xerces-c'), - self.with_or_without('zstd', package='zstd'), - - # Language bindings - self.with_or_without('python', package='python', attribute='command'), - self.with_or_without('java', package='java'), - self.with_or_without( - 'jvm-lib', variant='mdb', package='java', attribute='libs' - ), - self.with_or_without('jvm-lib-add-rpath', variant='mdb'), - self.with_or_without('perl'), - self.with_or_without('php'), - ] - - # Renamed or modified flags - if self.spec.satisfies('@3:'): - args.extend([ - self.with_or_without('xml2', variant='libxml2'), - self.with_or_without('mongocxxv3', variant='mongocxx'), - self.with_or_without('pg', variant='postgresql'), - ]) - else: - args.extend([ - self.with_or_without( - 'xml2', variant='libxml2', package='libxlm2', attribute='command' - ), - self.with_or_without('mongocxx', variant='mongocxx'), - self.with_or_without( - 'pg', variant='postgresql', - package='postgresql', attribute='command' - ), - ]) - - if self.spec.satisfies('@2.3:'): - args.append('--with-proj={}'.format(self.spec['proj'].prefix)) - - if self.spec.satisfies('@2.2:'): - args.append(self.with_or_without('teigha', package='teigha')) - else: - args.append( - self.with_or_without('dwgdirect', variant='teigha', package='teigha') - ) - - if '+hdf4' in self.spec: - hdf4 = self.spec['hdf'] - if '+external-xdr' in hdf4 and hdf4['rpc'].name != 'libc': - args.append('LIBS=' + hdf4['rpc'].libs.link_flags) - - # Remove empty strings - args = [arg for arg in args if arg] - - return args - - @when('@:3.4') - def cmake(self, spec, prefix): - configure(*self.configure_args()) - - @when('@:3.4') - def build(self, spec, prefix): - # https://trac.osgeo.org/gdal/wiki/GdalOgrInJavaBuildInstructionsUnix - make() - if '+java' in spec: - with working_dir('swig/java'): - make() - - @when('@:3.4') - def check(self): - # no top-level test target - if '+java' in self.spec: - with working_dir('swig/java'): - make('test') - - @when('@:3.4') - def install(self, spec, prefix): - make('install') - if '+java' in spec: - with working_dir('swig/java'): - make('install') - install('*.jar', prefix) - - @run_after('install') - def darwin_fix(self): - # The shared library is not installed correctly on Darwin; fix this - if self.spec.satisfies('@:3.4 platform=darwin'): - fix_darwin_install_name(self.prefix.lib) - - def test(self): - """Attempts to import modules of the installed package.""" - - if '+python' in self.spec: - # Make sure we are importing the installed modules, - # not the ones in the source directory - for module in self.import_modules: - self.run_test(self.spec['python'].command.path, - ['-c', 'import {0}'.format(module)], - purpose='checking import of {0}'.format(module), - work_dir='spack-test') diff --git a/repos/hpccf/deprecated/gdal/package.py.orig b/repos/hpccf/deprecated/gdal/package.py.orig deleted file mode 100644 index 6760125e..00000000 --- a/repos/hpccf/deprecated/gdal/package.py.orig +++ /dev/null @@ -1,606 +0,0 @@ -# Copyright 2013-2021 Lawrence Livermore National Security, LLC and other -# Spack Project Developers. See the top-level COPYRIGHT file for details. -# -# SPDX-License-Identifier: (Apache-2.0 OR MIT) - -import os -import sys - - -class Gdal(AutotoolsPackage): - """GDAL (Geospatial Data Abstraction Library) is a translator library for - raster and vector geospatial data formats that is released under an X/MIT - style Open Source license by the Open Source Geospatial Foundation. As a - library, it presents a single raster abstract data model and vector - abstract data model to the calling application for all supported formats. - It also comes with a variety of useful command line utilities for data - translation and processing. - """ - - homepage = "https://www.gdal.org/" - url = "https://download.osgeo.org/gdal/3.2.0/gdal-3.2.0.tar.xz" - list_url = "https://download.osgeo.org/gdal/" - list_depth = 1 - - maintainers = ['adamjstewart'] - - version('3.3.3', sha256='1e8fc8b19c77238c7f4c27857d04857b65d8b7e8050d3aac256d70fa48a21e76') - version('3.3.2', sha256='630e34141cf398c3078d7d8f08bb44e804c65bbf09807b3610dcbfbc37115cc3') - version('3.3.1', sha256='48ab00b77d49f08cf66c60ccce55abb6455c3079f545e60c90ee7ce857bccb70') - version('3.3.0', sha256='190c8f4b56afc767f43836b2a5cd53cc52ee7fdc25eb78c6079c5a244e28efa7') - version('3.2.3', sha256='d9ec8458fe97fd02bf36379e7f63eaafce1005eeb60e329ed25bb2d2a17a796f') - version('3.2.2', sha256='a7e1e414e5c405af48982bf4724a3da64a05770254f2ce8affb5f58a7604ca57') - version('3.2.1', sha256='6c588b58fcb63ff3f288eb9f02d76791c0955ba9210d98c3abd879c770ae28ea') - version('3.2.0', sha256='b051f852600ffdf07e337a7f15673da23f9201a9dbb482bd513756a3e5a196a6') - version('3.1.4', sha256='7b82486f71c71cec61f9b237116212ce18ef6b90f068cbbf9f7de4fc50b576a8') - version('3.1.3', sha256='161cf55371a143826f1d76ce566db1f0a666496eeb4371aed78b1642f219d51d') - version('3.1.2', sha256='767c8d0dfa20ba3283de05d23a1d1c03a7e805d0ce2936beaff0bb7d11450641') - version('3.1.1', sha256='97154a606339a6c1d87c80fb354d7456fe49828b2ef9a3bc9ed91771a03d2a04') - version('3.1.0', sha256='e754a22242ccbec731aacdb2333b567d4c95b9b02d3ba1ea12f70508d244fcda') - version('3.0.4', sha256='5569a4daa1abcbba47a9d535172fc335194d9214fdb96cd0f139bb57329ae277') - version('3.0.3', sha256='e20add5802265159366f197a8bb354899e1693eab8dbba2208de14a457566109') - version('3.0.2', sha256='c3765371ce391715c8f28bd6defbc70b57aa43341f6e94605f04fe3c92468983') - version('3.0.1', sha256='45b4ae25dbd87282d589eca76481c426f72132d7a599556470d5c38263b09266') - version('3.0.0', sha256='ad316fa052d94d9606e90b20a514b92b2dd64e3142dfdbd8f10981a5fcd5c43e') - version('2.4.4', sha256='a383bd3cf555d6e1169666b01b5b3025b2722ed39e834f1b65090f604405dcd8') - version('2.4.3', sha256='d52dc3e0cff3af3e898d887c4151442989f416e839948e73f0994f0224bbff60') - version('2.4.2', sha256='dcc132e469c5eb76fa4aaff238d32e45a5d947dc5b6c801a123b70045b618e0c') - version('2.4.1', sha256='fd51b4900b2fc49b98d8714f55fc8a78ebfd07218357f93fb796791115a5a1ad') - version('2.4.0', sha256='c3791dcc6d37e59f6efa86e2df2a55a4485237b0a48e330ae08949f0cdf00f27') - version('2.3.3', sha256='c3635e41766a648f945d235b922e3c5306e26a2ee5bbd730d2181e242f5f46fe') - version('2.3.2', sha256='3f6d78fe8807d1d6afb7bed27394f19467840a82bc36d65e66316fa0aa9d32a4') - version('2.3.1', sha256='9c4625c45a3ee7e49a604ef221778983dd9fd8104922a87f20b99d9bedb7725a') - version('2.3.0', sha256='6f75e49aa30de140525ccb58688667efe3a2d770576feb7fbc91023b7f552aa2') - version('2.1.2', sha256='b597f36bd29a2b4368998ddd32b28c8cdf3c8192237a81b99af83cc17d7fa374') - version('2.0.2', sha256='90f838853cc1c07e55893483faa7e923e4b4b1659c6bc9df3538366030a7e622') - version('1.11.5', sha256='d4fdc3e987b9926545f0a514b4328cd733f2208442f8d03bde630fe1f7eff042', deprecated=True) - - variant('libtool', default=True, description='Use libtool to build the library') - variant('libz', default=True, description='Include libz support') - variant('libiconv', default=False, description='Include libiconv support') - variant('liblzma', default=True, description='Include liblzma support') - variant('pg', default=False, description='Include PostgreSQL support') - variant('cfitsio', default=False, description='Include FITS support') - variant('png', default=False, description='Include PNG support') - variant('jpeg', default=True, description='Include JPEG support') - variant('gif', default=False, description='Include GIF support') - variant('sosi', default=False, description='Include SOSI support') - variant('hdf4', default=False, description='Include HDF4 support') - variant('hdf5', default=False, description='Include HDF5 support') - variant('kea', default=False, description='Include kealib') - variant('netcdf', default=False, description='Include netCDF support') - variant('jasper', default=False, description='Include JPEG-2000 support via JasPer library') - variant('openjpeg', default=False, description='Include JPEG-2000 support via OpenJPEG 2.x library') - variant('xerces', default=False, description='Use Xerces-C++ parser') - variant('expat', default=False, description='Use Expat XML parser') - variant('libkml', default=False, description='Use Google libkml') - variant('odbc', default=False, description='Include ODBC support') - variant('curl', default=False, description='Include curl') - variant('xml2', default=False, description='Include libxml2') - variant('sqlite3', default=False, description='Use SQLite 3 library') - variant('pcre', default=False, description='Include libpcre support') - variant('geos', default=False, description='Include GEOS support') - variant('qhull', default=False, description='Include QHull support') - variant('opencl', default=False, description='Include OpenCL (GPU) support') - variant('poppler', default=False, description='Include poppler (for PDF) support') - variant('proj', default=True, description='Compile with PROJ.x') - variant('perl', default=False, description='Enable perl bindings') - variant('python', default=False, description='Enable python bindings') - variant('java', default=False, description='Include Java support') - variant('mdb', default=False, description='Include MDB driver') - variant('armadillo', default=False, description='Include Armadillo support for faster TPS transform computation') - variant('cryptopp', default=False, description='Include cryptopp support') - variant('crypto', default=False, description='Include crypto (from openssl) support') - variant('grib', default=False, description='Include GRIB support') - - # FIXME: Allow packages to extend multiple packages - # See https://github.com/spack/spack/issues/987 - # extends('jdk', when='+java') - # extends('perl', when='+perl') - extends('python', when='+python') - - # GDAL depends on GNUmake on Unix platforms. - # https://trac.osgeo.org/gdal/wiki/BuildingOnUnix - depends_on('gmake', type='build') - depends_on('pkgconfig@0.25:', type='build') - - # Required dependencies - depends_on('libtiff@3.6.0:') # 3.9.0+ needed to pass testsuite - depends_on('libgeotiff@1.2.1:1.4', when='@:2.4.0') - depends_on('libgeotiff@1.2.1:1.5', when='@2.4.1:2.4') - depends_on('libgeotiff@1.5:', when='@3.0.0:') - depends_on('json-c') - depends_on('json-c@0.12.1', when='@:2.2') - - # Optional dependencies - depends_on('libtool', type='build', when='+libtool') - depends_on('zlib', when='+libz') - depends_on('iconv', when='+libiconv') - depends_on('xz', when='+liblzma') - depends_on('postgresql', when='+pg') - depends_on('cfitsio', when='+cfitsio') - depends_on('libpng', when='+png') - depends_on('jpeg', when='+jpeg') - depends_on('giflib', when='+gif') - depends_on('fyba', when='+sosi') - depends_on('hdf', when='+hdf4') - depends_on('hdf5', when='+hdf5') - depends_on('kealib', when='+kea @2:') - depends_on('netcdf-c', when='+netcdf') - depends_on('jasper@1.900.1', patches=[patch('uuid.patch')], when='+jasper') - depends_on('openjpeg', when='+openjpeg') - depends_on('xerces-c', when='+xerces') - depends_on('expat', when='+expat') - depends_on('libkml@1.3.0:', when='+libkml') - depends_on('unixodbc', when='+odbc') - depends_on('curl@7.10.8:', when='+curl') - depends_on('libxml2', when='+xml2') - depends_on('sqlite@3:', when='+sqlite3') - depends_on('pcre', when='+pcre') - depends_on('geos', when='+geos') - depends_on('qhull', when='+qhull @2.1:') - depends_on('opencl', when='+opencl') - depends_on('poppler', when='+poppler') - depends_on('poppler@:0.63', when='@:2.3 +poppler') - depends_on('poppler@:0.71', when='@:2.4 +poppler') - depends_on('poppler@0.24:', when='@3: +poppler') - depends_on('proj@:4', when='+proj @2.3.0:2.3') - depends_on('proj@:5', when='+proj @2.4.0:2.4') - depends_on('proj@:6', when='+proj @2.5:2') - depends_on('proj@6:', when='+proj @3:') - depends_on('perl', type=('build', 'run'), when='+perl') - # see gdal_version_and_min_supported_python_version - # in swig/python/osgeo/__init__.py - depends_on('python@3.6:', type=('build', 'link', 'run'), when='@3.3:+python') - depends_on('python@2.0:', type=('build', 'link', 'run'), when='@3.2:+python') - depends_on('python', type=('build', 'link', 'run'), when='+python') - # swig/python/setup.py - depends_on('py-setuptools', type='build', when='+python') - depends_on('py-numpy@1.0.0:', type=('build', 'run'), when='+python') - depends_on('java@7:', type=('build', 'link', 'run'), when='@3.2:+java') - depends_on('java@6:', type=('build', 'link', 'run'), when='@2.4:+java') - depends_on('java@5:', type=('build', 'link', 'run'), when='@2.1:+java') - depends_on('java@4:', type=('build', 'link', 'run'), when='@:2.0+java') - depends_on('ant', type='build', when='+java') - depends_on('swig', type='build', when='+java') - depends_on('jackcess@1.2.0:1.2', type='run', when='+mdb') - depends_on('armadillo', when='+armadillo') - depends_on('cryptopp', when='+cryptopp @2.1:') - depends_on('openssl', when='+crypto @2.3:') - - # https://trac.osgeo.org/gdal/wiki/SupportedCompilers - msg = 'GDAL requires C++11 support' - conflicts('%gcc@:4.8.0', msg=msg) - conflicts('%clang@:3.2', msg=msg) - conflicts('%intel@:12', msg=msg) - conflicts('%xl@:13.0', msg=msg) - conflicts('%xl_r@:13.0', msg=msg) - - conflicts('+mdb', when='~java', msg='MDB driver requires Java') - - conflicts('+jasper', when='@3.5:', msg='JPEG2000 driver removed in GDAL 3.5') - conflicts('+perl', when='@3.5:', msg='Perl bindings removed in GDAL 3.5') - - # https://github.com/OSGeo/gdal/issues/3782 - patch('https://github.com/OSGeo/gdal/pull/3786.patch', when='@3.3.0', level=2, - sha256='5e14c530289bfa1257277357baa8d485f852ea480152fb150d152c85af8d01f8') - - executables = ['^gdal-config$'] - - @classmethod - def determine_version(cls, exe): - return Executable(exe)('--version', output=str, error=str).rstrip() - - @property - def import_modules(self): - modules = ['osgeo'] - if self.spec.satisfies('@3.3:'): - modules.append('osgeo_utils') - else: - modules.append('osgeo.utils') - return modules - - def setup_build_environment(self, env): - # Needed to install Python bindings to GDAL installation - # prefix instead of Python installation prefix. - # See swig/python/GNUmakefile for more details. - env.set('PREFIX', self.prefix) - env.set('DESTDIR', '/') - - def setup_run_environment(self, env): - if '+java' in self.spec: - class_paths = find(self.prefix, '*.jar') - classpath = os.pathsep.join(class_paths) - env.prepend_path('CLASSPATH', classpath) - - # `spack test run gdal+python` requires these for the Python bindings - # to find the correct libraries - libs = [] - for dep in self.spec.dependencies(deptype='link'): - query = self.spec[dep.name] - libs.extend(query.libs.directories) - if sys.platform == 'darwin': - env.prepend_path('DYLD_FALLBACK_LIBRARY_PATH', ':'.join(libs)) - else: - env.prepend_path('LD_LIBRARY_PATH', ':'.join(libs)) - - def patch(self): - if '+java platform=darwin' in self.spec: - filter_file('linux', 'darwin', 'swig/java/java.opt', string=True) - - # https://trac.osgeo.org/gdal/wiki/BuildHints - def configure_args(self): - spec = self.spec - libs = [] - - # Required dependencies - args = [ - # https://trac.osgeo.org/gdal/wiki/TIFF - '--with-libtiff={0}'.format(spec['libtiff'].prefix), - '--with-geotiff={0}'.format(spec['libgeotiff'].prefix), - '--with-libjson-c={0}'.format(spec['json-c'].prefix), - ] - - # Optional dependencies - if spec.satisfies('@3:'): - args.extend([ - '--disable-driver-bsb', - '--disable-driver-mrf', - ]) - - if '+grib' in spec: - args.append('--enable-driver-grib') - else: - args.append('--disable-driver-grib') - else: - args.append('--with-bsb=no') - - if '+grib' in spec: - args.append('--with-grib=yes') - else: - args.append('--with-grib=no') - - if spec.satisfies('@2.3:'): - args.append('--with-mrf=no') - - if spec.satisfies('@2.3:'): - if '+proj' in spec: - args.append('--with-proj={0}'.format(spec['proj'].prefix)) - else: - args.append('--with-proj=no') - - if '+crypto' in spec: - args.append('--with-crypto={0}'.format(spec['openssl'].prefix)) - else: - args.append('--with-crypto=no') - - if spec.satisfies('@2.1:'): - if '+qhull' in spec: - args.append('--with-qhull=yes') - else: - args.append('--with-qhull=no') - - if '+cryptopp' in spec: - args.append('--with-cryptopp={0}'.format( - spec['cryptopp'].prefix)) - else: - args.append('--with-cryptopp=no') - - if spec.satisfies('@2:'): - if '+kea' in spec: - args.append('--with-kea={0}'.format( - join_path(spec['kealib'].prefix.bin, 'kea-config'))) - else: - args.append('--with-kea=no') - - if '+libtool' in spec: - args.append('--with-libtool=yes') - else: - args.append('--with-libtool=no') - - if '+libz' in spec: - args.append('--with-libz={0}'.format(spec['zlib'].prefix)) - else: - args.append('--with-libz=no') - - if '+libiconv' in spec: - args.append('--with-libiconv-prefix={0}'.format( - spec['iconv'].prefix)) - else: - args.append('--with-libiconv-prefix=no') - - if '+liblzma' in spec: - args.append('--with-liblzma=yes') - else: - args.append('--with-liblzma=no') - - if '+pg' in spec: - args.append('--with-pg={0}'.format( - spec['postgresql'].prefix.bin.pg_config)) - else: - args.append('--with-pg=no') - - if '+cfitsio' in spec: - args.append('--with-cfitsio={0}'.format(spec['cfitsio'].prefix)) - else: - args.append('--with-cfitsio=no') - - if '+png' in spec: - args.append('--with-png={0}'.format(spec['libpng'].prefix)) - else: - args.append('--with-png=no') - - if '+jpeg' in spec: - args.append('--with-jpeg={0}'.format(spec['jpeg'].prefix)) - else: - args.append('--with-jpeg=no') - - if '+gif' in spec: - args.append('--with-gif={0}'.format(spec['giflib'].prefix)) - else: - args.append('--with-gif=no') - - # https://trac.osgeo.org/gdal/wiki/SOSI - if '+sosi' in spec: - args.append('--with-sosi={0}'.format(spec['fyba'].prefix)) - else: - args.append('--with-sosi=no') - - # https://trac.osgeo.org/gdal/wiki/HDF - if '+hdf4' in spec: - args.append('--with-hdf4={0}'.format(spec['hdf'].prefix)) - hdf4 = self.spec['hdf'] - if '+external-xdr' in hdf4 and hdf4['rpc'].name != 'libc': - libs.append(hdf4['rpc'].libs.link_flags) - else: - args.append('--with-hdf4=no') - - if '+hdf5' in spec: - args.append('--with-hdf5={0}'.format(spec['hdf5'].prefix)) - else: - args.append('--with-hdf5=no') - - # https://trac.osgeo.org/gdal/wiki/NetCDF - if '+netcdf' in spec: - args.append('--with-netcdf={0}'.format(spec['netcdf-c'].prefix)) - else: - args.append('--with-netcdf=no') - - # https://trac.osgeo.org/gdal/wiki/JasPer - if '+jasper' in spec: - args.append('--with-jasper={0}'.format(spec['jasper'].prefix)) - else: - args.append('--with-jasper=no') - - if '+openjpeg' in spec: - args.append('--with-openjpeg=yes') - else: - args.append('--with-openjpeg=no') - - if '+xerces' in spec: - args.append('--with-xerces={0}'.format(spec['xerces-c'].prefix)) - else: - args.append('--with-xerces=no') - - if '+expat' in spec: - args.append('--with-expat={0}'.format(spec['expat'].prefix)) - else: - args.append('--with-expat=no') - - # https://trac.osgeo.org/gdal/wiki/LibKML - # https://gdal.org/drivers/vector/libkml.html - if '+libkml' in spec: - args.append('--with-libkml={0}'.format(spec['libkml'].prefix)) - else: - args.append('--with-libkml=no') - - if '+odbc' in spec: - args.append('--with-odbc={0}'.format(spec['unixodbc'].prefix)) - else: - args.append('--with-odbc=no') - - # https://trac.osgeo.org/gdal/wiki/LibCurl - if '+curl' in spec: - args.append('--with-curl={0}'.format( - join_path(spec['curl'].prefix.bin, 'curl-config'))) - else: - args.append('--with-curl=no') - - if '+xml2' in spec: - args.append('--with-xml2={0}'.format( - join_path(spec['libxml2'].prefix.bin, 'xml2-config'))) - else: - args.append('--with-xml2=no') - - # https://trac.osgeo.org/gdal/wiki/SQLite - if '+sqlite3' in spec: - args.append('--with-sqlite3={0}'.format(spec['sqlite'].prefix)) - else: - args.append('--with-sqlite3=no') - - if '+pcre' in spec: - args.append('--with-pcre={0}'.format(spec['pcre'].prefix)) - else: - args.append('--with-pcre=no') - - if '+geos' in spec: - args.append('--with-geos={0}'.format( - join_path(spec['geos'].prefix.bin, 'geos-config'))) - else: - args.append('--with-geos=no') - - if '+opencl' in spec: - args.append('--with-opencl={0}'.format(spec['opencl'].prefix)) - else: - args.append('--with-opencl=no') - - if '+poppler' in spec: - args.append('--with-poppler={0}'.format(spec['poppler'].prefix)) - else: - args.append('--with-poppler=no') - - if '+perl' in spec: - args.append('--with-perl=yes') - else: - args.append('--with-perl=no') - - if '+python' in spec: - args.append('--with-python={0}'.format( - spec['python'].command.path)) - else: - args.append('--with-python=no') - - # https://trac.osgeo.org/gdal/wiki/GdalOgrInJava - # https://trac.osgeo.org/gdal/wiki/GdalOgrInJavaBuildInstructionsUnix - if '+java' in spec: - args.extend([ - '--with-java={0}'.format(spec['java'].home), - '--with-jvm-lib={0}'.format( - spec['java'].libs.directories[0]), - '--with-jvm-lib-add-rpath' - ]) - else: - args.append('--with-java=no') - - # https://trac.osgeo.org/gdal/wiki/mdbtools - # http://www.gdal.org/drv_mdb.html - if '+mdb' in spec: - args.append('--with-mdb=yes') - else: - args.append('--with-mdb=no') - - if '+armadillo' in spec: - args.append('--with-armadillo={0}'.format( - spec['armadillo'].prefix)) - else: - args.append('--with-armadillo=no') - - # TODO: add packages for these dependencies - args.extend([ - # https://trac.osgeo.org/gdal/wiki/GRASS - '--with-grass=no', - '--with-libgrass=no', - '--with-pcraster=no', - '--with-dds=no', - '--with-gta=no', - '--with-pcidsk=no', - '--with-ogdi=no', - '--with-fme=no', - # https://trac.osgeo.org/gdal/wiki/FileGDB - '--with-fgdb=no', - # https://trac.osgeo.org/gdal/wiki/ECW - '--with-ecw=no', - # https://trac.osgeo.org/gdal/wiki/JP2KAK - '--with-kakadu=no', - # https://trac.osgeo.org/gdal/wiki/MrSID - '--with-mrsid=no', - '--with-jp2mrsid=no', - '--with-mrsid_lidar=no', - # https://trac.osgeo.org/gdal/wiki/MSG - '--with-msg=no', - # https://trac.osgeo.org/gdal/wiki/Oracle - '--with-oci=no', - '--with-mysql=no', - # https://trac.osgeo.org/gdal/wiki/Ingres - '--with-ingres=no', - '--with-dods-root=no', - '--with-spatialite=no', - '--with-idb=no', - '--with-webp=no', - '--with-freexl=no', - '--with-pam=no', - '--with-podofo=no', - '--with-rasdaman=no', - ]) - - # TODO: add packages for these dependencies (only for 3.2 and older) - if spec.satisfies('@:3.2'): - # https://trac.osgeo.org/gdal/wiki/Epsilon - args.append('--with-epsilon=no') - - # TODO: add packages for these dependencies (only for 3.1 and older) - if spec.satisfies('@:3.1'): - # https://trac.osgeo.org/gdal/wiki/ArcSDE - args.append('--with-sde=no') - - # TODO: add packages for these dependencies (only for 2.3 and older) - if spec.satisfies('@:2.3'): - args.append('--with-php=no') - - # TODO: add packages for these dependencies (only for 3.2 and newer) - if spec.satisfies('@3.2:'): - args.append('--with-heif=no') - - # TODO: add packages for these dependencies (only for 3.1 and newer) - if spec.satisfies('@3.1:'): - args.extend([ - '--with-exr=no', - '--with-rdb=no', - ]) - - # TODO: add packages for these dependencies (only for 3.0 and newer) - if spec.satisfies('@3.0:'): - args.extend([ - '--with-tiledb=no', - '--with-mongocxxv3=no', - ]) - - # TODO: add packages for these dependencies (only for 2.3 and newer) - if spec.satisfies('@2.3:'): - args.extend([ - '--with-jp2lura=no', - '--with-rasterlite2=no', - # https://trac.osgeo.org/gdal/wiki/DxfDwg - '--with-teigha=no', - '--with-sfcgal=no', - ]) - - # TODO: add packages for these dependencies (only for 2.1 and newer) - if spec.satisfies('@2.1:'): - args.extend([ - '--with-mongocxx=no', - '--with-pdfium=no', - ]) - - if libs: - args.append('LIBS=' + ' '.join(libs)) - - return args - - # https://trac.osgeo.org/gdal/wiki/GdalOgrInJavaBuildInstructionsUnix - def build(self, spec, prefix): - make() - if '+java' in spec: - with working_dir('swig/java'): - make() - - def check(self): - # no top-level test target - if '+java' in self.spec: - with working_dir('swig/java'): - make('test') - - def install(self, spec, prefix): - make('install') - if '+java' in spec: - with working_dir('swig/java'): - make('install') - install('*.jar', prefix) - - @run_after('install') - def darwin_fix(self): - # The shared library is not installed correctly on Darwin; fix this - if 'platform=darwin' in self.spec: - fix_darwin_install_name(self.prefix.lib) - - def test(self): - """Attempts to import modules of the installed package.""" - - if '+python' in self.spec: - # Make sure we are importing the installed modules, - # not the ones in the source directory - for module in self.import_modules: - self.run_test(self.spec['python'].command.path, - ['-c', 'import {0}'.format(module)], - purpose='checking import of {0}'.format(module), - work_dir='spack-test') diff --git a/repos/hpccf/packages/gdk-pixbuf/docbook-cdn.patch b/repos/hpccf/deprecated/gdk-pixbuf/docbook-cdn.patch similarity index 100% rename from repos/hpccf/packages/gdk-pixbuf/docbook-cdn.patch rename to repos/hpccf/deprecated/gdk-pixbuf/docbook-cdn.patch diff --git a/repos/hpccf/packages/gdk-pixbuf/package.py b/repos/hpccf/deprecated/gdk-pixbuf/package.py similarity index 100% rename from repos/hpccf/packages/gdk-pixbuf/package.py rename to repos/hpccf/deprecated/gdk-pixbuf/package.py diff --git a/repos/hpccf/deprecated/gdl/Always-build-antlr-as-shared-library.patch b/repos/hpccf/deprecated/gdl/Always-build-antlr-as-shared-library.patch deleted file mode 100644 index 408258c9..00000000 --- a/repos/hpccf/deprecated/gdl/Always-build-antlr-as-shared-library.patch +++ /dev/null @@ -1,27 +0,0 @@ -From: Ricardo Silva -Date: Wed, 3 Oct 2018 13:42:25 +0200 -Subject: [PATCH] Always build antlr as shared library - ---- - src/antlr/CMakeLists.txt | 8 ++------ - 1 file changed, 2 insertions(+), 6 deletions(-) - -diff --git a/src/antlr/CMakeLists.txt b/src/antlr/CMakeLists.txt -index 26a38e3..083e50d 100644 ---- a/src/antlr/CMakeLists.txt -+++ b/src/antlr/CMakeLists.txt -@@ -2,9 +2,5 @@ aux_source_directory(${CMAKE_CURRENT_SOURCE_DIR} ANTLRSOURCES) - list(REMOVE_ITEM ANTLRSOURCES ${CMAKE_CURRENT_SOURCE_DIR}/dll.cpp) - include_directories(${CMAKE_SOURCE_DIR} ${CMAKE_SOURCE_DIR}/src/antlr) - --if(PYTHON_MODULE) -- add_library(antlr SHARED ${ANTLRSOURCES}) -- install(TARGETS antlr DESTINATION ${CMAKE_INSTALL_PREFIX}/lib) --else(PYTHON_MODULE) -- add_library(antlr STATIC ${ANTLRSOURCES}) --endif(PYTHON_MODULE) -+add_library(antlr SHARED ${ANTLRSOURCES}) -+install(TARGETS antlr DESTINATION ${CMAKE_INSTALL_PREFIX}/lib) --- -1.8.3.1 - diff --git a/repos/hpccf/deprecated/gdl/create-shared-lib.patch b/repos/hpccf/deprecated/gdl/create-shared-lib.patch deleted file mode 100644 index 33277458..00000000 --- a/repos/hpccf/deprecated/gdl/create-shared-lib.patch +++ /dev/null @@ -1,94 +0,0 @@ -Author: Ole Streicher -Description: Create a shared library to link to gdl executable and Python extension - The library is called libgnudatalanguage.so to avoid confusion with the - libgdl from the GNOME project. -Forwarded: https://sourceforge.net/p/gnudatalanguage/patches/95/ ---- a/CMakeLists.txt -+++ b/CMakeLists.txt -@@ -963,9 +963,7 @@ - endif(WIN32 AND NOT CYGWIN) - endif(X11) - add_subdirectory(src) --if(NOT PYTHON_MODULE) -- add_subdirectory(testsuite) --endif(NOT PYTHON_MODULE) -+add_subdirectory(testsuite) - - install(FILES ${CMAKE_SOURCE_DIR}/AUTHORS ${CMAKE_SOURCE_DIR}/README DESTINATION ${CMAKE_INSTALL_PREFIX}/${GDL_DATA_DIR}) - install(FILES ${CMAKE_SOURCE_DIR}/doc/gdl.1 DESTINATION ${CMAKE_INSTALL_PREFIX}/share/man/man1) -@@ -975,14 +973,12 @@ - - # create a link src/gdl -> ${BUILD}/.../gdl - # for windows, just copy the file --if(NOT PYTHON_MODULE) - get_target_property(GDLLOCATION gdl LOCATION) - if(WIN32) - add_custom_target(copy_gdl ALL ${CMAKE_COMMAND} -E copy ${GDLLOCATION} ${CMAKE_SOURCE_DIR}/src/gdl DEPENDS gdl) - else(WIN32) - add_custom_target(symlink_gdl ALL ${CMAKE_COMMAND} -E create_symlink ${GDLLOCATION} ${CMAKE_SOURCE_DIR}/src/gdl DEPENDS gdl) - endif(WIN32) --endif(NOT PYTHON_MODULE) - - # display macro - macro(MODULE MOD NAME) ---- a/src/CMakeLists.txt -+++ b/src/CMakeLists.txt -@@ -271,23 +271,30 @@ - include_directories(${CMAKE_SOURCE_DIR} ${CMAKE_SOURCE_DIR}/src ${CMAKE_SOURCE_DIR}/src/antlr ${CMAKE_BINARY_DIR}) - link_directories(${LINK_DIRECTORIES}) - -+add_library(gnudatalanguage SHARED ${SOURCES}) -+SET_TARGET_PROPERTIES(gnudatalanguage PROPERTIES SOVERSION 0) - if(PYTHON_MODULE) #GDL.so -- set(SOURCES ${SOURCES} pythongdl.cpp) -- add_library(gdl SHARED ${SOURCES}) -- SET_TARGET_PROPERTIES(gdl PROPERTIES PREFIX "") -- SET_TARGET_PROPERTIES(gdl PROPERTIES OUTPUT_NAME GDL) -- SET_TARGET_PROPERTIES(gdl PROPERTIES NO_SONAME TRUE) --else(PYTHON_MODULE) #GDL.so -- set(SOURCES ${SOURCES} gdl.cpp) -- add_executable(gdl ${SOURCES}) -+ add_library(pythongdl SHARED pythongdl.cpp) -+ SET_TARGET_PROPERTIES(pythongdl PROPERTIES PREFIX "") -+ SET_TARGET_PROPERTIES(pythongdl PROPERTIES OUTPUT_NAME GDL) -+ SET_TARGET_PROPERTIES(pythongdl PROPERTIES NO_SONAME TRUE) -+ target_link_libraries(pythongdl gnudatalanguage) - endif(PYTHON_MODULE) -+add_executable(gdl gdl.cpp) -+target_link_libraries(gdl gnudatalanguage) -+if (OPENMP) -+ target_link_libraries(gdl -fopenmp) -+endif (OPENMP) -+if (READLINE) -+ target_link_libraries(gdl readline) -+endif (READLINE) - --add_dependencies(gdl antlr) # be sure that antlr is built before gdl --target_link_libraries(gdl antlr) # link antlr against gdl -+add_dependencies(gnudatalanguage antlr) # be sure that antlr is built before gdl -+target_link_libraries(gnudatalanguage antlr) # link antlr against gdl - if (MINGW) --target_link_libraries(gdl ws2_32) -+target_link_libraries(gnudatalanguage ws2_32) - endif (MINGW) --target_link_libraries(gdl ${LIBRARIES}) -+target_link_libraries(gnudatalanguage ${LIBRARIES}) - add_definitions(-DHAVE_CONFIG_H) - - if(PYTHON_MODULE) -@@ -302,11 +309,11 @@ - file( TO_CMAKE_PATH "${PYTHON_SITE_DIR}" PYTHON_SITE_DIR ) - string( REGEX REPLACE "^${PYTHON_PREFIX}/" "" - PYTHON_SITE_DIR "${PYTHON_SITE_DIR}") -- install(TARGETS gdl DESTINATION ${PYTHON_SITE_DIR}) --else(PYTHON_MODULE) -- install(TARGETS gdl DESTINATION ${CMAKE_INSTALL_PREFIX}/bin) -- set_target_properties(gdl PROPERTIES INSTALL_RPATH_USE_LINK_PATH TRUE) -+ install(TARGETS pythongdl DESTINATION ${PYTHON_SITE_DIR}) - endif(PYTHON_MODULE) -+install(TARGETS gdl DESTINATION bin) -+set_target_properties(gdl PROPERTIES INSTALL_RPATH_USE_LINK_PATH TRUE) -+install(TARGETS gnudatalanguage DESTINATION lib) - - install(DIRECTORY ${CMAKE_SOURCE_DIR}/src/pro/ DESTINATION ${CMAKE_INSTALL_PREFIX}/${GDL_DATA_DIR}/lib - PATTERN CVS EXCLUDE diff --git a/repos/hpccf/deprecated/gdl/package.py b/repos/hpccf/deprecated/gdl/package.py deleted file mode 100644 index 02c0c67c..00000000 --- a/repos/hpccf/deprecated/gdl/package.py +++ /dev/null @@ -1,155 +0,0 @@ -# Copyright 2013-2021 Lawrence Livermore National Security, LLC and other -# Spack Project Developers. See the top-level COPYRIGHT file for details. -# -# SPDX-License-Identifier: (Apache-2.0 OR MIT) -import os - -from spack.package import * - - -class Gdl(CMakePackage): - """A free and open-source IDL/PV-WAVE compiler. - - GNU Data Language (GDL) is a free/libre/open source incremental compiler - compatible with IDL and to some extent with PV-WAVE. - """ - - homepage = "https://github.com/gnudatalanguage/gdl" - url = "https://github.com/gnudatalanguage/gdl/archive/v0.9.9.tar.gz" - - version('0.9.9', sha256='ad5de3fec095a5c58b46338dcc7367d2565c093794ab1bbcf180bba1a712cf14') - version('0.9.8', sha256='0e22df7314feaf18a76ae39ee57eea2ac8c3633bc095acbc25e1e07277d7c98b') - - variant('graphicsmagick', - default=False, - description='Enable GraphicsMagick') - - variant('hdf4', default=False, description='Enable HDF4') - variant('hdf5', default=True, description='Enable HDF5') - variant('openmp', default=True, description='Enable OpenMP') - variant('proj', default=True, description='Enable LIBPROJ4') - #variant('embed_python', default=False, description='Ability to embed Python within GDL') - variant('python', default=False, description='Build the GDL Python module') - variant('wx', default=False, description='Enable WxWidgets') - variant('x11', default=False, description='Enable X11') - - extends('python', when='+python') - - depends_on('cmake@3:', type='build') - depends_on('graphicsmagick', when='+graphicsmagick') - depends_on('hdf', when='+hdf4') - depends_on('hdf5', when='+hdf5') - depends_on('libx11', when='+x11') - depends_on('plplot+wx', when='+wx@:5.11') - depends_on('plplot+wx+wxold', when='+wx@5.12:') - depends_on('plplot~wx', when='~wx') - # Too many dependencies to test if GDL supports PROJ.6, - # so restricting to old API - depends_on('proj@:5', when='+proj') - #depends_on('py-numpy', type=('build', 'run'), when='+embed_python') - #depends_on('python@2.7:2.8', type=('build', 'run'), when='+embed_python') - depends_on('wxwidgets', when='+wx') - - depends_on('eigen') - depends_on('fftw') - depends_on('gsl') - depends_on('jpeg') - depends_on('libice') - depends_on('libsm') - depends_on('libxinerama') - depends_on('libxxf86vm') - depends_on('netcdf-c') - depends_on('pslib') - depends_on('readline') - depends_on('libtirpc', type='link') - depends_on('libgeotiff', type='link') - - #conflicts('+python', when='~embed_python') - - # Building the Python module requires patches currently targetting 0.9.8 - # othwerwise asking for the Python module *only* builds the Python module - conflicts('+python', when='@:0.9.7,0.9.9:') - - # Allows building gdl as a shared library to in turn allow building - # both the executable and the Python module - #patch('https://sources.debian.org/data/main/g/gnudatalanguage/1.0.1-4/debian/patches/Create-a-shared-library.patch', - # sha256='b1b97fc8cecc2ca5b6522dade15f0060260932d0849a6df25f59fc9ff844c5c2', - patch('create-shared-lib.patch', - sha256='ee18503cac928a9378e57487ac4b24bd6104ae3b7a2bc7a236642e058c6bad06', - when='@0.9.8') - patch('Always-build-antlr-as-shared-library.patch', - sha256='f40c06e8a8f1977780787f58885590affd7e382007cb677d2fb4723aaadd415c', - when='@0.9.8') - - def cmake_args(self): - args = [] - - # GraphicsMagick covers the same features as ImageMagick and - # only version 6 of ImageMagick is supported (version 7 is packaged) - args += ['-DMAGICK=OFF'] - - if '+graphicsmagick' in self.spec: - args += ['-DGRAPHICSMAGICK=ON'] - else: - args += ['-DGRAPHICSMAGICK=OFF'] - - if '+hdf4' in self.spec: - args += ['-DHDF=ON'] - else: - args += ['-DHDF=OFF'] - - if '+hdf5' in self.spec: - args += ['-DHDF5=ON'] - else: - args += ['-DHDF5=OFF'] - - if '+openmp' in self.spec: - args += ['-DOPENMP=ON'] - else: - args += ['-DOPENMP=OFF'] - - if '+proj' in self.spec: - args += [ - '-DLIBPROJ4=ON', - '-DLIBPROJ4DIR={0}'.format(self.spec['proj'].prefix) - ] - else: - args += ['-DLIBPROJ4=OFF'] - - #if '+embed_python' in self.spec: - # args += ['-DPYTHON=ON'] - #else: - args += ['-DPYTHON=OFF'] - - if '+python' in self.spec: - args += ['-DPYTHON_MODULE=ON'] - else: - args += ['-DPYTHON_MODULE=OFF'] - - if '+wx' in self.spec: - args += ['-DWXWIDGETS=ON'] - else: - args += ['-DWXWIDGETS=OFF'] - - if '+x11' in self.spec: - args += ['-DX11=ON'] - else: - args += ['-DX11=OFF'] - - return args - - @run_after('install') - def post_install(self): - if '+python' in self.spec: - # gdl installs the python module into prefix/lib/site-python - # move it to the standard location - src = os.path.join( - self.spec.prefix.lib, - 'site-python') - dst = site_packages_dir - if os.path.isdir(src): - if not os.path.isdir(dst): - mkdirp(dst) - for f in os.listdir(src): - os.rename(os.path.join(src, f), - os.path.join(dst, f)) diff --git a/repos/hpccf/packages/giflib/bsd-head.patch b/repos/hpccf/deprecated/giflib/bsd-head.patch similarity index 100% rename from repos/hpccf/packages/giflib/bsd-head.patch rename to repos/hpccf/deprecated/giflib/bsd-head.patch diff --git a/repos/hpccf/packages/giflib/package.py b/repos/hpccf/deprecated/giflib/package.py similarity index 100% rename from repos/hpccf/packages/giflib/package.py rename to repos/hpccf/deprecated/giflib/package.py diff --git a/repos/hpccf/deprecated/libxml2/nvhpc-elfgcchack.patch b/repos/hpccf/deprecated/libxml2/nvhpc-elfgcchack.patch deleted file mode 100644 index 87806110..00000000 --- a/repos/hpccf/deprecated/libxml2/nvhpc-elfgcchack.patch +++ /dev/null @@ -1,11 +0,0 @@ ---- a/elfgcchack.h 2020-08-19 07:55:24.340192000 -0700 -+++ b/elfgcchack.h 2020-08-19 07:55:39.952437000 -0700 -@@ -9,7 +9,7 @@ - */ - - #ifdef IN_LIBXML --#ifdef __GNUC__ -+#if defined __GNUC__ && !defined __NVCOMPILER - #ifdef PIC - #ifdef __linux__ - #if (__GNUC__ == 3 && __GNUC_MINOR__ >= 3) || (__GNUC__ > 3) diff --git a/repos/hpccf/deprecated/libxml2/package.py b/repos/hpccf/deprecated/libxml2/package.py deleted file mode 100644 index dd3c825d..00000000 --- a/repos/hpccf/deprecated/libxml2/package.py +++ /dev/null @@ -1,158 +0,0 @@ -# Copyright 2013-2022 Lawrence Livermore National Security, LLC and other -# Spack Project Developers. See the top-level COPYRIGHT file for details. -# -# SPDX-License-Identifier: (Apache-2.0 OR MIT) -import llnl.util.filesystem as fs -import llnl.util.tty as tty - -from spack.package import * - - -class Libxml2(AutotoolsPackage): - """Libxml2 is the XML C parser and toolkit developed for the Gnome - project (but usable outside of the Gnome platform), it is free - software available under the MIT License.""" - - homepage = "http://xmlsoft.org" - url = "https://download.gnome.org/sources/libxml2/2.9/libxml2-2.9.13.tar.xz" - list_url = "https://gitlab.gnome.org/GNOME/libxml2/-/releases" - - def url_for_version(self, version): - if version >= Version("2.9.13"): - url = "https://download.gnome.org/sources/libxml2/{0}/libxml2-{1}.tar.xz" - return url.format(version.up_to(2), version) - return "http://xmlsoft.org/sources/libxml2-{0}.tar.gz".format(version) - - version("2.10.2", sha256="d240abe6da9c65cb1900dd9bf3a3501ccf88b3c2a1cb98317d03f272dda5b265") - version("2.10.1", sha256="21a9e13cc7c4717a6c36268d0924f92c3f67a1ece6b7ff9d588958a6db9fb9d8") - version("2.9.14", sha256="60d74a257d1ccec0475e749cba2f21559e48139efba6ff28224357c7c798dfee") - version("2.9.13", sha256="276130602d12fe484ecc03447ee5e759d0465558fbc9d6bd144e3745306ebf0e") - version("2.9.12", sha256="c8d6681e38c56f172892c85ddc0852e1fd4b53b4209e7f4ebf17f7e2eae71d92") - version("2.9.11", sha256="886f696d5d5b45d780b2880645edf9e0c62a4fd6841b853e824ada4e02b4d331") - version("2.9.10", sha256="aafee193ffb8fe0c82d4afef6ef91972cbaf5feea100edc2f262750611b4be1f") - version("2.9.9", sha256="94fb70890143e3c6549f265cee93ec064c80a84c42ad0f23e85ee1fd6540a871") - version("2.9.8", sha256="0b74e51595654f958148759cfef0993114ddccccbb6f31aee018f3558e8e2732") - version("2.9.4", sha256="ffb911191e509b966deb55de705387f14156e1a56b21824357cdf0053233633c") - version("2.9.2", sha256="5178c30b151d044aefb1b08bf54c3003a0ac55c59c866763997529d60770d5bc") - version("2.7.8", sha256="cda23bc9ebd26474ca8f3d67e7d1c4a1f1e7106364b690d822e009fdc3c417ec") - - variant("python", default=False, description="Enable Python support") - - depends_on("pkgconfig@0.9.0:", type="build") - depends_on("iconv") - depends_on("zlib") - depends_on("xz") - - # avoid cycle dependency for concretizer - depends_on("python+shared~libxml2", when="+python") - extends( - "python", - when="+python", - ignore=r"(bin.*$)|(include.*$)|(share.*$)|(lib/libxml2.*$)|" - "(lib/xml2.*$)|(lib/cmake.*$)", - ) - - # XML Conformance Test Suites - # See https://www.w3.org/XML/Test/ for information - resource( - name="xmlts", - url="https://www.w3.org/XML/Test/xmlts20080827.tar.gz", - sha256="96151685cec997e1f9f3387e3626d61e6284d4d6e66e0e440c209286c03e9cc7", - ) - - patch("nvhpc-elfgcchack.patch", when="@:2.9 %nvhpc") - - # Use NAN/INFINITY if available to avoid SIGFPE - # See https://gitlab.gnome.org/GNOME/libxml2/-/merge_requests/186 - patch( - "https://gitlab.gnome.org/GNOME/libxml2/-/commit/c9925454fd384a17c8c03d358c6778a552e9287b.patch", - sha256="3e06d42596b105839648070a5921157fe284b932289ffdbfa304ddc3457e5637", - when="@2.9.11:2.9.14", - ) - - @property - def command(self): - return Executable(self.prefix.bin.join("xml2-config")) - - @property - def headers(self): - include_dir = self.spec.prefix.include.libxml2 - hl = find_all_headers(include_dir) - hl.directories = [include_dir, self.spec.prefix.include] - return hl - - def configure_args(self): - spec = self.spec - - args = [ - "--with-lzma={0}".format(spec["xz"].prefix), - "--with-iconv={0}".format(spec["iconv"].prefix), - ] - - if "+python" in spec: - args.extend( - [ - "--with-python={0}".format(spec["python"].home), - "--with-python-install-dir={0}".format(python_platlib), - ] - ) - else: - args.append("--without-python") - - return args - - def patch(self): - # Remove flags not recognized by the NVIDIA compiler - if self.spec.satisfies("%nvhpc"): - filter_file( - "-pedantic -Wall -Wextra -Wshadow -Wpointer-arith " - "-Wcast-align -Wwrite-strings -Waggregate-return " - "-Wstrict-prototypes -Wmissing-prototypes " - "-Wnested-externs -Winline -Wredundant-decls", - "-Wall", - "configure", - ) - filter_file("-Wno-long-long -Wno-format-extra-args", "", "configure") - - @run_after("install") - @on_package_attributes(run_tests=True) - def import_module_test(self): - if "+python" in self.spec: - with working_dir("spack-test", create=True): - python("-c", "import libxml2") - - def test(self): - """Perform smoke tests on the installed package""" - # Start with what we already have post-install - tty.msg("test: Performing simple import test") - self.import_module_test() - - data_dir = self.test_suite.current_test_data_dir - - # Now run defined tests based on expected executables - dtd_path = data_dir.join("info.dtd") - test_filename = "test.xml" - exec_checks = { - "xml2-config": [("--version", [str(self.spec.version)], 0)], - "xmllint": [ - (["--auto", "-o", test_filename], [], 0), - ( - ["--postvalid", test_filename], - ["validity error", "no DTD found", "does not validate"], - 3, - ), - ( - ["--dtdvalid", dtd_path, test_filename], - ["validity error", "does not follow the DTD"], - 3, - ), - (["--dtdvalid", dtd_path, data_dir.join("info.xml")], [], 0), - ], - "xmlcatalog": [("--create", ["'], 0)], - } - for exe in exec_checks: - for options, expected, status in exec_checks[exe]: - self.run_test(exe, options, expected, status) - - # Perform some cleanup - fs.force_remove(test_filename) diff --git a/repos/hpccf/deprecated/libxml2/test/info.dtd b/repos/hpccf/deprecated/libxml2/test/info.dtd deleted file mode 100644 index aec2dbe7..00000000 --- a/repos/hpccf/deprecated/libxml2/test/info.dtd +++ /dev/null @@ -1,2 +0,0 @@ - - diff --git a/repos/hpccf/deprecated/libxml2/test/info.xml b/repos/hpccf/deprecated/libxml2/test/info.xml deleted file mode 100644 index 23803694..00000000 --- a/repos/hpccf/deprecated/libxml2/test/info.xml +++ /dev/null @@ -1,4 +0,0 @@ - - -abc - diff --git a/repos/hpccf/packages/muscle5/package.py b/repos/hpccf/deprecated/muscle5/package.py similarity index 100% rename from repos/hpccf/packages/muscle5/package.py rename to repos/hpccf/deprecated/muscle5/package.py diff --git a/repos/hpccf/packages/py-alphafold/package.py b/repos/hpccf/deprecated/py-alphafold/package.py similarity index 100% rename from repos/hpccf/packages/py-alphafold/package.py rename to repos/hpccf/deprecated/py-alphafold/package.py diff --git a/repos/hpccf/packages/py-isal/package.py b/repos/hpccf/deprecated/py-isal/package.py similarity index 100% rename from repos/hpccf/packages/py-isal/package.py rename to repos/hpccf/deprecated/py-isal/package.py diff --git a/repos/hpccf/deprecated/r-sf/package.py b/repos/hpccf/deprecated/r-sf/package.py deleted file mode 100644 index e92731c5..00000000 --- a/repos/hpccf/deprecated/r-sf/package.py +++ /dev/null @@ -1,42 +0,0 @@ -# Copyright 2013-2021 Lawrence Livermore National Security, LLC and other -# Spack Project Developers. See the top-level COPYRIGHT file for details. -# -# SPDX-License-Identifier: (Apache-2.0 OR MIT) - -from spack.package import * - - -class RSf(RPackage): - """Simple Features for R - - Support for simple features, a standardized way to encode spatial vector - data. Binds to 'GDAL' for reading and writing data, to 'GEOS' for - geometrical operations, and to 'PROJ' for projection conversions and datum - transformations. Optionally uses the 's2' package for spherical geometry - operations on geographic coordinates.""" - - homepage = "https://github.com/r-spatial/sf/" - url = "https://cloud.r-project.org/src/contrib/sf_0.5-5.tar.gz" - list_url = "https://cloud.r-project.org/src/contrib/Archive/sf" - - version('1.0-7', sha256='d0731fab9438d73a55af7232f0474b36f4b2a4e6d66adaa141632f4a60265453') - version('0.9-7', sha256='4acac2f78badf9d252da5bf377975f984927c14a56a72d9f83d285c0adadae9c') - version('0.7-7', sha256='d1780cb46a285b30c7cc41cae30af523fbc883733344e53f7291e2d045e150a4') - version('0.7-5', sha256='53ed0567f502216a116c4848f5a9262ca232810f82642df7b98e0541a2524868') - version('0.5-5', sha256='82ad31f98243b6982302fe245ee6e0d8d0546e5ff213ccc00ec3025dfec62229') - - depends_on('r@3.3.0:', type=('build', 'run')) - depends_on('r-classint@0.2-1:', type=('build', 'run')) - depends_on('r-classint@0.4-1:', when='@0.9-7:', type=('build', 'run')) - depends_on('r-dbi@0.8:', type=('build', 'run')) - depends_on('r-magrittr', type=('build', 'run')) - depends_on('r-units@0.6-0:', type=('build', 'run')) - depends_on('r-units@0.7-0:', when='@1.0-0:', type=('build', 'run')) # OW - depends_on('r-rcpp@0.12.18:', type=('build', 'run')) - depends_on('gdal@2.0.1:') - depends_on('geos@3.4.0:') - depends_on('proj@4.8.0:5', when='@:0.7-3') - depends_on('proj@4.8.0:6', when='@0.7-4:0.9') # OW - depends_on('proj@8.0.0:', when='@1.0:') # OW - depends_on('sqlite', when='@0.9-7') - depends_on('r-s2', when='@1.0-0:') # OW diff --git a/repos/hpccf/packages/allpaths-lg/configure.ac.patch b/repos/hpccf/packages/allpaths-lg/configure.ac.patch deleted file mode 100644 index 1aa008ae..00000000 --- a/repos/hpccf/packages/allpaths-lg/configure.ac.patch +++ /dev/null @@ -1,11 +0,0 @@ ---- a/configure.ac 2015-04-14 08:34:53.000000000 -0700 -+++ b/configure.ac 2023-04-05 13:10:55.501370316 -0700 -@@ -12,7 +12,7 @@ - AC_OPENMP - AC_OPENMP_CHECK - --CXXFLAGS="$CXXFLAGS -std=c++11 -Wextra -Wall -Wsign-promo -Woverloaded-virtual -Wendif-labels -Wno-unused -Wno-deprecated -Wno-long-long -Wno-parentheses -Wno-unused-parameter -fno-nonansi-builtins -mieee-fp -fno-strict-aliasing -iquote . -ggdb -DNDEBUG" -+CXXFLAGS="$CXXFLAGS -std=c++11 -Wextra -Wall -Wsign-promo -Woverloaded-virtual -Wendif-labels -Wno-unused -Wno-deprecated -Wno-long-long -Wno-parentheses -Wno-unused-parameter -fno-nonansi-builtins -fno-strict-aliasing -iquote . -ggdb -DNDEBUG" - - OS_RELEASE="`uname -r`" - AC_SUBST(CXXFLAGS) diff --git a/repos/hpccf/packages/allpaths-lg/package.py b/repos/hpccf/packages/allpaths-lg/package.py deleted file mode 100644 index bb728d97..00000000 --- a/repos/hpccf/packages/allpaths-lg/package.py +++ /dev/null @@ -1,29 +0,0 @@ -# Copyright 2013-2023 Lawrence Livermore National Security, LLC and other -# Spack Project Developers. See the top-level COPYRIGHT file for details. -# -# SPDX-License-Identifier: (Apache-2.0 OR MIT) - -from spack.package import * - - -class AllpathsLg(AutotoolsPackage): - """ALLPATHS-LG is our original short read assembler and it works on both - small and large (mammalian size) genomes.""" - - homepage = "https://www.broadinstitute.org/software/allpaths-lg/blog/" - url = "ftp://ftp.broadinstitute.org/pub/crd/ALLPATHS/Release-LG/latest_source_code/allpathslg-52488.tar.gz" - - version("52488", sha256="035b49cb21b871a6b111976757d7aee9c2513dd51af04678f33375e620998542") - - patch("configure.ac.patch") - - # compiles with gcc 4.7.0 to 4.9.4) - conflicts("%gcc@:4.6.4,5.1.0:") - conflicts("%cce") - conflicts("%apple-clang") - conflicts("%clang") - conflicts("%intel") - conflicts("%nag") - conflicts("%pgi") - conflicts("%xl") - conflicts("%xl_r") diff --git a/repos/hpccf/packages/awscli/package.py b/repos/hpccf/packages/awscli/package.py deleted file mode 100644 index c27c157c..00000000 --- a/repos/hpccf/packages/awscli/package.py +++ /dev/null @@ -1,31 +0,0 @@ -############################################################################## -# Copyright 2013-2022 Lawrence Livermore National Security, LLC and other -# Spack Project Developers. See the top-level COPYRIGHT file for details. -# -# SPDX-License-Identifier: (Apache-2.0 OR MIT) - -from spack.package import * - - -class Awscli(PythonPackage): - """This package provides a unified command line interface to - Amazon Web Services""" - - pypi = "awscli/awscli-1.16.308.tar.gz" - - version("1.16.308", sha256="3632fb1db2538128509a7b5e89f2a2c4ea3426bec139944247bddc4d79bf7603") - version("1.16.179", sha256="6a87114d1325358d000abe22b2103baae7b91f053ff245b9fde33cb0affb5e4f") - - depends_on("py-setuptools", type="build") - depends_on("py-botocore@1.13.44", when="@1.16.308", type=("build", "run")) - depends_on("py-botocore@1.12.169", when="@1.16.179", type=("build", "run")) - depends_on("py-docutils@0.10:0.15", type=("build", "run")) - depends_on("py-rsa@3.1.2:3.5.0", type=("build", "run")) - depends_on("py-s3transfer@0.2.0:0.2", type=("build", "run")) - depends_on("py-argparse@1.1:", when="^python@:2.7,3.0:3.1", type=("build", "run")) - depends_on("py-pyyaml@3.10:3.13", when="^python@:2.7,3.0:3.3", type=("build", "run")) - depends_on("py-pyyaml@3.10:5.2", when="^python@3.4:", type=("build", "run")) - depends_on("py-colorama@0.2.5:0.3.9", when="^python@:2.7,3.0:3.3", type=("build", "run")) - depends_on("py-colorama@0.2.5:0.4.1", when="^python@3.4:", type=("build", "run")) - depends_on("py-nose", type="test") - depends_on("py-mock@1.3.0:", type="test") diff --git a/repos/hpccf/packages/blat/package.py b/repos/hpccf/packages/blat/package.py deleted file mode 100644 index add2ebb0..00000000 --- a/repos/hpccf/packages/blat/package.py +++ /dev/null @@ -1,43 +0,0 @@ -# Copyright 2013-2022 Lawrence Livermore National Security, LLC and other -# Spack Project Developers. See the top-level COPYRIGHT file for details. -# -# SPDX-License-Identifier: (Apache-2.0 OR MIT) - -from spack.package import * - - -class Blat(Package): - """BLAT (BLAST-like alignment tool) is a pairwise sequence - alignment algorithm.""" - - homepage = "https://genome.ucsc.edu/FAQ/FAQblat.html" - url = "https://genome-test.gi.ucsc.edu/~kent/src/blatSrc35.zip" - maintainers = ["snehring"] - - version("37", sha256="88ee2b272d42ab77687c61d200b11f1d58443951069feb7e10226a2509f84cf2") - version("35", sha256="06d9bcf114ec4a4b21fef0540a0532556b6602322a5a2b33f159dc939ae53620") - - depends_on("libpng") - depends_on("libuuid", when="@37:") - depends_on("mysql-client", when="@37:") - depends_on("openssl@1.1.0l") - - @when("@37") - def patch(self): - filter_file(r",src\/hg\/", ",NOMATCHME", "inc/userApp.mk") - filter_file(r"^\s*L\+=.*\/libssl\.a", "L+=-lssl ", "inc/common.mk") - - def flag_handler(self, name, flags): - if self.spec.satisfies("@35") and name.lower() == "cflags": - flags.append("-fcommon") - return (flags, None, None) - - def setup_build_environment(self, env): - env.set("MACHTYPE", "x86_64") - env.set("SSLDIR", self.spec["openssl"].prefix.include) - env.set("SSL_DIR", self.spec["openssl"].prefix) - - def install(self, spec, prefix): - filter_file("CC=.*", "CC={0}".format(spack_cc), "inc/common.mk") - mkdirp(prefix.bin) - make("BINDIR=%s" % prefix.bin) diff --git a/repos/hpccf/packages/brunsli/package.py b/repos/hpccf/packages/brunsli/package.py deleted file mode 100644 index 9dc14cfa..00000000 --- a/repos/hpccf/packages/brunsli/package.py +++ /dev/null @@ -1,27 +0,0 @@ -# Copyright 2013-2022 Lawrence Livermore National Security, LLC and other -# Spack Project Developers. See the top-level COPYRIGHT file for details. -# -# SPDX-License-Identifier: (Apache-2.0 OR MIT) - -# -# TODO: This is a backport! Remove when base spack is upgraded. -# - -from spack.package import * - - -class Brunsli(CMakePackage): - """Brunsli is a lossless JPEG repacking library.""" - - homepage = "https://github.com/google/brunsli" - git = "https://github.com/google/brunsli.git" - - version("0.1", tag="v0.1", submodules=True) - - depends_on("cmake@3.1:", type="build") - - @property - def libs(self): - return find_libraries( - ["libbrunslidec-c", "libbrunslienc-c"], root=self.prefix, recursive=True - ) diff --git a/repos/hpccf/packages/bwa-mem2/__cpuidex.remove.patch b/repos/hpccf/packages/bwa-mem2/__cpuidex.remove.patch new file mode 100644 index 00000000..9929b48f --- /dev/null +++ b/repos/hpccf/packages/bwa-mem2/__cpuidex.remove.patch @@ -0,0 +1,24 @@ +--- a/src/runsimd.cpp 2021-03-16 22:38:02.000000000 -0700 ++++ b/src/runsimd.cpp 2023-07-20 13:15:11.802088828 -0700 +@@ -53,21 +53,6 @@ + #define SIMD_AVX512F 0x100 + #define SIMD_AVX512BW 0x200 + +-#ifndef _MSC_VER +-// adapted from https://github.com/01org/linux-sgx/blob/master/common/inc/internal/linux/cpuid_gnu.h +-void __cpuidex(int cpuid[4], int func_id, int subfunc_id) +-{ +-#if defined(__x86_64__) +- __asm__ volatile ("cpuid" +- : "=a" (cpuid[0]), "=b" (cpuid[1]), "=c" (cpuid[2]), "=d" (cpuid[3]) +- : "0" (func_id), "2" (subfunc_id)); +-#else // on 32bit, ebx can NOT be used as PIC code +- __asm__ volatile ("xchgl %%ebx, %1; cpuid; xchgl %%ebx, %1" +- : "=a" (cpuid[0]), "=r" (cpuid[1]), "=c" (cpuid[2]), "=d" (cpuid[3]) +- : "0" (func_id), "2" (subfunc_id)); +-#endif +-} +-#endif + + static int x86_simd(void) + { diff --git a/repos/hpccf/packages/bwa-mem2/package.py b/repos/hpccf/packages/bwa-mem2/package.py index 83b8d1ff..70917e56 100644 --- a/repos/hpccf/packages/bwa-mem2/package.py +++ b/repos/hpccf/packages/bwa-mem2/package.py @@ -20,8 +20,16 @@ class BwaMem2(MakefilePackage): depends_on("zlib") - with when("%intel"): - build_targets = ["CXX=icpc", "multi"] + patch("__cpuidex.remove.patch") + patch("stdcheaders.patch") + + conflicts("%gcc@8:") + + @property + def build_targets(self): + return ["CXX={0}".format(self.compiler.cxx), + "CC={0}".format(self.compiler.cc), + "multi"] def install(self, spec, prefix): mkdirp(prefix.bin) diff --git a/repos/hpccf/packages/bwa-mem2/stdcheaders.patch b/repos/hpccf/packages/bwa-mem2/stdcheaders.patch new file mode 100644 index 00000000..08c99087 --- /dev/null +++ b/repos/hpccf/packages/bwa-mem2/stdcheaders.patch @@ -0,0 +1,11 @@ +--- a/ext/safestringlib/makefile 2023-07-20 13:47:40.399657548 -0700 ++++ b/ext/safestringlib/makefile 2023-07-20 13:47:32.687730628 -0700 +@@ -1,7 +1,7 @@ + IDIR = include + MKDIR_P = mkdir -p + CC=gcc +-CFLAGS=-I$(IDIR) -fstack-protector-strong -fPIE -fPIC -O2 -D_FORTIFY_SOURCE=2 -Wformat -Wformat-security ++CFLAGS=-I$(IDIR) -fstack-protector-strong -fPIE -fPIC -O2 -D_FORTIFY_SOURCE=2 -Wformat -Wformat-security -DSTDC_HEADERS + LDFLAGS=-z noexecstack -z relo -z now + + ODIR=obj diff --git a/repos/hpccf/packages/censor-norb/package.py b/repos/hpccf/packages/censor-norb/package.py new file mode 100644 index 00000000..a0556224 --- /dev/null +++ b/repos/hpccf/packages/censor-norb/package.py @@ -0,0 +1,25 @@ +# Copyright 2013-2024 Lawrence Livermore National Security, LLC and other +# Spack Project Developers. See the top-level COPYRIGHT file for details. +# +# SPDX-License-Identifier: (Apache-2.0 OR MIT) + +from spack.package import * + + +class CensorNorb(AutotoolsPackage): + """censor compares and masks protein or nucleotide sequences.""" + + homepage = "https://www.girinst.org/downloads/software/censor/" + url = "https://www.girinst.org/downloads/software/censor/censor-norb-4.2.30.tar.gz" + + version("4.2.30", sha256="2a66902a859d819ddb69852dc6da2a12a88184f61dec6b45d223ebd0d0eeefe8") + + depends_on("ncbi-rmblastn", type=("build", "run")) + depends_on("perl-bioperl", type=("build", "run")) + depends_on("perl", type=("build", "run")) + + def setup_build_environment(self, env): + env.set("PERL", self.spec["perl"].command.path) + + def setup_run_environment(self, env): + env.prepend_path("PERL5LIB", self.spec["perl-bioperl"].prefix.lib.perl5) diff --git a/repos/hpccf/packages/circos/package.py b/repos/hpccf/packages/circos/package.py deleted file mode 100644 index bc7937ee..00000000 --- a/repos/hpccf/packages/circos/package.py +++ /dev/null @@ -1,43 +0,0 @@ -# Copyright 2013-2022 Lawrence Livermore National Security, LLC and other -# Spack Project Developers. See the top-level COPYRIGHT file for details. -# -# SPDX-License-Identifier: (Apache-2.0 OR MIT) - -from os import symlink - -from spack.package import * - - -class Circos(Package): - """Circos is a software package for visualizing data and information.""" - - homepage = "http://circos.ca/" - url = "http://circos.ca/distribution/circos-0.69-9.tgz" - - version("0.69-9", sha256="34d8d7ebebf3f553d62820f8f4a0a57814b610341f836b4740c46c3057f789d2") - - depends_on("perl", type="run") - depends_on("perl-clone", type="run") - depends_on("perl-config-general", type="run") - depends_on("perl-exporter-tiny", type="run") - depends_on("perl-font-ttf", type="run") - depends_on("perl-gd", type="run") - depends_on("perl-io-string", type="run") - depends_on("perl-list-moreutils", type="run") - depends_on("perl-math-round", type="run") - depends_on("perl-math-bezier", type="run") - depends_on("perl-math-vecstat", type="run") - depends_on("perl-params-validate", type="run") - depends_on("perl-readonly", type="run") - depends_on("perl-regexp-common", type="run") - depends_on("perl-set-intspan", type="run") - depends_on("perl-statistics-basic", type="run") - depends_on("perl-svg", type="run") - depends_on("perl-text-format", type="run") - - def install(self, spec, prefix): - basedir = prefix.lib.circos - install_tree(".", basedir) - - mkdirp(prefix.bin) - symlink(basedir.bin.circos, prefix.bin.circos) diff --git a/repos/hpccf/packages/coverm/package.py b/repos/hpccf/packages/coverm/package.py new file mode 100644 index 00000000..921f5558 --- /dev/null +++ b/repos/hpccf/packages/coverm/package.py @@ -0,0 +1,25 @@ +# Copyright 2013-2023 Lawrence Livermore National Security, LLC and other +# Spack Project Developers. See the top-level COPYRIGHT file for details. +# +# SPDX-License-Identifier: (Apache-2.0 OR MIT) + +from spack.package import * + + +class Coverm(Package): + + homepage = "https://github.com/wwood/CoverM" + url = "https://github.com/wwood/CoverM/archive/refs/tags/v0.6.1.tar.gz" + + version("0.6.1", sha256="b6211e6f89ef986691b910d7d7b4c6d1e9eb9beb64e4f71902178ed60d27f4e6") + + depends_on("rust") + depends_on("samtools @1.9:", type=("build", "link", "run")) + depends_on("minimap2 @2.0:", type=("build", "link", "run")) + depends_on("bwa-mem2 @2.2.1:", type=("build", "link", "run")) + depends_on("fastani @1.33:", type=("build", "link", "run")) + depends_on("dashing @0.4.0", type=("build", "link", "run")) + + def install(self, spec, prefix): + cargo = which("cargo") + cargo("install", "--root", prefix, "--path", ".") diff --git a/repos/hpccf/packages/crunch/package.py b/repos/hpccf/packages/crunch/package.py deleted file mode 100644 index b51cab42..00000000 --- a/repos/hpccf/packages/crunch/package.py +++ /dev/null @@ -1,28 +0,0 @@ -# Copyright 2013-2022 Lawrence Livermore National Security, LLC and other -# Spack Project Developers. See the top-level COPYRIGHT file for details. -# -# SPDX-License-Identifier: (Apache-2.0 OR MIT) - -# -# TODO: This is a backport! Remove when base spack is upgraded. -# - -from spack.package import * - - -class Crunch(CMakePackage): - """Advanced DXTc texture compression and transcoding library.""" - - homepage = "https://github.com/BinomialLLC/crunch" - # The original repo does not have any build system or installation instructions. This package - # was added primarily as a possible dependency of GDAL. The following fork was created by the - # maintainer of GDAL and includes several additional commits to add a CMake build system and - # fix compilation bugs. If these commits are ever merged into upstream, we can switch to that. - git = "https://github.com/rouault/crunch.git" - - # No stable releases since 2012 - version("master", branch="build_fixes") - - depends_on("cmake@3.5:", type="build") - - conflicts("platform=darwin") diff --git a/repos/hpccf/packages/dashing/package.py b/repos/hpccf/packages/dashing/package.py new file mode 100644 index 00000000..015cc42a --- /dev/null +++ b/repos/hpccf/packages/dashing/package.py @@ -0,0 +1,54 @@ +# Copyright 2013-2023 Lawrence Livermore National Security, LLC and other +# Spack Project Developers. See the top-level COPYRIGHT file for details. +# +# SPDX-License-Identifier: (Apache-2.0 OR MIT) + +from spack.package import * + +import shutil + + +class Dashing(MakefilePackage): + """dashing sketches and computes distances between fasta and fastq data.""" + + homepage = "https://github.com/dnbaker/dashing" + git = "https://github.com/dnbaker/dashing" + + maintainers("camillescott") + + version("1.0.3", + submodules=True, + commit="04edb794b85944e9f4a9abeaca19be2baa745d79") + + version("0.5.7b", + submodules=True, + commit="9de3dda38f2c212d7ce155c5596d737d78b54eaa") + + version("0.4.0", + submodules=True, + get_full_repo=True, + commit="c4f9c1353892161ce83f373ca6dd02febe353bb8") + + conflicts("%gcc@8:", when="@:1") + + build_targets = ["dashing"] + no_cache = True + + def edit(self, spec, prefix): + env['PREFIX'] = prefix + + def build(self, spec, prefix): + with when("@0.4.0"): + zstd_path = join_path("bonsai", "zstd") + shutil.rmtree(zstd_path, ignore_errors=True) + git = which("git") + git("clone", "--recursive", "--single-branch", "--branch", "dev", + "https://github.com/facebook/zstd", zstd_path) + with working_dir(zstd_path): + make("lib") + shutil.move(join_path(zstd_path, "lib", "libzstd.a"), "bonsai") + make() + + def install(self, spec, prefix): + make("PREFIX={0}".format(prefix), "install") + diff --git a/repos/hpccf/packages/dislin/package.py b/repos/hpccf/packages/dislin/package.py deleted file mode 100644 index cade5d0f..00000000 --- a/repos/hpccf/packages/dislin/package.py +++ /dev/null @@ -1,59 +0,0 @@ -# Copyright 2013-2022 Lawrence Livermore National Security, LLC and other -# Spack Project Developers. See the top-level COPYRIGHT file for details. -# -# SPDX-License-Identifier: (Apache-2.0 OR MIT) - -from spack.package import * - - -class Dislin(Package): - """DISLIN is a high level and easy to use graphics library for displaying - data as curves, bar graphs, pie charts, 3D-colour plots, surfaces, - contours and maps.""" - - homepage = "https://www.mps.mpg.de/dislin" - url = "https://www.dislin.de/downloads/linux/i586_64/dislin-11.5.linux.i586_64.tar.gz" - - version("11.5", sha256="344eade6b409aff41d463f1879d5dec1079ee13d3fccdd097fd7717a947c87dc") - version("11.0", sha256="13d28188924e0b0b803d72aa4b48be4067e98e890701b0aa6f54a11c7d34dd10", - url="ftp://ftp.gwdg.de/pub/grafik/dislin/linux/i586_64/dislin-11.0.linux.i586_64.tar.gz") - - depends_on("motif") - depends_on("gl") - depends_on("glx") - - @property - def libs(self): - query_parameters = self.spec.last_query.extra_parameters - query2libraries = { - tuple(): ["libdislin"], - ("d",): ["libdislin_d"], - ("c",): ["libdislnc"], - ("cd",): ["libdislnc_d"], - ("cxx",): ["libdiscpp"], - ("java",): ["libdisjava"], - } - - key = tuple(query_parameters) - libraries = query2libraries[key] - - return find_libraries(libraries, root=self.prefix, shared=True, recursive=True) - - def setup_build_environment(self, env): - env.set("DISLIN", self.prefix) - - def setup_run_environment(self, env): - env.set("DISLIN", self.prefix) - env.prepend_path("PATH", self.prefix) - env.prepend_path("LD_LIBRARY_PATH", self.prefix) - env.prepend_path("LD_LIBRARY_PATH", self.spec["motif"].prefix.lib) - env.prepend_path("LD_LIBRARY_PATH", self.spec["mesa"].prefix.lib) - - def setup_dependent_run_environment(self, env, dependent_spec): - env.prepend_path("LD_LIBRARY_PATH", self.prefix) - - def install(self, spec, prefix): - dislin_install = Executable("./INSTALL") - dislin_install() - with working_dir("examples"): - install("dislin_d.h", prefix) diff --git a/repos/hpccf/packages/distangsd/package.py b/repos/hpccf/packages/distangsd/package.py index 052f37ec..092b6dcd 100644 --- a/repos/hpccf/packages/distangsd/package.py +++ b/repos/hpccf/packages/distangsd/package.py @@ -1,4 +1,4 @@ -# Copyright 2013-2021 Lawrence Livermore National Security, LLC and other +# Copyright 2013-2024 Lawrence Livermore National Security, LLC and other # Spack Project Developers. See the top-level COPYRIGHT file for details. # # SPDX-License-Identifier: (Apache-2.0 OR MIT) @@ -30,7 +30,7 @@ class Distangsd(MakefilePackage): homepage = "https://github.com/lz398/distAngsd" git = "https://github.com/lz398/distAngsd.git" - maintainers = ['camillescott'] + maintainers('camillescott') version('main', branch='main') @@ -39,11 +39,11 @@ class Distangsd(MakefilePackage): depends_on('gsl') depends_on('lzma') depends_on('openssl') - + depends_on('libdeflate') def edit(self, spec, prefix): makefile = FileFilter('Makefile') - makefile.filter('-lgsl', '-lgsl -lgslcblas -lssl -lcrypto') + makefile.filter('-lgsl', '-lgsl -lgslcblas -lssl -lcrypto -ldeflate') @property def build_targets(self): @@ -51,7 +51,7 @@ def build_targets(self): return [ 'HTSSRC={0}'.format(spec['htslib'].prefix.lib), - 'EIGEN={0}'.format(spec['eigen'].prefix) + 'EIGEN={0}'.format(spec['eigen'].prefix.include) ] def build(self, spec, prefix): diff --git a/repos/hpccf/packages/gdal/package.py b/repos/hpccf/packages/gdal/package.py deleted file mode 100644 index 7238815e..00000000 --- a/repos/hpccf/packages/gdal/package.py +++ /dev/null @@ -1,749 +0,0 @@ -# Copyright 2013-2023 Lawrence Livermore National Security, LLC and other -# Spack Project Developers. See the top-level COPYRIGHT file for details. -# -# SPDX-License-Identifier: (Apache-2.0 OR MIT) - -import os -import sys - -from spack.build_systems.autotools import AutotoolsBuilder -from spack.build_systems.cmake import CMakeBuilder -from spack.package import * -from spack.util.environment import filter_system_paths - - -class Gdal(CMakePackage, AutotoolsPackage, PythonExtension): - """GDAL: Geospatial Data Abstraction Library. - - GDAL is a translator library for raster and vector geospatial data formats that - is released under an MIT style Open Source License by the Open Source Geospatial - Foundation. As a library, it presents a single raster abstract data model and - single vector abstract data model to the calling application for all supported - formats. It also comes with a variety of useful command line utilities for data - translation and processing. - """ - - homepage = "https://www.gdal.org/" - url = "https://download.osgeo.org/gdal/3.2.0/gdal-3.2.0.tar.xz" - list_url = "https://download.osgeo.org/gdal/" - list_depth = 1 - - #maintainers("adamjstewart") - - version("3.6.2", sha256="35f40d2e08061b342513cdcddc2b997b3814ef8254514f0ef1e8bc7aa56cf681") - version("3.6.1", sha256="68f1c03547ff7152289789db7f67ee634167c9b7bfec4872b88406b236f9c230") - version("3.6.0", sha256="f7afa4aa8d32d0799e011a9f573c6a67e9471f78e70d3d0d0b45b45c8c0c1a94") - version("3.5.3", sha256="d32223ddf145aafbbaec5ccfa5dbc164147fb3348a3413057f9b1600bb5b3890") - version("3.5.2", sha256="0874dfdeb9ac42e53c37be4184b19350be76f0530e1f4fa8004361635b9030c2") - version("3.5.1", sha256="d12c30a9eacdeaab493c0d1c9f88eb337c9cbb5bb40744c751bdd5a5af166ab6") - version("3.5.0", sha256="d49121e5348a51659807be4fb866aa840f8dbec4d1acba6d17fdefa72125bfc9") - version("3.4.3", sha256="02a27b35899e1c4c3bcb6007da900128ddd7e8ab7cd6ccfecf338a301eadad5a") - version("3.4.2", sha256="16baf03dfccf9e3f72bb2e15cd2d5b3f4be0437cdff8a785bceab0c7be557335") - version("3.4.1", sha256="332f053516ca45101ef0f7fa96309b64242688a8024780a5d93be0230e42173d") - version("3.4.0", sha256="ac7bd2bb9436f3fc38bc7309704672980f82d64b4d57627d27849259b8f71d5c") - version("3.3.3", sha256="1e8fc8b19c77238c7f4c27857d04857b65d8b7e8050d3aac256d70fa48a21e76") - version("3.3.2", sha256="630e34141cf398c3078d7d8f08bb44e804c65bbf09807b3610dcbfbc37115cc3") - version("3.3.1", sha256="48ab00b77d49f08cf66c60ccce55abb6455c3079f545e60c90ee7ce857bccb70") - version("3.3.0", sha256="190c8f4b56afc767f43836b2a5cd53cc52ee7fdc25eb78c6079c5a244e28efa7") - version("3.2.3", sha256="d9ec8458fe97fd02bf36379e7f63eaafce1005eeb60e329ed25bb2d2a17a796f") - version("3.2.2", sha256="a7e1e414e5c405af48982bf4724a3da64a05770254f2ce8affb5f58a7604ca57") - version("3.2.1", sha256="6c588b58fcb63ff3f288eb9f02d76791c0955ba9210d98c3abd879c770ae28ea") - version("3.2.0", sha256="b051f852600ffdf07e337a7f15673da23f9201a9dbb482bd513756a3e5a196a6") - 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version("2.2.1", sha256="927098d54083ac919a497f787b835b099e9a194f2e5444dbff901f7426b86066") - version("2.2.0", sha256="0d4c326862e0f118e17418c042c2bcd037b25abd3fb198e1fc5d40b11a9fc8ea") - version("2.1.4", sha256="e06a7ae4c4ed2fd678cd045ff50a10ff5002f3b81cdfcd8ab03c39ce962d9b63") - version("2.1.3", sha256="b489793627e6cb8d2ff8d7737b61daf58382fe189fae4c581ddfd48c04b49005") - version("2.1.2", sha256="b597f36bd29a2b4368998ddd32b28c8cdf3c8192237a81b99af83cc17d7fa374") - version("2.1.1", sha256="87ce516ce757ad1edf1e21f007fbe232ed2e932af422e9893f40199711c41f92") - version("2.1.0", sha256="568b43441955b306364fcf97fb47d4c1512ac6f2f5f76b2ec39a890d2418ee03") - version("2.0.3", sha256="3c6c5ade299c7a52fc9c5d2111110c97032e1f0c2593ce6091c364b1a43b442a") - version("2.0.2", sha256="90f838853cc1c07e55893483faa7e923e4b4b1659c6bc9df3538366030a7e622") - version("2.0.1", sha256="2564c91ed8ed36274ee31002a25798f5babc4221e879cb5013867733d80f9920") - version("2.0.0", sha256="91704fafeea2349c5e268dc1e2d03921b3aae64b05ee01d59fdfc1a6b0ffc061") - - # Optional dependencies - variant( - "armadillo", - default=False, - description="Speed up computations related to the Thin Plate Spline transformer", - ) - variant( - "arrow", default=False, when="build_system=cmake", description="Required for Arrow driver" - ) - variant( - "basisu", default=False, when="@3.6:", description="Required for BASISU and KTX2 drivers" - ) - variant("blosc", default=False, when="@3.4:", description="Required for Zarr driver") - variant("brunsli", default=False, when="@3.4:", description="Required for MRF driver") - variant("bsb", default=False, when="@:2", description="Required for BSB driver") - variant("cfitsio", default=False, description="Required for FITS driver") - variant("crnlib", default=False, description="Required for DDS driver") - variant("curl", default=True, description="Required for network access") - variant("cryptopp", default=False, when="@2.1:", description="Required for EEDAI driver") - variant("deflate", default=False, when="@3.2:", description="Required for Deflate compression") - variant("dods", default=False, when="@:3.4", description="Required for DODS driver") - variant("ecw", default=False, description="Required for ECW driver") - variant("epsilon", default=False, when="@:3.2", description="Required for EPSILON driver") - variant("expat", default=True, description="Required for XML parsing in many OGR drivers") - variant("filegdb", default=False, description="Required for FileGDB driver") - variant("fme", default=False, when="@:3.4", description="Required for FME driver") - variant("freexl", default=False, description="Required for XLS driver") - variant("fyba", default=False, description="Required for SOSI driver") - variant("geos", default=True, description="Required for geometry processing operations in OGR") - variant("gif", default=False, description="Required for GIF driver") - variant("grass", default=False, when="@:3.4", description="Required for GRASS driver") - variant("grib", default=False, when="@:2", description="Required for GRIB driver") - variant("gta", default=False, description="Required for GTA driver") - variant("heif", default=False, when="@3.2:", description="Required for HEIF driver") - variant("hdf4", default=False, description="Required for HDF4 driver") - variant("hdf5", default=False, description="Required for HDF5, BAG, and KEA drivers") - variant( - "hdfs", default=False, when="@2.4:", description="Required for Hadoop filesystem support" - ) - variant("iconv", default=False, description="Required for text encoding conversion") - variant("idb", default=False, description="Required for IDB driver") - variant("ingres", default=False, when="@:3.4", description="Required for Ingres driver") - variant("jasper", default=False, when="@:3.4", description="Optional JPEG-2000 library") - variant("jpeg", default=True, description="Required for JPEG driver") - variant("jxl", default=False, when="@3.4:", description="Required for JPEGXL driver") - variant("kdu", default=False, description="Required for JP2KAK and JPIPKAK drivers") - variant("kea", default=False, description="Required for KEA driver") - variant("lerc", default=False, when="@2.4:", description="Required for LERC compression") - variant("libcsf", default=False, description="Required for PCRaster driver") - variant("libkml", default=False, description="Required for LIBKML driver") - variant("liblzma", default=False, description="Required for Zarr driver") - variant( - "libxml2", default=False, description="Required for XML validation in many OGR drivers" - ) - variant("luratech", default=False, when="@2.2:", description="Required for JP2Lura driver") - variant("lz4", default=False, when="@3.4:", description="Required for Zarr driver") - variant("mdb", default=False, when="@:3.4", description="Required for MDB driver") - variant("mongocxx", default=False, when="@2.1:", description="Required for MongoDBv3 driver") - variant("mrf", default=False, when="@2.1:2", description="Required for MRF driver") - variant("mrsid", default=False, description="Required for MrSID driver") - variant( - "mrsid_lidar", default=False, when="@:3.4", description="Required for MrSID/MG4 driver" - ) - variant( - "mssql_ncli", - default=False, - when="build_system=cmake", - description="Required for MSSQLSpatial driver", - ) - variant( - "mssql_odbc", - default=False, - when="build_system=cmake", - description="Required for MSSQLSpatial driver", - ) - variant("mysql", default=False, description="Required for MySQL driver") - variant("netcdf", default=False, description="Required for NetCDF driver") - variant("odbc", default=False, description="Required for many OGR drivers") - variant( - "odbccpp", - default=False, - when="build_system=cmake", - description="Required for SAP HANA driver", - ) - variant("ogdi", default=False, description="Required for OGDI driver") - variant( - "opencad", default=False, when="build_system=cmake", description="Required for CAD driver" - ) - variant("opencl", default=False, description="Required to accelerate warping computations") - variant("openexr", default=False, when="@3.1:", description="Required for EXR driver") - variant("openjpeg", default=False, description="Required for JP2OpenJPEG driver") - variant("openssl", default=False, when="@2.3:", description="Required for EEDAI driver") - variant("oracle", default=False, description="Required for OCI and GeoRaster drivers") - variant( - "parquet", - default=False, - when="build_system=cmake", - description="Required for Parquet driver", - ) - variant("pcidsk", default=False, description="Required for PCIDSK driver") - variant( - "pcre", default=False, description="Required for REGEXP operator in drivers using SQLite3" - ) - variant("pdfium", default=False, when="@2.1:", description="Possible backend for PDF driver") - variant("png", default=True, description="Required for PNG driver") - variant("podofo", default=False, description="Possible backend for PDF driver") - variant("poppler", default=False, description="Possible backend for PDF driver") - variant( - "postgresql", - default=False, - description="Required for PostgreSQL and PostGISRaster drivers", - ) - variant("qb3", default=False, when="@3.6:", description="Required for MRF driver") - variant( - "qhull", - default=False, - when="@2.1:", - description="Used for linear interpolation of gdal_grid", - ) - variant("rasdaman", default=False, description="Required for Rasdaman driver") - variant( - "rasterlite2", default=False, when="@2.2:", description="Required for RasterLite2 driver" - ) - variant("rdb", default=False, when="@3.1:", description="Required for RDB driver") - variant("sde", default=False, when="@:3.1", description="Required for SDE driver") - variant("sfcgal", default=False, when="@2.2:", description="Provides 3D geometry operations") - variant("spatialite", default=False, description="Required for SQLite and GPKG drivers") - variant("sqlite3", default=True, description="Required for SQLite and GPKG drivers") - variant("teigha", default=False, description="Required for DWG and DGNv8 drivers") - variant("tiledb", default=False, when="@3:", description="Required for TileDB driver") - variant("webp", default=False, description="Required for WEBP driver") - variant( - "xercesc", - default=False, - description="Required for XML parsing capabilities in many OGR drivers", - ) - variant("zstd", default=False, when="@2.3:", description="Required for Zarr driver") - - # Language bindings - variant("python", default=False, description="Build Python bindings") - variant("java", default=False, description="Build Java bindings") - variant("csharp", default=False, when="build_system=cmake", description="Build C# bindings") - variant("perl", default=False, when="@:3.4", description="Build Perl bindings") - variant("php", default=False, when="@:2.3", description="Build PHP bindings") - - # Build system - build_system( - conditional("cmake", when="@3.5:"), - conditional("autotools", when="@:3.5"), - default="cmake", - ) - - with when("build_system=cmake"): - depends_on("cmake@3.9:", type="build") - depends_on("ninja", type="build") - - with when("build_system=autotools"): - depends_on("gmake", type="build") - - # Required dependencies - depends_on("pkgconfig@0.25:", type="build") - depends_on("proj@6:", when="@3:") - depends_on("proj@:6", when="@2.5:2") - depends_on("proj@:5", when="@2.4") - depends_on("proj@:4", when="@:2.3") - depends_on("zlib") - depends_on("libtiff@4:", when="@3:") - depends_on("libtiff@3.6.0:") # 3.9.0+ needed to pass testsuite - depends_on("libgeotiff@1.5:", when="@3:") - depends_on("libgeotiff@1.2.1:1.5", when="@2.4.1:2") - depends_on("libgeotiff@1.2.1:1.4", when="@:2.4.0") - depends_on("json-c") - depends_on("json-c@0.12.1", when="@:2.2") - - # Optional dependencies - depends_on("armadillo", when="+armadillo") - depends_on("blas", when="+armadillo") - depends_on("lapack", when="+armadillo") - depends_on("arrow", when="+arrow") - # depends_on("basis-universal", when="+basisu") - depends_on("c-blosc", when="+blosc") - depends_on("brunsli", when="+brunsli") - # depends_on('bsb', when='+bsb') - depends_on("cfitsio", when="+cfitsio") - depends_on("crunch", when="+crnlib") - depends_on("curl", when="+curl") - depends_on("cryptopp", when="+cryptopp") - depends_on("libdeflate", when="+deflate") - # depends_on('dods', when='+dods') - # depends_on('ecw', when='+ecw') - # depends_on('libepsilon', when='+epsilon') - depends_on("expat@1.95:", when="+expat") - # depends_on('filegdb', when='+filegdb') - # depends_on('fme', when='+fme') - depends_on("freexl", when="+freexl") - depends_on("fyba", when="+fyba") - depends_on("geos@3.1:", when="+geos") - depends_on("giflib", when="+gif") - depends_on("grass@5.7:", when="+grass") - depends_on("grib-api", when="+grib") - depends_on("libgta", when="+gta") - depends_on("libheif@1.1:", when="+heif") - depends_on("hdf", when="+hdf4") - depends_on("hdf5+cxx", when="+hdf5") - depends_on("hdf5@:1.12", when="@:3.4.1 +hdf5") - depends_on("hadoop", when="+hdfs") - depends_on("iconv", when="+iconv") - # depends_on('idb', when='+idb') - # depends_on('ingres', when='+ingres') - depends_on("jasper@1.900.1", patches=[patch("uuid.patch")], when="+jasper") - depends_on("jpeg", when="+jpeg") - depends_on("libjxl", when="+jxl") - # depends_on('kakadu', when='+kdu') - depends_on("kealib", when="+kea") - depends_on("lerc", when="+lerc") - # depends_on('libcsf', when='+libcsf') - depends_on("libkml@1.3:", when="+libkml") - depends_on("xz", when="+liblzma") - depends_on("libxml2", when="+libxml2") - # depends_on('luratech', when='+luratech') - depends_on("lz4", when="+lz4") - depends_on("jackcess@1.2", type="run", when="+mdb") - depends_on("mongo-cxx-driver", when="+mongocxx") - # depends_on('bsoncxx', when='+mongocxx') - # depends_on('mrf', when='+mrf') - # depends_on('mrsid', when='+mrsid') - # depends_on('lizardtech-lidar', when='+mrsid_lidar') - # depends_on('mssql_ncli', when='+mssql_ncli') - # depends_on('mssql_odbc', when='+mssql_odbc') - depends_on("mysql", when="+mysql") - depends_on("netcdf-c", when="+netcdf") - depends_on("unixodbc", when="+odbc") - # depends_on('odbc-cpp-wrapper', when='+odbccpp') - # depends_on('ogdi', when='+ogdi') - # depends_on('lib-opencad', when='+opencad') - depends_on("opencl", when="+opencl") - depends_on("openexr@2.2:", when="+openexr") - depends_on("openjpeg", when="+openjpeg") - depends_on("openssl", when="+openssl") - depends_on("oracle-instant-client", when="+oracle") - depends_on("parquet-cpp", when="+parquet") - # depends_on('pcidsk', when='+pcidsk') - depends_on("pcre2", when="@3.5:+pcre") - depends_on("pcre", when="@:3.4+pcre") - # depends_on('pdfium', when='+pdfium') - depends_on("libpng", when="+png") - # depends_on('podofo', when='+podofo') - depends_on("poppler", when="+poppler") - depends_on("poppler@0.24:", when="@3: +poppler") - depends_on("poppler@:0.63", when="@:2.3 +poppler") - depends_on("poppler@:0.71", when="@:2.4 +poppler") - depends_on("poppler@:21", when="@:3.4.1 +poppler") - depends_on("postgresql", when="+postgresql") - depends_on("qb3", when="+qb3") - depends_on("qhull", when="+qhull") - depends_on("qhull@2015:", when="@3.5:+qhull") - depends_on("qhull@:2020.1", when="@:3.3+qhull") - # depends_on('rasdaman', when='+rasdaman') - # depends_on('rasterlite2@1.1:', when='+rasterlite2') - # depends_on('rdblib', when='+rdb') - # depends_on('sde', when='+sde') - depends_on("sfcgal", when="+sfcgal") - depends_on("libspatialite", when="+spatialite") - depends_on("sqlite@3:", when="+sqlite3") - # depends_on('teigha', when='+teigha') - # depends_on('tiledb', when='+tiledb') - depends_on("libwebp", when="+webp") - depends_on("xerces-c@3.1:", when="+xercesc") - depends_on("zstd", when="+zstd") - - # Language bindings - # FIXME: Allow packages to extend multiple packages - # See https://github.com/spack/spack/issues/987 - extends("python", when="+python") - # extends('openjdk', when='+java') - # extends('perl', when='+perl') - - # see gdal_version_and_min_supported_python_version - # in swig/python/osgeo/__init__.py - depends_on("python@3.6:", type=("build", "link", "run"), when="@3.3:+python") - depends_on("python@2.0:", type=("build", "link", "run"), when="@3.2:+python") - depends_on("python", type=("build", "link", "run"), when="+python") - # swig/python/setup.py - depends_on("py-setuptools@:57", type="build", when="@:3.2+python") # needs 2to3 - depends_on("py-setuptools", type="build", when="+python") - depends_on("py-numpy@1.0.0:", type=("build", "run"), when="+python") - depends_on("swig", type="build", when="+python") - depends_on("java@7:", type=("build", "link", "run"), when="@3.2:+java") - depends_on("java@6:", type=("build", "link", "run"), when="@2.4:+java") - depends_on("java@5:", type=("build", "link", "run"), when="@2.1:+java") - depends_on("java@4:", type=("build", "link", "run"), when="@:2.0+java") - depends_on("ant", type="build", when="+java") - depends_on("swig", type="build", when="+java") - depends_on("perl", type=("build", "run"), when="+perl") - depends_on("swig", type="build", when="+perl") - depends_on("php", type=("build", "link", "run"), when="+php") - depends_on("swig", type="build", when="+php") - - # https://trac.osgeo.org/gdal/wiki/SupportedCompilers - msg = "GDAL requires C++11 support" - conflicts("%gcc@:4.8.0", msg=msg) - conflicts("%clang@:3.2", msg=msg) - conflicts("%intel@:12", msg=msg) - conflicts("%xl@:13.0", msg=msg) - conflicts("%xl_r@:13.0", msg=msg) - - # https://github.com/OSGeo/gdal/issues/5994 - conflicts("~png", when="@3:3.5.0") - conflicts("~jpeg", when="@3:3.5.0") - # TODO: investigate build issues - conflicts("+brunsli", when="@3.4") - conflicts("+qhull", when="@2.1") - conflicts("+mdb", when="~java", msg="MDB driver requires Java") - - # TODO: add packages for the following dependencies - conflicts("+bsb") - conflicts("+dods") - conflicts("+ecw") - conflicts("+epsilon") - conflicts("+filegdb") - conflicts("+fme") - conflicts("+idb") - conflicts("+ingres") - conflicts("+kdu") - conflicts("+libcsf") - conflicts("+luratech") - conflicts("+mrf") - conflicts("+mrsid") - conflicts("+mrsid_lidar") - conflicts("+mssql_ncli") - conflicts("+mssql_odbc") - conflicts("+odbccpp") - conflicts("+ogdi") - conflicts("+opencad") - conflicts("+pcidsk") - conflicts("+pdfium") - conflicts("+podofo") - conflicts("+rasdaman") - conflicts("+rasterlite2") - conflicts("+rdb") - conflicts("+sde") - conflicts("+teigha") - conflicts("+tiledb") - - # https://github.com/OSGeo/gdal/issues/3782 - patch( - "https://github.com/OSGeo/gdal/pull/3786.patch?full_index=1", - when="@3.3.0", - level=2, - sha256="9f9824296e75b34b3e78284ec772a5ac8f8ba92c17253ea9ca242caf766767ce", - ) - - executables = ["^gdal-config$"] - - @classmethod - def determine_version(cls, exe): - return Executable(exe)("--version", output=str, error=str).rstrip() - - def setup_run_environment(self, env): - if "+java" in self.spec: - class_paths = find(self.prefix, "*.jar") - classpath = os.pathsep.join(class_paths) - env.prepend_path("CLASSPATH", classpath) - - # `spack test run gdal+python` requires these for the Python bindings - # to find the correct libraries - libs = [] - for dep in self.spec.dependencies(deptype="link"): - query = self.spec[dep.name] - libs.extend(filter_system_paths(query.libs.directories)) - if sys.platform == "darwin": - env.prepend_path("DYLD_FALLBACK_LIBRARY_PATH", ":".join(libs)) - else: - env.prepend_path("LD_LIBRARY_PATH", ":".join(libs)) - - def patch(self): - if "+java platform=darwin" in self.spec: - filter_file("linux", "darwin", "swig/java/java.opt", string=True) - - -class CMakeBuilder(CMakeBuilder): - generator = "Ninja" - - def cmake_args(self): - # https://gdal.org/build_hints.html - args = [ - # Only use Spack-installed dependencies - self.define("GDAL_USE_EXTERNAL_LIBS", False), - self.define("GDAL_USE_INTERNAL_LIBS", False), - # Required dependencies - self.define("GDAL_USE_GEOTIFF", True), - self.define("GDAL_USE_JSONC", True), - self.define("GDAL_USE_TIFF", True), - self.define("GDAL_USE_ZLIB", True), - # Optional dependencies - self.define_from_variant("GDAL_USE_ARMADILLO", "armadillo"), - self.define_from_variant("GDAL_USE_ARROW", "arrow"), - self.define_from_variant("GDAL_USE_BASISU", "basisu"), - self.define_from_variant("GDAL_USE_BLOSC", "blosc"), - self.define_from_variant("GDAL_USE_BRUNSLI", "brunsli"), - self.define_from_variant("GDAL_USE_CFITSIO", "cfitsio"), - self.define_from_variant("GDAL_USE_CRNLIB", "crnlib"), - self.define_from_variant("GDAL_USE_CRYPTOPP", "cryptopp"), - self.define_from_variant("GDAL_USE_CURL", "curl"), - self.define_from_variant("GDAL_USE_DEFLATE", "deflate"), - self.define_from_variant("GDAL_USE_ECW", "ecw"), - self.define_from_variant("GDAL_USE_EXPAT", "expat"), - self.define_from_variant("GDAL_USE_FILEGDB", "filegdb"), - self.define_from_variant("GDAL_USE_FREEXL", "freexl"), - self.define_from_variant("GDAL_USE_FYBA", "fyba"), - self.define_from_variant("GDAL_USE_GEOS", "geos"), - self.define_from_variant("GDAL_USE_GIF", "gif"), - self.define_from_variant("GDAL_USE_GTA", "gta"), - self.define_from_variant("GDAL_USE_HEIF", "heif"), - self.define_from_variant("GDAL_USE_HDF4", "hdf4"), - self.define_from_variant("GDAL_USE_HDF5", "hdf5"), - self.define_from_variant("GDAL_USE_HDFS", "hdfs"), - self.define_from_variant("GDAL_USE_ICONV", "iconv"), - self.define_from_variant("GDAL_USE_IDB", "idb"), - self.define_from_variant("GDAL_USE_JPEG", "jpeg"), - self.define_from_variant("GDAL_USE_JXL", "jxl"), - self.define_from_variant("GDAL_USE_KDU", "kdu"), - self.define_from_variant("GDAL_USE_KEA", "kea"), - self.define_from_variant("GDAL_USE_LERC", "lerc"), - self.define_from_variant("GDAL_USE_LIBCSF", "libcsf"), - self.define_from_variant("GDAL_USE_LIBKML", "libkml"), - self.define_from_variant("GDAL_USE_LIBLZMA", "liblzma"), - self.define_from_variant("GDAL_USE_LIBXML2", "libxml2"), - self.define_from_variant("GDAL_USE_LURATECH", "luratech"), - self.define_from_variant("GDAL_USE_LZ4", "lz4"), - self.define_from_variant("GDAL_USE_MONGOCXX", "mongocxx"), - self.define_from_variant("GDAL_USE_MRSID", "mrsid"), - self.define_from_variant("GDAL_USE_MSSQL_NCLI", "mssql_ncli"), - self.define_from_variant("GDAL_USE_MSSQL_ODBC", "mssql_odbc"), - self.define_from_variant("GDAL_USE_MYSQL", "mysql"), - self.define_from_variant("GDAL_USE_NETCDF", "netcdf"), - self.define_from_variant("GDAL_USE_ODBC", "odbc"), - self.define_from_variant("GDAL_USE_ODBCCPP", "odbccpp"), - self.define_from_variant("GDAL_USE_OGDI", "ogdi"), - self.define_from_variant("GDAL_USE_OPENCAD", "opencad"), - self.define_from_variant("GDAL_USE_OPENCL", "opencl"), - self.define_from_variant("GDAL_USE_OPENEXR", "openexr"), - self.define_from_variant("GDAL_USE_OPENJPEG", "openjpeg"), - self.define_from_variant("GDAL_USE_OPENSSL", "openssl"), - self.define_from_variant("GDAL_USE_ORACLE", "oracle"), - self.define_from_variant("GDAL_USE_PARQUET", "parquet"), - self.define_from_variant("GDAL_USE_PCRE2", "pcre"), - self.define_from_variant("GDAL_USE_PDFIUM", "pdfium"), - self.define_from_variant("GDAL_USE_PNG", "png"), - self.define_from_variant("GDAL_USE_PODOFO", "podofo"), - self.define_from_variant("GDAL_USE_POPPLER", "poppler"), - self.define_from_variant("GDAL_USE_POSTGRESQL", "postgresql"), - self.define_from_variant("GDAL_USE_LIBQB3", "qb3"), - self.define_from_variant("GDAL_USE_QHULL", "qhull"), - self.define_from_variant("GDAL_USE_RASDAMAN", "rasdaman"), - self.define_from_variant("GDAL_USE_RASTERLITE2", "rasterlite2"), - self.define_from_variant("GDAL_USE_RDB", "rdb"), - self.define_from_variant("GDAL_USE_SFCGAL", "sfcgal"), - self.define_from_variant("GDAL_USE_SPATIALITE", "spatialite"), - self.define_from_variant("GDAL_USE_SQLITE3", "sqlite3"), - self.define_from_variant("GDAL_USE_TEIGHA", "teigha"), - self.define_from_variant("GDAL_USE_TILEDB", "tiledb"), - self.define_from_variant("GDAL_USE_WEBP", "webp"), - self.define_from_variant("GDAL_USE_XERCESC", "xercesc"), - self.define_from_variant("GDAL_USE_ZSTD", "zstd"), - # Language bindings - self.define_from_variant("BUILD_PYTHON_BINDINGS", "python"), - self.define_from_variant("BUILD_JAVA_BINDINGS", "java"), - self.define_from_variant("BUILD_CSHARP_BINDINGS", "csharp"), - ] - - # Remove empty strings - args = [arg for arg in args if arg] - - return args - - -class AutotoolsBuilder(AutotoolsBuilder): - def setup_build_environment(self, env): - # Needed to install Python bindings to GDAL installation - # prefix instead of Python installation prefix. - # See swig/python/GNUmakefile for more details. - env.set("PREFIX", self.prefix) - env.set("DESTDIR", "/") - - def with_or_without(self, name, variant=None, package=None, attribute=None): - if not variant: - variant = name - - if variant not in self.pkg.variants: - msg = '"{}" is not a variant of "{}"' - raise KeyError(msg.format(variant, self.name)) - - if variant not in self.spec.variants: - return "" - - if self.spec.variants[variant].value: - if package: - value = self.spec[package].prefix - if attribute == "command": - value = self.spec[package].command.path - elif attribute == "libs": - value = self.spec[package].libs.directories[0] - return "--with-{}={}".format(name, value) - else: - return "--with-{}".format(name) - else: - return "--without-{}".format(name) - - def configure_args(self): - # https://trac.osgeo.org/gdal/wiki/BuildHints - args = [ - "--prefix={}".format(self.prefix), - # Required dependencies - "--with-geotiff={}".format(self.spec["libgeotiff"].prefix), - "--with-libjson-c={}".format(self.spec["json-c"].prefix), - "--with-libtiff={}".format(self.spec["libtiff"].prefix), - "--with-libz={}".format(self.spec["zlib"].prefix), - # Optional dependencies - self.with_or_without("armadillo", package="armadillo"), - self.with_or_without("blosc", package="c-blosc"), - self.with_or_without("brunsli"), - self.with_or_without("bsb"), - self.with_or_without("cfitsio", package="cfitsio"), - self.with_or_without("dds", variant="crnlib", package="crunch"), - self.with_or_without("curl", package="curl", attribute="command"), - self.with_or_without("cryptopp", package="cryptopp"), - self.with_or_without("libdeflate", variant="deflate", package="libdeflate"), - self.with_or_without("dods-root", variant="dods", package="dods"), - self.with_or_without("ecw", package="ecw"), - self.with_or_without("epsilon", package="libepsilon"), - self.with_or_without("expat", package="expat"), - self.with_or_without("fgdb", variant="filegdb", package="filegdb"), - self.with_or_without("fme", package="fme"), - self.with_or_without("freexl", package="freexl"), - self.with_or_without("sosi", variant="fyba", package="fyba"), - self.with_or_without("geos", package="geos", attribute="command"), - self.with_or_without("gif", package="giflib"), - self.with_or_without("grass", package="grass"), - self.with_or_without("grib"), - self.with_or_without("libgrass", variant="grass"), - self.with_or_without("gta", package="gta"), - self.with_or_without("heif"), - self.with_or_without("hdf4", package="hdf"), - self.with_or_without("hdf5", package="hdf5"), - self.with_or_without("hdfs", package="hadoop"), - self.with_or_without("libiconv-prefix", variant="iconv", package="iconv"), - self.with_or_without("idb", package="idb"), - self.with_or_without("ingres", package="ingres"), - self.with_or_without("jasper", package="jasper"), - self.with_or_without("jpeg", package="jpeg"), - self.with_or_without("jxl"), - self.with_or_without("kakadu", variant="kdu"), - self.with_or_without("kea", package="kealib", attribute="command"), - self.with_or_without("lerc", package="lerc"), - self.with_or_without("pcraster", variant="libcsf", package="libcsf"), - self.with_or_without("libkml", package="libkml"), - self.with_or_without("liblzma"), - self.with_or_without("jp2lura", variant="luratech", package="luratech"), - self.with_or_without("lz4", package="lz4"), - self.with_or_without("mdb"), - self.with_or_without("mrf"), - self.with_or_without("mrsid", package="mrsid"), - self.with_or_without("mrsid_lidar", package="lizardtech-lidar"), - self.with_or_without("mysql", package="mysql", attribute="command"), - self.with_or_without("netcdf", package="netcdf-c"), - self.with_or_without("odbc", package="unixodbc"), - self.with_or_without("hana", variant="odbccpp", package="odbc-cpp-wrapper"), - self.with_or_without("ogdi", package="ogdi"), - self.with_or_without("opencl"), - self.with_or_without("exr", variant="openexr"), - self.with_or_without("openjpeg"), - self.with_or_without("crypto", variant="openssl", package="openssl"), - self.with_or_without("oci", variant="oracle", package="oracle-instant-client"), - self.with_or_without("pcidsk", package="pcidsk"), - self.with_or_without("pcre"), - self.with_or_without("pdfium", package="pdfium"), - self.with_or_without("png", package="libpng"), - self.with_or_without("podofo", package="podofo"), - self.with_or_without("poppler", package="poppler"), - self.with_or_without("qhull"), - self.with_or_without("rasdaman", package="rasdaman"), - self.with_or_without("rasterlite2", package="rasterlite2"), - self.with_or_without("rdb", package="rdb"), - self.with_or_without("sde", package="sde"), - self.with_or_without("spatialite", package="libspatialite"), - self.with_or_without("sqlite3", package="sqlite"), - self.with_or_without("sfcgal", package="sfcgal", attribute="command"), - self.with_or_without("tiledb", package="tiledb"), - self.with_or_without("webp", package="libwebp"), - self.with_or_without("xerces", variant="xercesc", package="xerces-c"), - self.with_or_without("zstd", package="zstd"), - # Language bindings - self.with_or_without("python", package="python", attribute="command"), - self.with_or_without("java", package="java"), - self.with_or_without("jvm-lib", variant="mdb", package="java", attribute="libs"), - self.with_or_without("jvm-lib-add-rpath", variant="mdb"), - self.with_or_without("perl"), - self.with_or_without("php"), - ] - - # Renamed or modified flags - if self.spec.satisfies("@3:"): - args.extend( - [ - self.with_or_without("xml2", variant="libxml2"), - self.with_or_without("mongocxxv3", variant="mongocxx"), - self.with_or_without("pg", variant="postgresql"), - ] - ) - else: - args.extend( - [ - self.with_or_without( - "xml2", variant="libxml2", package="libxml2", attribute="command" - ), - self.with_or_without("mongocxx", variant="mongocxx"), - self.with_or_without( - "pg", variant="postgresql", package="postgresql", attribute="command" - ), - ] - ) - - if self.spec.satisfies("@2.3:"): - args.append("--with-proj={}".format(self.spec["proj"].prefix)) - - if self.spec.satisfies("@2.2:"): - args.append(self.with_or_without("teigha", package="teigha")) - else: - args.append(self.with_or_without("dwgdirect", variant="teigha", package="teigha")) - - if "+hdf4" in self.spec: - hdf4 = self.spec["hdf"] - if "+external-xdr" in hdf4 and hdf4["rpc"].name != "libc": - args.append("LIBS=" + hdf4["rpc"].libs.link_flags) - - # Remove empty strings - args = [arg for arg in args if arg] - - return args - - def build(self, pkg, spec, prefix): - # https://trac.osgeo.org/gdal/wiki/GdalOgrInJavaBuildInstructionsUnix - make() - if "+java" in spec: - with working_dir("swig/java"): - make() - - def check(self): - # no top-level test target - if "+java" in self.spec: - with working_dir("swig/java"): - make("test") - - def install(self, pkg, spec, prefix): - make("install") - if "+java" in spec: - with working_dir("swig/java"): - make("install") - install("*.jar", prefix) - - # The shared library is not installed correctly on Darwin; fix this - if self.spec.satisfies("platform=darwin"): - fix_darwin_install_name(self.prefix.lib) diff --git a/repos/hpccf/packages/gdal/uuid.patch b/repos/hpccf/packages/gdal/uuid.patch deleted file mode 100644 index 3990dad0..00000000 --- a/repos/hpccf/packages/gdal/uuid.patch +++ /dev/null @@ -1,234 +0,0 @@ -diff -Naur jasper-1.900.1/src/libjasper/jp2/jp2_cod.c jasper-1.900.1.uuid/src/libjasper/jp2/jp2_cod.c ---- jasper-1.900.1/src/libjasper/jp2/jp2_cod.c 2007-01-19 15:43:05.000000000 -0600 -+++ jasper-1.900.1.uuid/src/libjasper/jp2/jp2_cod.c 2007-03-06 07:49:58.000000000 -0600 -@@ -5,6 +5,11 @@ - * All rights reserved. - */ - -+/* -+ * Modified by Andrey Kiselev to properly handle UUID -+ * box. -+ */ -+ - /* __START_OF_JASPER_LICENSE__ - * - * JasPer License Version 2.0 -@@ -127,6 +132,9 @@ - static int jp2_pclr_getdata(jp2_box_t *box, jas_stream_t *in); - static int jp2_pclr_putdata(jp2_box_t *box, jas_stream_t *out); - static void jp2_pclr_dumpdata(jp2_box_t *box, FILE *out); -+static void jp2_uuid_destroy(jp2_box_t *box); -+static int jp2_uuid_getdata(jp2_box_t *box, jas_stream_t *in); -+static int jp2_uuid_putdata(jp2_box_t *box, jas_stream_t *out); - - /******************************************************************************\ - * Local data. -@@ -164,7 +172,7 @@ - {JP2_BOX_XML, "XML", 0, - {0, 0, 0, 0, 0}}, - {JP2_BOX_UUID, "UUID", 0, -- {0, 0, 0, 0, 0}}, -+ {0, jp2_uuid_destroy, jp2_uuid_getdata, jp2_uuid_putdata, 0}}, - {JP2_BOX_UINF, "UINF", JP2_BOX_SUPER, - {0, 0, 0, 0, 0}}, - {JP2_BOX_ULST, "ULST", 0, -@@ -271,7 +279,7 @@ - } else { - box->datalen = box->len - JP2_BOX_HDRLEN(false); - } -- if (box->len != 0 && box->len < 8) { -+ if (box->len != 0 && box->len < JP2_BOX_HDRLEN(false)) { - goto error; - } - -@@ -876,6 +884,56 @@ - } - } - -+static void jp2_uuid_destroy(jp2_box_t *box) -+{ -+ jp2_uuid_t *uuid = &box->data.uuid; -+ if (uuid->data) -+ { -+ jas_free(uuid->data); -+ uuid->data = NULL; -+ } -+} -+ -+static int jp2_uuid_getdata(jp2_box_t *box, jas_stream_t *in) -+{ -+ jp2_uuid_t *uuid = &box->data.uuid; -+ int i; -+ -+ for (i = 0; i < 16; i++) -+ { -+ if (jp2_getuint8(in, &uuid->uuid[i])) -+ return -1; -+ } -+ -+ uuid->datalen = box->datalen - 16; -+ uuid->data = jas_malloc(uuid->datalen * sizeof(uint_fast8_t)); -+ for (i = 0; i < uuid->datalen; i++) -+ { -+ if (jp2_getuint8(in, &uuid->data[i])) -+ return -1; -+ } -+ return 0; -+} -+ -+static int jp2_uuid_putdata(jp2_box_t *box, jas_stream_t *out) -+{ -+ jp2_uuid_t *uuid = &box->data.uuid; -+ int i; -+ -+ for (i = 0; i < 16; i++) -+ { -+ if (jp2_putuint8(out, uuid->uuid[i])) -+ return -1; -+ } -+ -+ for (i = 0; i < uuid->datalen; i++) -+ { -+ if (jp2_putuint8(out, uuid->data[i])) -+ return -1; -+ } -+ return 0; -+} -+ - static int jp2_getint(jas_stream_t *in, int s, int n, int_fast32_t *val) - { - int c; -diff -Naur jasper-1.900.1/src/libjasper/jp2/jp2_cod.h jasper-1.900.1.uuid/src/libjasper/jp2/jp2_cod.h ---- jasper-1.900.1/src/libjasper/jp2/jp2_cod.h 2007-01-19 15:43:05.000000000 -0600 -+++ jasper-1.900.1.uuid/src/libjasper/jp2/jp2_cod.h 2007-03-06 07:49:58.000000000 -0600 -@@ -5,6 +5,11 @@ - * All rights reserved. - */ - -+/* -+ * Modified by Andrey Kiselev to properly handle UUID -+ * box. -+ */ -+ - /* __START_OF_JASPER_LICENSE__ - * - * JasPer License Version 2.0 -@@ -229,6 +234,12 @@ - jp2_cmapent_t *ents; - } jp2_cmap_t; - -+typedef struct { -+ uint_fast32_t datalen; -+ uint_fast8_t uuid[16]; -+ uint_fast8_t *data; -+} jp2_uuid_t; -+ - #define JP2_CMAP_DIRECT 0 - #define JP2_CMAP_PALETTE 1 - -@@ -257,6 +268,7 @@ - jp2_pclr_t pclr; - jp2_cdef_t cdef; - jp2_cmap_t cmap; -+ jp2_uuid_t uuid; - } data; - - } jp2_box_t; -diff -Naur jasper-1.900.1/src/libjasper/jp2/jp2_enc.c jasper-1.900.1.uuid/src/libjasper/jp2/jp2_enc.c ---- jasper-1.900.1/src/libjasper/jp2/jp2_enc.c 2007-01-19 15:43:05.000000000 -0600 -+++ jasper-1.900.1.uuid/src/libjasper/jp2/jp2_enc.c 2007-03-06 07:49:58.000000000 -0600 -@@ -5,6 +5,11 @@ - * All rights reserved. - */ - -+/* -+ * Modified by Andrey Kiselev to properly handle UUID -+ * box. -+ */ -+ - /* __START_OF_JASPER_LICENSE__ - * - * JasPer License Version 2.0 -@@ -86,7 +91,7 @@ - * Functions. - \******************************************************************************/ - --int jp2_encode(jas_image_t *image, jas_stream_t *out, char *optstr) -+int jp2_write_header(jas_image_t *image, jas_stream_t *out) - { - jp2_box_t *box; - jp2_ftyp_t *ftyp; -@@ -97,8 +102,6 @@ - long len; - uint_fast16_t cmptno; - jp2_colr_t *colr; -- char buf[4096]; -- uint_fast32_t overhead; - jp2_cdefchan_t *cdefchanent; - jp2_cdef_t *cdef; - int i; -@@ -326,6 +329,26 @@ - jas_stream_close(tmpstream); - tmpstream = 0; - -+ return 0; -+ abort(); -+ -+error: -+ -+ if (box) { -+ jp2_box_destroy(box); -+ } -+ if (tmpstream) { -+ jas_stream_close(tmpstream); -+ } -+ return -1; -+} -+ -+int jp2_write_codestream(jas_image_t *image, jas_stream_t *out, char *optstr) -+{ -+ jp2_box_t *box; -+ char buf[4096]; -+ uint_fast32_t overhead; -+ - /* - * Output the contiguous code stream box. - */ -@@ -358,12 +381,34 @@ - if (box) { - jp2_box_destroy(box); - } -- if (tmpstream) { -- jas_stream_close(tmpstream); -- } - return -1; - } - -+int jp2_encode(jas_image_t *image, jas_stream_t *out, char *optstr) -+{ -+ if (jp2_write_header(image, out) < 0) -+ return -1; -+ if (jp2_write_codestream(image, out, optstr) < 0) -+ return -1; -+ -+ return 0; -+} -+ -+int jp2_encode_uuid(jas_image_t *image, jas_stream_t *out, -+ char *optstr, jp2_box_t *uuid) -+{ -+ if (jp2_write_header(image, out) < 0) -+ return -1; -+ if (uuid) { -+ if (jp2_box_put(uuid, out)) -+ return -1; -+ } -+ if (jp2_write_codestream(image, out, optstr) < 0) -+ return -1; -+ -+ return 0; -+} -+ - static uint_fast32_t jp2_gettypeasoc(int colorspace, int ctype) - { - int type; diff --git a/repos/hpccf/packages/genemark-et/package.py b/repos/hpccf/packages/genemark-et/package.py deleted file mode 100644 index 47b52860..00000000 --- a/repos/hpccf/packages/genemark-et/package.py +++ /dev/null @@ -1,70 +0,0 @@ -# Copyright 2013-2022 Lawrence Livermore National Security, LLC and other -# Spack Project Developers. See the top-level COPYRIGHT file for details. -# -# SPDX-License-Identifier: (Apache-2.0 OR MIT) - -import glob -import os - -from spack.package import * - - -class GenemarkEt(Package): - """Gene Prediction in Bacteria, archaea, Metagenomes and - Metatranscriptomes. - When downloaded this file is named the same for all versions. - Spack will search your current directory for the download file. - Alternatively, add this file to a mirror so that Spack can find it. - For instructions on how to set up a mirror, see - https://spack.readthedocs.io/en/latest/mirrors.html""" - - homepage = "http://topaz.gatech.edu/GeneMark" - manual_download = True - - version("4.71", sha256="629f430e7262bdb5df8f24413e65d26e35eb10ea34212145b692ee4689591e54") - version("4.69", sha256="027a060d6e0654d4d2a09bc97dde9bd6efd60bc4dc3e0183f212ddd5e6854ae7") - version("4.65", sha256="62ea2dfa1954ab25edcc118dbeaeacf15924274fb9ed47bc54716cfd15ad04fe") - version("4.46", sha256="856b0b6c7cbd12835e140ff04ecd9124376348efd65f76bfd8b8e08c1834eac0") - version("4.38", sha256="cee3bd73d331be44159eac15469560d0b07ffa2c98ac764c37219e1f3b7d3146") - - depends_on("perl", type=("build", "run")) - depends_on("perl-yaml", type=("build", "run")) - depends_on("perl-hash-merge", type=("build", "run")) - depends_on("perl-parallel-forkmanager", type=("build", "run")) - depends_on("perl-logger-simple", when="@:4.46", type=("build", "run")) - depends_on("perl-mce", when="@4.65:", type=("build", "run")) - depends_on("perl-thread-queue", when="@4.65:", type=("build", "run")) - depends_on("perl-threads", when="@4.65:", type=("build", "run")) - - def url_for_version(self, version): - if version >= Version("4.65"): - return "file://{0}/gmes_linux_64.tar.gz".format(os.getcwd()) - else: - return "file://{0}/gm_et_linux_64.tar.gz".format(os.getcwd()) - - def install(self, spec, prefix): - mkdirp(prefix.bin) - mkdirp(prefix.bin.heu_dir) - if self.version <= Version("4.38"): - source_dir = "gmes_petap" - else: - source_dir = self.stage.source_path - with working_dir(source_dir): - install_tree("lib", prefix.lib) - files = glob.iglob("*") - for file in files: - if os.path.isfile(file): - install(file, prefix.bin) - install_tree("heu_dir", prefix.bin.heu_dir) - - @run_after("install") - def filter_sbang(self): - with working_dir(self.prefix.bin): - pattern = "^#!.*/usr/bin/perl" - repl = "#!{0}".format(self.spec["perl"].command.path) - files = glob.iglob("*.pl") - for file in files: - filter_file(pattern, repl, *files, backup=False) - - def setup_run_environment(self, env): - env.prepend_path("PERL5LIB", self.prefix.lib) diff --git a/repos/hpccf/packages/gffcompare/Makefile.patch b/repos/hpccf/packages/gffcompare/Makefile.patch deleted file mode 100644 index d454fe28..00000000 --- a/repos/hpccf/packages/gffcompare/Makefile.patch +++ /dev/null @@ -1,22 +0,0 @@ ---- a/Makefile 2021-07-23 07:23:13.000000000 -0700 -+++ b/Makefile 2023-04-05 13:46:45.306807959 -0700 -@@ -1,4 +1,4 @@ --GCLIB := $(if $(GCLIB),$(GCLIB),../gclib) -+GCLIB := $(if $(GCLIB),$(GCLIB),gclib) - - INCDIRS := -I${GCLIB} - -@@ -55,10 +55,10 @@ - ${GCLIB}/GStr.o ${GCLIB}/GArgs.o - - .PHONY : all --all debug release static memcheck memdebug : ../gclib gffcompare trmap -+all debug release static memcheck memdebug : gclib gffcompare trmap - --../gclib: -- git clone https://github.com/gpertea/gclib.git ../gclib -+gclib: -+ git clone https://github.com/gpertea/gclib.git gclib - - ${GCLIB}/gff.o : ${GCLIB}/gff.h - ./gtf_tracking.o : ./gtf_tracking.h diff --git a/repos/hpccf/packages/gffcompare/package.py b/repos/hpccf/packages/gffcompare/package.py deleted file mode 100644 index 22bd085e..00000000 --- a/repos/hpccf/packages/gffcompare/package.py +++ /dev/null @@ -1,34 +0,0 @@ -# Copyright 2013-2022 Lawrence Livermore National Security, LLC and other -# Spack Project Developers. See the top-level COPYRIGHT file for details. -# -# SPDX-License-Identifier: (Apache-2.0 OR MIT) - -from spack.package import * - - -class Gffcompare(MakefilePackage): - """Compare and evaluate the accuracy of RNA-Seq transcript assemblers - (Cufflinks, Stringtie); collapse (merge) duplicate transcripts from multiple - GTF/GFF3 files (e.g. resulted from assembly of different samples); - classify transcripts from one or multiple GTF/GFF3 files as they relate - to reference transcripts provided in a annotation file (also in GTF/GFF3 format) - - More details can be found in the paper: DOI: 10.12688/f1000research.23297.1""" - - homepage = "https://github.com/gpertea/gffcompare" - url = "https://github.com/gpertea/gffcompare/archive/refs/tags/v0.12.6.tar.gz" - - maintainers = ["camillescott"] - - version("0.12.6", sha256="4e01344c533987a0a8227bfcca9d180504c1a1392aa343e1f6b0752341e712cf") - - resource(name="gclib", - git="https://github.com/gpertea/gclib.git", - tag="v0.12.7") - - patch("Makefile.patch") - - def install(self, spec, prefix): - mkdirp(prefix.bin) - install("gffcompare", prefix.bin) - diff --git a/repos/hpccf/packages/gffread/Makefile.patch b/repos/hpccf/packages/gffread/Makefile.patch deleted file mode 100644 index e3f44c14..00000000 --- a/repos/hpccf/packages/gffread/Makefile.patch +++ /dev/null @@ -1,22 +0,0 @@ ---- a/Makefile 2021-07-23 07:21:36.000000000 -0700 -+++ b/Makefile 2023-04-05 13:21:23.033192841 -0700 -@@ -1,4 +1,4 @@ --GCLDIR := $(if $(GCLDIR),$(GCLDIR),../gclib) -+GCLDIR := $(if $(GCLDIR),$(GCLDIR),gclib) - - SEARCHDIRS := -I. -I${GCLDIR} - -@@ -79,10 +79,10 @@ - - .PHONY : all - --all static release debug memcheck memdebug profile gprof prof: ../gclib gffread -+all static release debug memcheck memdebug profile gprof prof: gclib gffread - --../gclib: -- git clone https://github.com/gpertea/gclib.git ../gclib -+./gclib: -+ git clone https://github.com/gpertea/gclib.git gclib - - $(OBJS) : $(GCLDIR)/GBase.h $(GCLDIR)/gff.h - gffread.o : gff_utils.h $(GCLDIR)/GBase.h $(GCLDIR)/gff.h diff --git a/repos/hpccf/packages/gffread/package.py b/repos/hpccf/packages/gffread/package.py deleted file mode 100644 index 74c4d22c..00000000 --- a/repos/hpccf/packages/gffread/package.py +++ /dev/null @@ -1,29 +0,0 @@ -# Copyright 2013-2022 Lawrence Livermore National Security, LLC and other -# Spack Project Developers. See the top-level COPYRIGHT file for details. -# -# SPDX-License-Identifier: (Apache-2.0 OR MIT) - - -from spack.package import * - - -class Gffread(MakefilePackage): - """GFF/GTF utility providing format conversions, filtering, FASTA sequence extraction and more. - The paper can be found at: DOI: 10.12688/f1000research.23297.1""" - - homepage = "https://github.com/gpertea/gffread" - url = "https://github.com/gpertea/gffread/archive/refs/tags/v0.12.7.tar.gz" - - maintainers = ["camillescott"] - - version("0.12.7", sha256="6f3417090b3beb74f435bf5d462c87475b3c704a8a0d71821f6c1321c47dbbbe") - - resource(name="gclib", - git="https://github.com/gpertea/gclib.git", - tag="v0.12.7") - - patch("Makefile.patch") - - def install(self, spec, prefix): - mkdirp(prefix.bin) - install("gffread", prefix.bin) diff --git a/repos/hpccf/packages/glimpse2/package.py b/repos/hpccf/packages/glimpse2/package.py index dcb11862..5a3f58f4 100644 --- a/repos/hpccf/packages/glimpse2/package.py +++ b/repos/hpccf/packages/glimpse2/package.py @@ -1,42 +1,19 @@ -# Copyright 2013-2022 Lawrence Livermore National Security, LLC and other +# Copyright 2013-2024 Lawrence Livermore National Security, LLC and other # Spack Project Developers. See the top-level COPYRIGHT file for details. # # SPDX-License-Identifier: (Apache-2.0 OR MIT) -# ---------------------------------------------------------------------------- -# If you submit this package back to Spack as a pull request, -# please first remove this boilerplate and all FIXME comments. -# -# This is a template package file for Spack. We've put "FIXME" -# next to all the things you'll want to change. Once you've handled -# them, you can save this file and test your package like this: -# -# spack install glimpse -# -# You can edit this file again by typing: -# -# spack edit glimpse -# -# See the Spack documentation for more information on packaging. -# ---------------------------------------------------------------------------- - from spack.package import * class Glimpse2(MakefilePackage): """GLIMPSE2 is a set of tools for phasing and imputation for low-coverage sequencing datasets.""" - # FIXME: Add a proper url for your package's homepage here. homepage = "https://odelaneau.github.io/GLIMPSE" url = "https://github.com/odelaneau/GLIMPSE/archive/refs/tags/v2.0.0.tar.gz" - # FIXME: Add a list of GitHub accounts to - # notify when the package is updated. - # maintainers = ["github_user1", "github_user2"] - version("2.0.0", sha256="9babfdbb4907d3528f16494f8913abb2b72676710a984becfeabe5f51c354854") - # depends_on("foo") depends_on("htslib@1.7:", type='build') depends_on("boost@1.65: +iostreams +program_options +serialization", type='build') depends_on("xz", type='build') @@ -52,7 +29,6 @@ class Glimpse2(MakefilePackage): 'split_reference', ] - def edit(self, spec, prefix): # unil-dcsr seems to be a more cluster friendly build. env['COMPILATION_ENV'] = 'unil-dcsr' diff --git a/repos/hpccf/packages/gtk-doc/build.patch b/repos/hpccf/packages/gtk-doc/build.patch deleted file mode 100644 index eff4dfed..00000000 --- a/repos/hpccf/packages/gtk-doc/build.patch +++ /dev/null @@ -1,25 +0,0 @@ -diff -ru gtk-doc-GTK_DOC_1_32.orig/m4/gtkdoc_jh_check_xml_catalog.m4 gtk-doc-GTK_DOC_1_32.new/m4/gtkdoc_jh_check_xml_catalog.m4 ---- gtk-doc-GTK_DOC_1_32.orig/m4/gtkdoc_jh_check_xml_catalog.m4 2021-03-17 08:00:49.717688000 -0700 -+++ gtk-doc-GTK_DOC_1_32.new/m4/gtkdoc_jh_check_xml_catalog.m4 2021-03-17 08:01:30.600655000 -0700 -@@ -6,7 +6,7 @@ - AC_REQUIRE([JH_PATH_XML_CATALOG],[JH_PATH_XML_CATALOG(,[:])])dnl - AC_MSG_CHECKING([for ifelse([$2],,[$1],[$2]) in XML catalog]) - if $jh_found_xmlcatalog && \ -- AC_RUN_LOG([$XMLCATALOG --noout "$XML_CATALOG_FILE" "$1" >&2]); then -+ AC_RUN_LOG([$XMLCATALOG --noout "" "$1" >&2]); then - AC_MSG_RESULT([found]) - ifelse([$3],,,[$3]) - else -diff -ru gtk-doc-GTK_DOC_1_32.orig/m4/gtkdoc_jh_path_xml_catalog.m4 gtk-doc-GTK_DOC_1_32.new/m4/gtkdoc_jh_path_xml_catalog.m4 ---- gtk-doc-GTK_DOC_1_32.orig/m4/gtkdoc_jh_path_xml_catalog.m4 2021-03-17 08:00:49.720681000 -0700 -+++ gtk-doc-GTK_DOC_1_32.new/m4/gtkdoc_jh_path_xml_catalog.m4 2021-03-17 08:09:44.424666000 -0700 -@@ -37,6 +37,9 @@ - break - fi - done -+ if test -n "$XML_CATALOG_FILES"; then -+ jh_found_xmlcatalog=true -+ fi - IFS="$jh_xml_catalog_saved_ifs" - fi - if $jh_found_xmlcatalog; then diff --git a/repos/hpccf/packages/gtk-doc/package.py b/repos/hpccf/packages/gtk-doc/package.py deleted file mode 100644 index 7e5be0e4..00000000 --- a/repos/hpccf/packages/gtk-doc/package.py +++ /dev/null @@ -1,71 +0,0 @@ -# Copyright 2013-2022 Lawrence Livermore National Security, LLC and other -# Spack Project Developers. See the top-level COPYRIGHT file for details. -# -# SPDX-License-Identifier: (Apache-2.0 OR MIT) - -from spack.package import * - - -class GtkDoc(AutotoolsPackage): - """GtkDoc is a tool used to extract API documentation from - C-code like Doxygen, but handles documentation of GObject - (including signals and properties) that makes it very - suitable for GTK+ apps and libraries. It uses docbook for - intermediate files and can produce html by default and - pdf/man-pages with some extra work.""" - - homepage = "https://wiki.gnome.org/DocumentationProject/GtkDoc" - url = "https://gitlab.gnome.org/GNOME/gtk-doc/-/archive/1.33.2/gtk-doc-1.33.2.tar.gz" - - version("1.33.2", sha256="2d1b0cbd26edfcb54694b2339106a02a81d630a7dedc357461aeb186874cc7c0") - version("1.32", sha256="0890c1f00d4817279be51602e67c4805daf264092adc58f9c04338566e8225ba") - - # Commented out until package dblatex has been created - # variant('pdf', default=False, description='Adds PDF support') - - depends_on("autoconf", type="build") - depends_on("automake", type="build") - depends_on("itstool", type="build") - depends_on("libtool", type="build") - depends_on("m4", type="build") - depends_on("pkgconfig@0.19:", type=("build", "run")) - - depends_on("python@3.2:", type=("build", "run")) - depends_on("py-pygments", type=("build", "run")) - depends_on("py-anytree", type=("test")) - depends_on("py-lxml", type=("test")) - depends_on("py-parameterized", type=("test")) - depends_on("py-six", type=("test")) - depends_on("libxslt") - depends_on("libxml2@2.3.6:") - depends_on("docbook-xsl") - depends_on("docbook-xml") - # depends_on('dblatex', when='+pdf') - - patch("build.patch") - - def setup_build_environment(self, env): - """If test/tools.sh does not find gtkdocize it starts a sh which blocks""" - env.prepend_path("PATH", join_path(self.stage.source_path, "buildsystems", "autotools")) - - def install(self, spec, prefix): - make("install", "V=1") - install(join_path("buildsystems", "autotools", "gtkdocize"), prefix.bin) - - def installcheck(self): - """gtk-doc does not support installcheck properly, skip it""" - pass - - def url_for_version(self, version): - """Handle gnome's version-based custom URLs.""" - - if version <= Version("1.32"): - url = "https://gitlab.gnome.org/GNOME/gtk-doc/-/archive/GTK_DOC_{0}/gtk-doc-GTK_DOC_{0}.tar.gz" - return url.format(version.underscored) - - url = "https://gitlab.gnome.org/GNOME/gtk-doc/-/archive/{0}/gtk-doc-{0}.tar.gz" - return url.format(version) - - def configure_args(self): - args = ["--with-xml-catalog={0}".format(self.spec["docbook-xml"].package.catalog)] - return args diff --git a/repos/hpccf/packages/h5z-zfp/Makefile.0.7.0.patch b/repos/hpccf/packages/h5z-zfp/Makefile.0.7.0.patch deleted file mode 100644 index 2f82ac7c..00000000 --- a/repos/hpccf/packages/h5z-zfp/Makefile.0.7.0.patch +++ /dev/null @@ -1,11 +0,0 @@ ---- spack-src/src/Makefile.orig 2022-02-02 17:42:03.000000000 +0900 -+++ spack-src/src/Makefile 2022-02-02 17:42:34.000000000 +0900 -@@ -54,7 +54,7 @@ - $(INSTALL) libh5zzfp.a $(PREFIX)/lib - $(INSTALL) -m 644 H5Zzfp.h H5Zzfp_lib.h H5Zzfp_plugin.h H5Zzfp_props.h $(PREFIX)/include - ifneq ($(FC),) -- $(INSTALL) -m 644 H5Zzfp_props_f.mod $(PREFIX)/include -+ $(INSTALL) -m 644 *.[mM][oO][dD] $(PREFIX)/include - endif - - clean: diff --git a/repos/hpccf/packages/h5z-zfp/config.make.0.7.0.patch b/repos/hpccf/packages/h5z-zfp/config.make.0.7.0.patch deleted file mode 100644 index e163292a..00000000 --- a/repos/hpccf/packages/h5z-zfp/config.make.0.7.0.patch +++ /dev/null @@ -1,11 +0,0 @@ ---- spack-src/config.make.orig 2017-06-09 21:15:21.000000000 +0900 -+++ spack-src/config.make 2022-02-02 17:04:31.000000000 +0900 -@@ -16,6 +16,8 @@ - H5Z_ZFP_BASE := ../src - else ifeq ($(PWD_BASE),H5Z-ZFP) - H5Z_ZFP_BASE := ./src -+else -+ H5Z_ZFP_BASE := ./src - endif - H5Z_ZFP_PLUGIN := $(H5Z_ZFP_BASE)/plugin - H5Z_ZFP_VERSINFO := $(shell grep '^\#define H5Z_FILTER_ZFP_VERSION_[MP]' $(H5Z_ZFP_BASE)/H5Zzfp_plugin.h | cut -d' ' -f3 | tr '\n' '.' | cut -d'.' -f-3 2>/dev/null) diff --git a/repos/hpccf/packages/h5z-zfp/config.make.patch b/repos/hpccf/packages/h5z-zfp/config.make.patch deleted file mode 100644 index 4879a1b7..00000000 --- a/repos/hpccf/packages/h5z-zfp/config.make.patch +++ /dev/null @@ -1,46 +0,0 @@ -diff --git a/config.make b/config.make -index d782bd1..1c53ab8 100644 ---- a/config.make -+++ b/config.make -@@ -128,18 +128,37 @@ ZFP_INC = $(ZFP_HOME)/inc - else - ZFP_INC = $(ZFP_HOME)/include - endif -+ifeq ($(wildcard $(ZFP_HOME)/lib),) -+ZFP_LIB = $(ZFP_HOME)/lib64 -+else - ZFP_LIB = $(ZFP_HOME)/lib -+endif -+ -+# Check if specified individually the HDF5 include directory, -+# library directory and bin directory separated by commas, i.e. HDF5_HOME=INC,LIB,BIN - --HDF5_INC = $(HDF5_HOME)/include --HDF5_LIB = $(HDF5_HOME)/lib --HDF5_BIN = $(HDF5_HOME)/bin -+ifneq (,$(findstring ",",$(HDF5_HOME))) -+ HDF5_INC = $(shell echo $(HDF5_HOME) | awk -F'[,]' '{print $$1}') -+ HDF5_LIB = $(shell echo $(HDF5_HOME) | awk -F'[,]' '{print $$2}') -+ HDF5_BIN = $(shell echo $(HDF5_HOME) | awk -F'[,]' '{print $$3}') -+ MAKEVARS = -+else -+ HDF5_INC = $(HDF5_HOME)/include -+ ifeq ($(wildcard $(HDF5_HOME)/lib),) -+ HDF5_LIB = $(HDF5_HOME)/lib64 -+ else -+ HDF5_LIB = $(HDF5_HOME)/lib -+ endif -+ HDF5_BIN = $(HDF5_HOME)/bin -+ MAKEVARS = HDF5_HOME=$(HDF5_HOME) -+endif - - ifeq ($(PREFIX),) - PREFIX := $(shell pwd)/install - endif - INSTALL ?= install - --MAKEVARS = ZFP_HOME=$(ZFP_HOME) HDF5_HOME=$(HDF5_HOME) PREFIX=$(PREFIX) -+MAKEVARS += ZFP_HOME=$(ZFP_HOME) PREFIX=$(PREFIX) - - .SUFFIXES: - .SUFFIXES: .c .F90 .h .o .mod diff --git a/repos/hpccf/packages/h5z-zfp/fj.patch b/repos/hpccf/packages/h5z-zfp/fj.patch deleted file mode 100644 index fd3ff5c7..00000000 --- a/repos/hpccf/packages/h5z-zfp/fj.patch +++ /dev/null @@ -1,23 +0,0 @@ ---- spack-src/config.make.org 2022-02-01 18:43:23.000000000 +0900 -+++ spack-src/config.make 2022-02-01 18:42:54.000000000 +0900 -@@ -106,6 +106,11 @@ - SOEXT ?= so - SHFLAG ?= -qmkshrobj - PREPATH = -Wl,-R, -+else ifneq ($(findstring fcc, $(CC)),) -+ CFLAGS += -KPIC -+ SOEXT ?= so -+ SHFLAG ?= -shared -+ PREPATH = -Wl,-rpath, - endif - - ifneq ($(findstring gfortran, $(FC)),) -@@ -118,6 +123,8 @@ - FCFLAGS += -qpic - else ifneq ($(findstring bgxlf_r, $(FC)),) - FCFLAGS += -qpic -+else ifneq ($(findstring frt, $(FC)),) -+ FCFLAGS += -KPIC - else ifneq ($(findstring f77, $(FC)),) - # some makefile versions set FC=f77 if FC is not set - FC = diff --git a/repos/hpccf/packages/h5z-zfp/package.py b/repos/hpccf/packages/h5z-zfp/package.py deleted file mode 100644 index ae019d0b..00000000 --- a/repos/hpccf/packages/h5z-zfp/package.py +++ /dev/null @@ -1,69 +0,0 @@ -# Copyright 2013-2022 Lawrence Livermore National Security, LLC and other -# Spack Project Developers. See the top-level COPYRIGHT file for details. -# -# SPDX-License-Identifier: (Apache-2.0 OR MIT) - -from spack.package import * - - -class H5zZfp(MakefilePackage): - """A highly flexible floating point and integer compression plugin for the - HDF5 library using ZFP compression.""" - - homepage = "https://h5z-zfp.readthedocs.io/en/latest" - git = "https://github.com/LLNL/H5Z-ZFP.git" - url = "https://github.com/LLNL/H5Z-ZFP/archive/refs/tags/v1.0.1.tar.gz" - - version("develop", branch="master") - version("1.1.0", sha256="48a81e69d1f3b61d9a1eb07e868164fadf3b88690ec930efd849f5889681a893") - version("1.0.1", sha256="b9ed91dab8e2ef82dc6706b4242c807fb352875e3b21c217dd00782dd1a22b24") - version("0.8.0", sha256="a5eb089191369a5e929c51ec9e5da107afaee39c6ab3b7ad693c454319ab9217") - version("0.7.0", sha256="f728b0bcb9e9cf8bafe05909ab02fec39415635d275e98b661176f69d34f87b3") - - variant("fortran", default=True, description="Enable Fortran support") - - depends_on("hdf5+fortran", when="+fortran") - depends_on("hdf5", when="~fortran") - depends_on("mpi", when="^hdf5+mpi") - depends_on("zfp bsws=8") - - patch( - "https://github.com/LLNL/H5Z-ZFP/commit/983a1870cefff5fdb643898a14eda855c2c231e4.patch?full_index=1", - sha256="07a53b8b0d4c1df62a3f9f21b30ad0eb90f26b38eb6cacc0de6482fd8f5daea2", - when="@1.0.1", - ) - patch("config.make.patch", when="@0.7.0:0.8.0") - patch("config.make.0.7.0.patch", when="@0.7.0") - patch("Makefile.0.7.0.patch", when="@0.7.0") - patch("fj.patch", when="@0.7.0: %fj") - - @property - def make_defs(self): - cc = spack_cc - fc = spack_fc - if "^hdf5+mpi" in self.spec: - cc = self.spec["mpi"].mpicc - fc = self.spec["mpi"].mpifc - make_defs = [ - "PREFIX=%s" % prefix, - "CC=%s" % cc, - "HDF5_HOME=%s" % self.spec["hdf5"].prefix, - "ZFP_HOME=%s" % self.spec["zfp"].prefix, - ] - - if "+fortran" in self.spec and fc: - make_defs += ["FC=%s" % fc] - else: - make_defs += ["FC="] - - return make_defs - - @property - def build_targets(self): - targets = ["all"] - return self.make_defs + targets - - @property - def install_targets(self): - make_args = ["install"] - return make_args + self.make_defs diff --git a/repos/hpccf/packages/hadoop/package.py b/repos/hpccf/packages/hadoop/package.py deleted file mode 100644 index 6cba04f7..00000000 --- a/repos/hpccf/packages/hadoop/package.py +++ /dev/null @@ -1,43 +0,0 @@ -# Copyright 2013-2021 Lawrence Livermore National Security, LLC and other -# Spack Project Developers. See the top-level COPYRIGHT file for details. -# -# SPDX-License-Identifier: (Apache-2.0 OR MIT) - -from spack.package import * - - -class Hadoop(Package): - """The Apache Hadoop software library is a framework that - allows for the distributed processing of large data sets - across clusters of computers using simple programming models. - """ - - homepage = "https://hadoop.apache.org/" - url = "https://www.apache.org/dist/hadoop/common/hadoop-3.3.2/hadoop-3.3.2.tar.gz" - - version('3.3.2', sha256='b341587495b12eec0b244b517f21df88eb46ef634dc7dc3e5969455b80ce2ce5') - version('3.3.0', sha256='ea1a0f0afcdfb9b6b9d261cdce5a99023d7e8f72d26409e87f69bda65c663688') - version('3.2.2', sha256='97e73b46c3972cd3c40c2295bd9488843c24e8503c36e7c57f6e6ecc4e12b8c3') - version('3.2.1', sha256='f66a3a4115b8f16c1077d1a198a06854dbef0e4233291712ed08d0a10629ed37') - version('3.1.3', sha256='1e8b7ca4e3911f8ec999595f71921390e9ad7a27255fbd36af1f3a1628b67e2b') - version('2.10.1', sha256='273d5fa1d479d0bb96759b16cf4cbd6ba3e7f863a0778cbae55ab83417e961f0') - version('2.10.0', sha256='131750c258368be4baff5d4a83b4de2cd119bda3774ed26d1d233b6fdf33f07f') - version('2.9.2', sha256='3d2023c46b1156c1b102461ad08cbc17c8cc53004eae95dab40a1f659839f28a') - version('2.8.5', sha256='f9c726df693ce2daa4107886f603270d66e7257f77a92c9886502d6cd4a884a4') - version('2.7.7', sha256='d129d08a2c9dafec32855a376cbd2ab90c6a42790898cabbac6be4d29f9c2026') - version('2.7.5', sha256='0bfc4d9b04be919be2fdf36f67fa3b4526cdbd406c512a7a1f5f1b715661f831') - - depends_on('java', type='run') - - def install(self, spec, prefix): - - def install_dir(dirname): - install_tree(dirname, join_path(prefix, dirname)) - - install_dir('bin') - install_dir('etc') - install_dir('include') - install_dir('lib') - install_dir('libexec') - install_dir('sbin') - install_dir('share') diff --git a/repos/hpccf/packages/hadoop/package.py.orig b/repos/hpccf/packages/hadoop/package.py.orig deleted file mode 100644 index 53527fe5..00000000 --- a/repos/hpccf/packages/hadoop/package.py.orig +++ /dev/null @@ -1,42 +0,0 @@ -# Copyright 2013-2021 Lawrence Livermore National Security, LLC and other -# Spack Project Developers. See the top-level COPYRIGHT file for details. -# -# SPDX-License-Identifier: (Apache-2.0 OR MIT) - -from spack import * - - -class Hadoop(Package): - """The Apache Hadoop software library is a framework that - allows for the distributed processing of large data sets - across clusters of computers using simple programming models. - """ - - homepage = "https://hadoop.apache.org/" - url = "https://www.apache.org/dist/hadoop/common/hadoop-3.2.1/hadoop-3.2.1.tar.gz" - - version('3.3.0', sha256='ea1a0f0afcdfb9b6b9d261cdce5a99023d7e8f72d26409e87f69bda65c663688') - version('3.2.2', sha256='97e73b46c3972cd3c40c2295bd9488843c24e8503c36e7c57f6e6ecc4e12b8c3') - version('3.2.1', sha256='f66a3a4115b8f16c1077d1a198a06854dbef0e4233291712ed08d0a10629ed37') - version('3.1.3', sha256='1e8b7ca4e3911f8ec999595f71921390e9ad7a27255fbd36af1f3a1628b67e2b') - version('2.10.1', sha256='273d5fa1d479d0bb96759b16cf4cbd6ba3e7f863a0778cbae55ab83417e961f0') - version('2.10.0', sha256='131750c258368be4baff5d4a83b4de2cd119bda3774ed26d1d233b6fdf33f07f') - version('2.9.2', sha256='3d2023c46b1156c1b102461ad08cbc17c8cc53004eae95dab40a1f659839f28a') - version('2.8.5', sha256='f9c726df693ce2daa4107886f603270d66e7257f77a92c9886502d6cd4a884a4') - version('2.7.7', sha256='d129d08a2c9dafec32855a376cbd2ab90c6a42790898cabbac6be4d29f9c2026') - version('2.7.5', sha256='0bfc4d9b04be919be2fdf36f67fa3b4526cdbd406c512a7a1f5f1b715661f831') - - depends_on('java', type='run') - - def install(self, spec, prefix): - - def install_dir(dirname): - install_tree(dirname, join_path(prefix, dirname)) - - install_dir('bin') - install_dir('etc') - install_dir('include') - install_dir('lib') - install_dir('libexec') - install_dir('sbin') - install_dir('share') diff --git a/repos/hpccf/packages/highway/package.py b/repos/hpccf/packages/highway/package.py deleted file mode 100644 index 5e84da55..00000000 --- a/repos/hpccf/packages/highway/package.py +++ /dev/null @@ -1,29 +0,0 @@ -# Copyright 2013-2022 Lawrence Livermore National Security, LLC and other -# Spack Project Developers. See the top-level COPYRIGHT file for details. -# -# SPDX-License-Identifier: (Apache-2.0 OR MIT) - -# -# TODO: This is a backport! Remove when base spack is upgraded. -# - - -from spack.package import * - - -class Highway(CMakePackage): - """Performance-portable, length-agnostic SIMD with runtime dispatch.""" - - homepage = "https://github.com/google/highway" - url = "https://github.com/google/highway/archive/refs/tags/1.0.0.tar.gz" - - version("1.0.0", sha256="ab4f5f864932268356f9f6aa86f612fa4430a7db3c8de0391076750197e876b8") - - depends_on("cmake@3.10:", type="build") - depends_on("googletest", type="test") - - def cmake_args(self): - args = [] - if self.run_tests: - args.append(self.define("HWY_SYSTEM_GTEST", True)) - return args diff --git a/repos/hpccf/packages/jasper b/repos/hpccf/packages/jasper deleted file mode 120000 index 61722edd..00000000 --- a/repos/hpccf/packages/jasper +++ /dev/null @@ -1 +0,0 @@ -../../backports/packages/jasper \ No newline at end of file diff --git a/repos/hpccf/packages/jdk/package.py b/repos/hpccf/packages/jdk/package.py deleted file mode 100644 index 5750671b..00000000 --- a/repos/hpccf/packages/jdk/package.py +++ /dev/null @@ -1,252 +0,0 @@ -# Copyright 2013-2023 Lawrence Livermore National Security, LLC and other -# Spack Project Developers. See the top-level COPYRIGHT file for details. -# -# SPDX-License-Identifier: (Apache-2.0 OR MIT) - -import os -import re - -import llnl.util.tty as tty - -from spack.package import * -from spack.util.prefix import Prefix - - -class Jdk(Package): - """The Java Development Kit (JDK) released by Oracle Corporation in the - form of a binary product aimed at Java developers. Includes a complete JRE - plus tools for developing, debugging, and monitoring Java applications.""" - - homepage = "https://www.oracle.com/technetwork/java/javase/downloads/index.html" - - maintainers = ["justintoo"] - - # Oracle requires that you accept their License Agreement in order - # to access the Java packages in download.oracle.com. In order to - # automate this process, we need to utilize these additional curl - # command-line options. See: - # http://stackoverflow.com/questions/10268583/how-to-automate-download-and-installation-of-java-jdk-on-linux - fetch_options = {"cookie": "oraclelicense=accept-securebackup-cookie"} - - # To add the latest version, go to the homepage listed above, - # click "JDK Download", click "Accept License Agreement", right-click the - # Linux .tar.gz link, and select Copy Link Address. The checksum can be - # found in a link above. The build number can be deciphered from the URL. - # Alternatively, run `bin/java -version` after extracting. Replace '+' - # symbol in version with '_', otherwise it will be interpreted as a variant - - version( - "17.0.1", - sha256="6f25bcb94d3e22fb52a4632c74e03b403834e81b68701ab7ecd900fb9cd89f43", - url="https://download.oracle.com/java/17/archive/jdk-17.0.1_linux-x64_bin.tar.gz" - ) - - version( - "14_36", - sha256="4639bbaecc9cc606f1a4b99fda1efcaefcbf57a7025b3828b095093a6c866afd", - url="https://download.oracle.com/otn-pub/java/jdk/14+36/076bab302c7b4508975440c56f6cc26a/jdk-14_linux-x64_bin.tar.gz", - ) - version( - "12.0.2_10", - sha256="2dde6fda89a4ec6e6560ed464e917861c9e40bf576e7a64856dafc55abaaff51", - url="https://download.oracle.com/otn-pub/java/jdk/12.0.2+10/e482c34c86bd4bf8b56c0b35558996b9/jdk-12.0.2_linux-x64_bin.tar.gz", - ) - version( - "12.0.1_12", - sha256="9fd6dcdaf2cfca7da59e39b009a0f5bcd53bec2fb16105f7ca8d689cdab68d75", - url="https://download.oracle.com/otn-pub/java/jdk/12.0.1+12/69cfe15208a647278a19ef0990eea691/jdk-12.0.1_linux-x64_bin.tar.gz", - ) - version( - "11.0.2_9", - sha256="7b4fd8ffcf53e9ff699d964a80e4abf9706b5bdb5644a765c2b96f99e3a2cdc8", - url="https://download.oracle.com/otn-pub/java/jdk/11.0.2+9/f51449fcd52f4d52b93a989c5c56ed3c/jdk-11.0.2_linux-x64_bin.tar.gz", - ) - version( - "11.0.1_13", - sha256="e7fd856bacad04b6dbf3606094b6a81fa9930d6dbb044bbd787be7ea93abc885", - url="https://download.oracle.com/otn-pub/java/jdk/11.0.1+13/90cf5d8f270a4347a95050320eef3fb7/jdk-11.0.1_linux-x64_bin.tar.gz", - ) - version( - "10.0.2_13", - sha256="6633c20d53c50c20835364d0f3e172e0cbbce78fff81867488f22a6298fa372b", - url="https://download.oracle.com/otn-pub/java/jdk/10.0.2+13/19aef61b38124481863b1413dce1855f/jdk-10.0.2_linux-x64_bin.tar.gz", - ) - version( - "10.0.1_10", - sha256="ae8ed645e6af38432a56a847597ac61d4283b7536688dbab44ab536199d1e5a4", - url="https://download.oracle.com/otn-pub/java/jdk/10.0.1+10/fb4372174a714e6b8c52526dc134031e/jdk-10.0.1_linux-x64_bin.tar.gz", - ) - version( - "1.8.0_241-b07", - sha256="419d32677855f676076a25aed58e79432969142bbd778ff8eb57cb618c69e8cb", - url="https://download.oracle.com/otn-pub/java/jdk/8u241-b07/1f5b5a70bf22433b84d0e960903adac8/jdk-8u241-linux-x64.tar.gz", - ) - version( - "1.8.0_231-b11", - sha256="a011584a2c9378bf70c6903ef5fbf101b30b08937441dc2ec67932fb3620b2cf", - url="https://download.oracle.com/otn-pub/java/jdk/8u231-b11/5b13a193868b4bf28bcb45c792fce896/jdk-8u231-linux-x64.tar.gz", - ) - version( - "1.8.0_212-b10", - sha256="3160c50aa8d8e081c8c7fe0f859ea452922eca5d2ae8f8ef22011ae87e6fedfb", - url="https://download.oracle.com/otn-pub/java/jdk/8u212-b10/59066701cf1a433da9770636fbc4c9aa/jdk-8u212-linux-x64.tar.gz", - ) - version( - "1.8.0_202-b08", - sha256="9a5c32411a6a06e22b69c495b7975034409fa1652d03aeb8eb5b6f59fd4594e0", - url="https://download.oracle.com/otn-pub/java/jdk/8u202-b08/1961070e4c9b4e26a04e7f5a083f551e/jdk-8u202-linux-x64.tar.gz", - ) - version( - "1.8.0_141-b15", - sha256="041d5218fbea6cd7e81c8c15e51d0d32911573af2ed69e066787a8dc8a39ba4f", - url="https://download.oracle.com/otn-pub/java/jdk/8u141-b15/336fa29ff2bb4ef291e347e091f7f4a7/jdk-8u141-linux-x64.tar.gz", - ) - version( - "1.8.0_131-b11", - sha256="62b215bdfb48bace523723cdbb2157c665e6a25429c73828a32f00e587301236", - url="https://download.oracle.com/otn-pub/java/jdk/8u131-b11/d54c1d3a095b4ff2b6607d096fa80163/jdk-8u131-linux-x64.tar.gz", - ) - - provides("java@14", when="@14.0:14") - provides("java@13", when="@13.0:13") - provides("java@12", when="@12.0:12") - provides("java@11", when="@11.0:11") - provides("java@10", when="@10.0:10") - provides("java@9", when="@9.0:9") - provides("java@8", when="@1.8.0:1.8") - provides("java@7", when="@1.7.0:1.7") - - conflicts("target=ppc64:", msg="jdk is only available for x86_64") - conflicts("target=ppc64le:", msg="jdk is only available for x86_64") - - # FIXME: - # 1. `extends('java')` doesn't work, you need to use `extends('jdk')` - # 2. Packages cannot extend multiple packages, see #987 - # 3. Update `YamlFilesystemView.merge` to allow a Package to completely - # override how it is symlinked into a view prefix. Then, spack activate - # can symlink all *.jar files to `prefix.lib.ext` - extendable = True - - executables = ["^java$"] - - @classmethod - def determine_version(cls, exe): - output = Executable(exe)("-version", output=str, error=str) - - # Make sure this is actually Oracle JDK, not OpenJDK - if "openjdk" in output: - return None - - match = re.search(r"\(build (\S+)\)", output) - return match.group(1).replace("+", "_") if match else None - - @property - def home(self): - """Most of the time, ``JAVA_HOME`` is simply ``spec['java'].prefix``. - However, if the user is using an externally installed JDK, it may be - symlinked. For example, on macOS, the ``java`` executable can be found - in ``/usr/bin``, but ``JAVA_HOME`` is actually - ``/Library/Java/JavaVirtualMachines/jdk-10.0.1.jdk/Contents/Home``. - Users may not know the actual installation directory and add ``/usr`` - to their ``packages.yaml`` unknowingly. Run ``java_home`` if it exists - to determine exactly where it is installed. Specify which version we - are expecting in case multiple Java versions are installed. - See ``man java_home`` for more details.""" - - prefix = self.prefix - java_home = prefix.libexec.java_home - if os.path.exists(java_home): - java_home = Executable(java_home) - version = str(self.version.up_to(2)) - prefix = java_home("--version", version, output=str).strip() - prefix = Prefix(prefix) - - return prefix - - @property - def libs(self): - """Depending on the version number and whether the full JDK or just - the JRE was installed, Java libraries can be in several locations: - - * ``lib/libjvm.so`` - * ``jre/lib/libjvm.dylib`` - - Search recursively to find the correct library location.""" - - return find_libraries(["libjvm"], root=self.home, recursive=True) - - @run_before("install") - def macos_check(self): - if self.spec.satisfies("platform=darwin"): - msg = """\ -Spack's JDK package only supports Linux. If you need to install JDK on macOS, -manually download the .dmg from: - - {0} - -and double-click to install. Once JDK is installed, you can tell Spack where -to find it like so. To find the JDK installation directory, run: - - $ /usr/libexec/java_home - -If you have multiple versions of JDK installed, you can specify a particular -version to search for with the --version flag. To find the exact version -number, run: - - $ java -version - -If the version number contains a '+' symbol, replace it with '_', otherwise -Spack will think it is a variant. Add JDK as an external package by running: - - $ spack config edit packages - -and adding entries for each installation: - - packages: - jdk: - buildable: False - externals: - - spec: jdk@10.0.1_10 - prefix: /path/to/jdk/Home - - spec: jdk@1.7.0_45-b18 - prefix: /path/to/jdk/Home""".format( - self.homepage - ) - - tty.die(msg) - - def install(self, spec, prefix): - install_tree(".", prefix) - - def setup_run_environment(self, env): - """Set JAVA_HOME.""" - - env.set("JAVA_HOME", self.home) - - def setup_dependent_build_environment(self, env, dependent_spec): - """Set JAVA_HOME and CLASSPATH. - - CLASSPATH contains the installation prefix for the extension and any - other Java extensions it depends on.""" - - env.set("JAVA_HOME", self.home) - - class_paths = [] - for d in dependent_spec.traverse(deptype=("build", "run", "test")): - if d.package.extends(self.spec): - class_paths.extend(find(d.prefix, "*.jar")) - - classpath = os.pathsep.join(class_paths) - env.set("CLASSPATH", classpath) - - def setup_dependent_run_environment(self, env, dependent_spec): - """Set CLASSPATH. - - CLASSPATH contains the installation prefix for the extension and any - other Java extensions it depends on.""" - # For runtime environment set only the path for - # dependent_spec and prepend it to CLASSPATH - if dependent_spec.package.extends(self.spec): - class_paths = find(dependent_spec.prefix, "*.jar") - classpath = os.pathsep.join(class_paths) - env.prepend_path("CLASSPATH", classpath) diff --git a/repos/hpccf/packages/lastz/package.py b/repos/hpccf/packages/lastz/package.py deleted file mode 100644 index 93f1fb95..00000000 --- a/repos/hpccf/packages/lastz/package.py +++ /dev/null @@ -1,28 +0,0 @@ -# Copyright 2013-2022 Lawrence Livermore National Security, LLC and other -# Spack Project Developers. See the top-level COPYRIGHT file for details. -# -# SPDX-License-Identifier: (Apache-2.0 OR MIT) - -from spack.package import * - - -class Lastz(MakefilePackage): - """LASTZ is a program for aligning DNA sequences, a pairwise aligner.""" - - homepage = "https://lastz.github.io/lastz" - url = "https://github.com/lastz/lastz/archive/1.04.00.tar.gz" - - version("1.04.22", sha256="4c829603ba4aed7ddf64255b528cd88850e4557382fca29580d3576c25c5054a") - version("1.04.15", sha256="46a5cfb1fd41911a36fce5d3a2721ebfec9146952943b302e78b0dfffddd77f8") - version("1.04.03", sha256="c58ed8e37c4b0e82492b3a2b3e12447a3c40286fb8358906d19f10b0a713e9f4") - version("1.04.00", sha256="a4c2c7a77430387e96dbc9f5bdc75874334c672be90f5720956c0f211abf9f5a") - - # Ref: https://github.com/lastz/lastz/commit/20aa14f483265b4eac97f25aca666c708b9655e4 - patch("sequences.c.patch", when="@:1.04.03") - - # set compile commands for each compiler - def edit(self, spec, prefix): - filter_file("gcc", spack_cc, "src/Makefile") - - def install(self, spec, prefix): - make("install", "LASTZ_INSTALL={0}".format(prefix.bin)) diff --git a/repos/hpccf/packages/lastz/sequences.c.patch b/repos/hpccf/packages/lastz/sequences.c.patch deleted file mode 100644 index b5c34108..00000000 --- a/repos/hpccf/packages/lastz/sequences.c.patch +++ /dev/null @@ -1,244 +0,0 @@ ---- spack-src/src/sequences.c.org 2020-03-05 13:34:15.764971874 +0900 -+++ spack-src/src/sequences.c 2020-03-05 13:49:45.315370741 +0900 -@@ -2180,7 +2180,7 @@ - - ch = skip_seq_whitespace (_seq); - -- if (ch != '>') seq_ungetc (ch, _seq); -+ if (ch != '>') seq_ungetc ((char)ch, _seq); - else parse_fasta_header (_seq); - - debugFastaFile_2; -@@ -2298,7 +2298,7 @@ - if (ch == '\r') // handle possible DOS CR-LF line ending - { - ch = seq_getc (_seq); -- if (ch != '\n') seq_ungetc (ch, _seq); -+ if (ch != '\n') seq_ungetc ((char)ch, _seq); - } - - } -@@ -2346,7 +2346,7 @@ - while (ch != EOF) - { - if ((prevCh == '\n') && (ch == '>')) // (start of next sequence) -- { seq_ungetc (ch, _seq); break; } -+ { seq_ungetc ((char)ch, _seq); break; } - - if ((_seq->separatorCh == 0) || (ch != _seq->separatorCh)) - { -@@ -2445,7 +2445,7 @@ - // while (ch != EOF) - // { - // if ((prevCh == '\n') && (ch == '>')) // (start of next sequence) --// { seq_ungetc (ch, _seq); break; } -+// { seq_ungetc ((char)ch, _seq); break; } - // - // switch (char_to_fasta_type[(u8)ch]) - // { -@@ -2627,7 +2627,7 @@ - if (ch == '\r') // handle possible DOS CR-LF line ending - { - ch = seq_getc (_seq); -- if (ch != '\n') seq_ungetc (ch, _seq); -+ if (ch != '\n') seq_ungetc ((char)ch, _seq); - } - - // copy from trueHeader into the header (unless the header is locked), then -@@ -2762,7 +2762,7 @@ - if (ch == '\r') // handle possible DOS CR-LF line ending - { - ch = seq_getc (_seq); -- if (ch != '\n') seq_ungetc (ch, _seq); -+ if (ch != '\n') seq_ungetc ((char)ch, _seq); - } - - _seq->v[_seq->len] = 0; // (set the terminating zero) -@@ -2834,7 +2834,7 @@ - if (ch == '\r') // handle possible DOS CR-LF line ending - { - ch = seq_getc (_seq); -- if (ch != '\n') seq_ungetc (ch, _seq); -+ if (ch != '\n') seq_ungetc ((char)ch, _seq); - } - - ////////// -@@ -2877,7 +2877,7 @@ - if (ch == '\r') // handle possible DOS CR-LF line ending - { - ch = seq_getc (_seq); -- if (ch != '\n') seq_ungetc (ch, _seq); -+ if (ch != '\n') seq_ungetc ((char)ch, _seq); - } - - if (qualCount < nucCount) goto not_enough_qualities; -@@ -3061,7 +3061,7 @@ - ch = seq_getc (_seq); - } - -- if (ch != '>') seq_ungetc (ch, _seq); -+ if (ch != '>') seq_ungetc ((char)ch, _seq); - else parse_csfasta_header (_seq); - - ////////// -@@ -3166,7 +3166,7 @@ - if (ch == '\r') // handle possible DOS CR-LF line ending - { - ch = seq_getc (_seq); -- if (ch != '\n') seq_ungetc (ch, _seq); -+ if (ch != '\n') seq_ungetc ((char)ch, _seq); - } - - } -@@ -3223,7 +3223,7 @@ - { - if ((prevCh == '\n') - && ((ch == '#') || (ch == '>'))) // (start of next sequence) -- { seq_ungetc (ch, _seq); break; } -+ { seq_ungetc ((char)ch, _seq); break; } - - chType = char_to_csfasta_type[(u8)ch]; - switch (chType) -@@ -3324,7 +3324,7 @@ - // { - // if ((prevCh == '\n') - // && ((ch == '#') || (ch == '>'))) // (start of next sequence) --// { seq_ungetc (ch, _seq); break; } -+// { seq_ungetc ((char)ch, _seq); break; } - // - // switch (char_to_csfasta_type[(u8)ch]) - // { -@@ -4701,10 +4701,10 @@ - else if (magic == oldQdnaMagicBig) { oldFormat = bigEndian = true; } - else - { -- seq_ungetc ((magic >> 24) & 0xFF, _seq); -- seq_ungetc ((magic >> 16) & 0xFF, _seq); -- seq_ungetc ((magic >> 8) & 0xFF, _seq); -- seq_ungetc ( magic & 0xFF, _seq); -+ seq_ungetc ((char) ((magic >> 24) & 0xFF), _seq); -+ seq_ungetc ((char) ((magic >> 16) & 0xFF), _seq); -+ seq_ungetc ((char) ((magic >> 8) & 0xFF), _seq); -+ seq_ungetc ((char) ( magic & 0xFF), _seq); - oldFormat = true; - } - -@@ -5050,7 +5050,7 @@ - _seq->filename); - if (ch == EOF) return false; // we're at end of file now - -- seq_ungetc (ch, _seq); // save what we peeked at -+ seq_ungetc ((char)ch, _seq); // save what we peeked at - return true; // we have characters to process - } - -@@ -5074,7 +5074,8 @@ - int headerLen; - int mustBeHeader; - int leadingWhite; -- char ch, *s; -+ int ch; -+ char* s; - int ix; - - debugNamesFile_12; -@@ -5118,7 +5119,7 @@ - - ch = seq_getc (_seq); - if (ch == EOF) goto failure; -- while ((ch != '\n') && (isspace (ch))) -+ while ((ch != '\n') && (isspace (ch))) // nota bene: isspace's arg type is an int - { - leadingWhite++; - ch = seq_getc (_seq); -@@ -5186,7 +5187,7 @@ - - // unget the header - -- seq_ungetc (ch, _seq); // (ch terminated the header) -+ seq_ungetc ((char)ch, _seq); // (ch terminated the header) - - for (ix=strlen(buffer) ; ix>0 ; ) - seq_ungetc (buffer[--ix], _seq); -@@ -5218,7 +5219,8 @@ - char buffer[maxSequenceHeader+1]; - char* header; - int headerLen; -- char ch, *s; -+ int ch; -+ char* s; - int ix; - int ok; - -@@ -5257,7 +5259,7 @@ - if (ch == '\r') // handle possible DOS CR-LF line ending - { - ch = seq_getc (_seq); -- if (ch != '\n') seq_ungetc (ch, _seq); -+ if (ch != '\n') seq_ungetc ((char)ch, _seq); - } - - // if we have a name trigger, locate the sequence's name -@@ -5310,7 +5312,7 @@ - - // unget the header - -- seq_ungetc (ch, _seq); // (ch terminated the header) -+ seq_ungetc ((char)ch, _seq); // (ch terminated the header) - - for (ix=strlen(buffer) ; ix>0 ; ) - seq_ungetc (buffer[--ix], _seq); -@@ -9067,10 +9069,10 @@ - - // put those four bytes back in the file (in reverse of the read order) - -- seq_ungetc (magic >> 24, _seq); -- seq_ungetc (magic >> 16, _seq); -- seq_ungetc (magic >> 8, _seq); -- seq_ungetc (magic , _seq); -+ seq_ungetc ((char) (magic >> 24), _seq); -+ seq_ungetc ((char) (magic >> 16), _seq); -+ seq_ungetc ((char) (magic >> 8), _seq); -+ seq_ungetc ((char) magic , _seq); - - if (type != seq_type_unknown) - return type; -@@ -9080,7 +9082,7 @@ - ////////// - - ch = seq_getc (_seq); -- seq_ungetc (ch, _seq); -+ seq_ungetc ((char)ch, _seq); - if (ch == '@') - return seq_type_fastq; - -@@ -9095,12 +9097,12 @@ - ch = seq_getc (_seq); - if (ch == '#') - { -- seq_ungetc (ch, _seq); -+ seq_ungetc ((char)ch, _seq); - return seq_type_csfasta; - } - - if (ch != '>') -- seq_ungetc (ch, _seq); -+ seq_ungetc ((char)ch, _seq); - else - { - // read header -@@ -9122,12 +9124,12 @@ - - intCh = seq_getc (_seq); - if (intCh == EOF) goto unknown; -- buffer[bufferLen++] = intCh; -+ buffer[bufferLen++] = (char) intCh; - if (ustrchr ("ACGTacgtNn", intCh) != NULL) - { - intCh = seq_getc (_seq); - if (intCh == EOF) goto unknown; -- buffer[bufferLen++] = intCh; -+ buffer[bufferLen++] = (char) intCh; - if (ustrchr ("ACGTacgtNn", intCh) != NULL) - type = seq_type_fasta; - else if (ustrchr ("0123", intCh) != NULL) diff --git a/repos/hpccf/packages/libgta/package.py b/repos/hpccf/packages/libgta/package.py deleted file mode 100644 index 4614b8c3..00000000 --- a/repos/hpccf/packages/libgta/package.py +++ /dev/null @@ -1,24 +0,0 @@ -# Copyright 2013-2022 Lawrence Livermore National Security, LLC and other -# Spack Project Developers. See the top-level COPYRIGHT file for details. -# -# SPDX-License-Identifier: (Apache-2.0 OR MIT) - -# -# TODO: This is a backport! Remove when base spack is upgraded. -# - -from spack.package import * - - -class Libgta(CMakePackage): - """Library that reads and writes Generic Tagged Arrays (GTA) files.""" - - homepage = "https://marlam.de/gta/" - url = "https://marlam.de/gta/releases/libgta-1.2.1.tar.xz" - - version("1.2.1", sha256="d445667e145f755f0bc34ac89b63a6bfdce1eea943f87ee7a3f23dc0dcede8b1") - - depends_on("cmake@3.5:", type="build") - - def cmake_args(self): - return [self.define("GTA_BUILD_DOCUMENTATION", False)] diff --git a/repos/hpccf/packages/libheif/package.py b/repos/hpccf/packages/libheif/package.py deleted file mode 100644 index 2a429519..00000000 --- a/repos/hpccf/packages/libheif/package.py +++ /dev/null @@ -1,21 +0,0 @@ -# Copyright 2013-2022 Lawrence Livermore National Security, LLC and other -# Spack Project Developers. See the top-level COPYRIGHT file for details. -# -# SPDX-License-Identifier: (Apache-2.0 OR MIT) - -# -# TODO: This is a backport! Remove when base spack is upgraded. -# - -from spack.package import * - - -class Libheif(CMakePackage): - """libheif is an HEIF and AVIF file format decoder and encoder.""" - - homepage = "https://github.com/strukturag/libheif" - url = "https://github.com/strukturag/libheif/archive/refs/tags/v1.12.0.tar.gz" - - version("1.12.0", sha256="086145b0d990182a033b0011caadb1b642da84f39ab83aa66d005610650b3c65") - - depends_on("cmake@3.13:", type="build") diff --git a/repos/hpccf/packages/libjxl/package.py b/repos/hpccf/packages/libjxl/package.py deleted file mode 100644 index b95294a9..00000000 --- a/repos/hpccf/packages/libjxl/package.py +++ /dev/null @@ -1,46 +0,0 @@ -# Copyright 2013-2022 Lawrence Livermore National Security, LLC and other -# Spack Project Developers. See the top-level COPYRIGHT file for details. -# -# SPDX-License-Identifier: (Apache-2.0 OR MIT) - -# -# TODO: This is a backport! Remove when base spack is upgraded. -# - - -from spack.package import * - - -class Libjxl(CMakePackage): - """JPEG XL image format reference implementation.""" - - homepage = "https://github.com/libjxl/libjxl" - url = "https://github.com/libjxl/libjxl/archive/refs/tags/v0.6.1.tar.gz" - git = "https://github.com/libjxl/libjxl.git" - - version("main", branch="main", submodules=True) - version("0.6.1", tag="v0.6.1", submodules=True) - - depends_on("cmake@3.10:", type="build") - depends_on("brotli") - depends_on("highway") - - # Only needed at test time, but unfortunately "test" doesn't cause the dep to be added - # by Spack's compiler wrappers. Solution of adding "link" means that dependency is now - # always required... - depends_on("googletest+gmock", type=("link", "test")) - - # https://github.com/libjxl/libjxl/pull/582 - conflicts("%clang", when="@0.6") - conflicts("%apple-clang", when="@0.6") - - def cmake_args(self): - args = [ - self.define("JPEGXL_FORCE_SYSTEM_BROTLI", True), - self.define("JPEGXL_FORCE_SYSTEM_HWY", True), - ] - - if self.run_tests: - args.append(self.define("JPEGXL_FORCE_SYSTEM_GTEST", True)) - - return args diff --git a/repos/hpccf/packages/libxml2 b/repos/hpccf/packages/libxml2 deleted file mode 120000 index 7a507424..00000000 --- a/repos/hpccf/packages/libxml2 +++ /dev/null @@ -1 +0,0 @@ -../../forked/packages/libxml2 \ No newline at end of file diff --git a/repos/hpccf/packages/mlxup/package.py b/repos/hpccf/packages/mlxup/package.py new file mode 100644 index 00000000..7d7a3273 --- /dev/null +++ b/repos/hpccf/packages/mlxup/package.py @@ -0,0 +1,31 @@ +# Copyright 2013-2024 Lawrence Livermore National Security, LLC and other +# Spack Project Developers. See the top-level COPYRIGHT file for details. +# +# SPDX-License-Identifier: (Apache-2.0 OR MIT) + +from spack.package import * + + +class Mlxup(Package): + """A firmware update and query utility. The utility enables scanning the server + machine for available NVIDIA adapters and indicates whether firmware update is + required for each adapter. To make it easier for our customers the mlxup can also + automatically update the latest firmware either from the web, or use binaries + provided locally.""" + + homepage = "https://network.nvidia.com/support/firmware/mlxup-mft/" + url = "https://www.mellanox.com/downloads/firmware/mlxup/4.30.0/SFX/linux_x64/mlxup" + + license("UNKNOWN", checked_by="camillescott") + + version("4.30.0", + expand=False, + sha256="7e6e631a3539abfed1e06cf2d9e613d8e3bcc856104925a6ef41e5e206b1d201") + + def url_for_version(self, version): + return f'https://www.mellanox.com/downloads/firmware/mlxup/{version}/SFX/linux_x64/mlxup' + + def install(self, spec, prefix): + mkdirp(prefix.bin) + set_executable('mlxup') + install('mlxup', prefix.bin) diff --git a/repos/hpccf/packages/mmseqs2/package.py b/repos/hpccf/packages/mmseqs2/package.py deleted file mode 100644 index 89d9aad2..00000000 --- a/repos/hpccf/packages/mmseqs2/package.py +++ /dev/null @@ -1,42 +0,0 @@ -# Copyright 2013-2022 Lawrence Livermore National Security, LLC and other -# Spack Project Developers. See the top-level COPYRIGHT file for details. -# -# SPDX-License-Identifier: (Apache-2.0 OR MIT) - - -# NOTE: backport from spack develop - - -from spack.package import * - - -class Mmseqs2(CMakePackage): - """MMseqs2 (Many-against-Many sequence searching) is a software suite to - search and cluster huge protein and nucleotide sequence sets""" - - homepage = "https://github.com/soedinglab/MMseqs2" - url = "https://github.com/soedinglab/MMseqs2/archive/refs/tags/14-7e284.tar.gz" - - version("14-7e284", sha256="a15fd59b121073fdcc8b259fc703e5ce4c671d2c56eb5c027749f4bd4c28dfe1") - version("13-45111", sha256="6444bb682ebf5ced54b2eda7a301fa3e933c2a28b7661f96ef5bdab1d53695a2") - - variant("openmp", default=False, description="build with OpenMP support") - variant("mpi", default=False, description="build with MPI support") - - depends_on("zstd") - depends_on("mpi", when="+mpi") - - # apple-clang will build with +openmp with llvm-openmp as a dependency - # however when running with real data, it threw segmentation faults - conflicts("%apple-clang", when="+openmp") - - def cmake_args(self): - spec = self.spec - args = [] - args.append("-DVERSION_OVERRIDE=%s" % self.spec.version) - args.append("-DUSE_SYSTEM_ZSTD=1") - if "~openmp" in spec: - args.append("-DREQUIRE_OPENMP=0") - if "~mpi" in spec: - args.append("-DHAVE_MPI=0") - return args diff --git a/repos/hpccf/packages/ngsrelate/package.py b/repos/hpccf/packages/ngsrelate/package.py new file mode 100644 index 00000000..86dd7faf --- /dev/null +++ b/repos/hpccf/packages/ngsrelate/package.py @@ -0,0 +1,41 @@ +# Copyright 2013-2024 Lawrence Livermore National Security, LLC and other +# Spack Project Developers. See the top-level COPYRIGHT file for details. +# +# SPDX-License-Identifier: (Apache-2.0 OR MIT) + +from spack.package import * + + +class Ngsrelate(MakefilePackage): + """NgsRelate, which can be used to infer relatedness, inbreeding coefficients + and many other summary statistics for pairs of individuals from low coverage + Next Generation Sequencing (NGS) data by using genotype likelihoods instead of + called genotypes.""" + + homepage = "https://github.com/ANGSD/NgsRelate" + url = "https://github.com/ANGSD/NgsRelate/archive/refs/tags/v2.0.tar.gz" + + maintainers('OmenWild') + + version("2.0", sha256="f2c20228720298d6ef2fd34324449ba7ebdd4b987477c78bd20ed99f176218c6") + + depends_on("htslib") + depends_on("openssl") + depends_on('libdeflate') + + @property + def build_targets(self): + return [ + 'HTSSRC={0}'.format(self.spec['htslib'].prefix.lib), + ] + + def edit(self, spec, prefix): + filter_file( + r"^(.*-o\s+ngsRelate.*)", + r"\1 -lcrypto -ldeflate", + "Makefile" + ) + + def install(self, spec, prefix): + mkdirp(prefix.bin) + install('ngsRelate', prefix.bin) diff --git a/repos/hpccf/packages/openmm b/repos/hpccf/packages/openmm deleted file mode 120000 index 414c7593..00000000 --- a/repos/hpccf/packages/openmm +++ /dev/null @@ -1 +0,0 @@ -../../../../spack-root/var/spack/repos/builtin/packages/openmm \ No newline at end of file diff --git a/repos/hpccf/packages/plink-ng/package.py b/repos/hpccf/packages/plink-ng/package.py deleted file mode 100644 index cdf1431e..00000000 --- a/repos/hpccf/packages/plink-ng/package.py +++ /dev/null @@ -1,37 +0,0 @@ -# Copyright 2013-2023 Lawrence Livermore National Security, LLC and other -# Spack Project Developers. See the top-level COPYRIGHT file for details. -# -# SPDX-License-Identifier: (Apache-2.0 OR MIT) - -from spack.package import * - -import llnl.util.filesystem as fs - - -class PlinkNg(Package): - """A comprehensive update to the PLINK association analysis toolset.""" - - homepage = "https://www.cog-genomics.org/plink/2.0/" - url = "https://github.com/chrchang/plink-ng/archive/refs/tags/v2.00a3.7.tar.gz" - - version('2.00a3.7', sha256='145717350205f5562a01292a0fcbd617b7500758f20cad0393c7cc54665a614e') - - depends_on("zlib") - depends_on("zstd@1.4.4:") - depends_on("cblas") - depends_on("blas") - depends_on("lapack") - - conflicts("%gcc@:4") - - def setup_build_environment(self, env): - zlib = join_path(self.spec["zlib"].prefix.lib, "libz.a") - env.set("ZLIB", zlib) - - def install(self, spec, prefix): - ld_flags = [spec["lapack"].libs.ld_flags, spec["blas"].libs.ld_flags] - - with fs.working_dir('2.0'): - filter_file("-llapack -lcblas -lblas", " ".join(ld_flags), "build.sh", string=True) - which("sh")("build.sh") - install_tree(".", prefix) diff --git a/repos/hpccf/packages/py-basevar/package.py b/repos/hpccf/packages/py-basevar/package.py new file mode 100644 index 00000000..5445f571 --- /dev/null +++ b/repos/hpccf/packages/py-basevar/package.py @@ -0,0 +1,31 @@ +# Copyright 2013-2022 Lawrence Livermore National Security, LLC and other +# Spack Project Developers. See the top-level COPYRIGHT file for details. +# +# SPDX-License-Identifier: (Apache-2.0 OR MIT) + + +from spack.package import * + + +class PyBasevar(PythonPackage): + """Call variants for ultra low-pass (<1.0x) WGS data, especially for NIPT data.""" + + homepage = "https://github.com/ShujiaHuang/basevar" + + url = "https://github.com/ShujiaHuang/basevar/archive/refs/tags/v0.8.0.tar.gz" + + maintainers("camillescott") + + version("0.8.0", sha256="3f860a997b2e4530c7ebc5c46b616104040f7b5b44f6b42fa2e7bb6a0d92314b") + + depends_on("python@2.7,3.7:3.8", type=("build", "run")) + depends_on("py-cython@0.29.6:0.29.36", type="build") + depends_on("py-setuptools", type="build") + + depends_on("py-logbook@1.4.3:", type=("build", "run")) + depends_on("py-numpy@1.15.4:", type=("build", "run")) + depends_on("py-scikit-learn@0.20.2:", type=("build", "run")) + depends_on("py-scipy@1.1.0:", type=("build", "run")) + + depends_on("htslib@1.3:1.9") + diff --git a/repos/hpccf/packages/py-cyvcf2/package.py b/repos/hpccf/packages/py-cyvcf2/package.py deleted file mode 100644 index 805ee1aa..00000000 --- a/repos/hpccf/packages/py-cyvcf2/package.py +++ /dev/null @@ -1,27 +0,0 @@ -# Copyright 2013-2023 Lawrence Livermore National Security, LLC and other -# Spack Project Developers. See the top-level COPYRIGHT file for details. -# -# SPDX-License-Identifier: (Apache-2.0 OR MIT) - -from spack.package import * - - -class PyCyvcf2(PythonPackage): - """fast vcf parsing with cython + htslib""" - - homepage = "https://github.com/brentp/cyvcf2" - pypi = "cyvcf2/cyvcf2-0.11.7.tar.gz" - - version("0.11.7", sha256="a4b6229b89a0a1043684c65cbdd702c366a8800dc3591fb44c4b5a08640cbeec") - - depends_on("python@2.7:", type=("build", "run")) - depends_on("py-setuptools", type="build") - - depends_on("py-cython@0.23.3:", type="build") - depends_on("py-numpy", type=("build", "run")) - depends_on("py-coloredlogs", type=("build", "run")) - depends_on("py-click", type=("build", "run")) - - depends_on("curl") - #depends_on("bzip2") - depends_on("htslib") diff --git a/repos/hpccf/packages/py-gdc-client/package.py b/repos/hpccf/packages/py-gdc-client/package.py deleted file mode 100644 index 950712f1..00000000 --- a/repos/hpccf/packages/py-gdc-client/package.py +++ /dev/null @@ -1,19 +0,0 @@ -# Copyright 2013-2021 Lawrence Livermore National Security, LLC and other -# Spack Project Developers. See the top-level COPYRIGHT file for details. -# -# SPDX-License-Identifier: (Apache-2.0 OR MIT) - -from spack.package import * - - -class PyGdcClient(PythonPackage): - """The gdc-client provides several convenience functions - over the GDC API which provides general download/upload via HTTPS.""" - - homepage = "https://github.com/NCI-GDC/gdc-client" - url = "https://github.com/NCI-GDC/gdc-client/archive/1.4.0.tar.gz" - - version('1.6.0', sha256='021c54ff63babff59d15b5f3e9763f0fd18bb64a4a34bc273237e3571fb24889') - version('1.4.0', sha256='3ae6664f9666c75ffbf3c883409cfa51333f61d23b7aa99010925a084b4c9582') - - depends_on('py-setuptools', type='build') diff --git a/repos/hpccf/packages/py-logbook/package.py b/repos/hpccf/packages/py-logbook/package.py new file mode 100644 index 00000000..74ad03c7 --- /dev/null +++ b/repos/hpccf/packages/py-logbook/package.py @@ -0,0 +1,29 @@ +# Copyright 2013-2022 Lawrence Livermore National Security, LLC and other +# Spack Project Developers. See the top-level COPYRIGHT file for details. +# +# SPDX-License-Identifier: (Apache-2.0 OR MIT) + + +from spack.package import * + + +class PyLogbook(PythonPackage): + """Logbook is a logging system for Python that replaces + the standard library’s logging module. It was designed + with both complex and simple applications in mind and + the idea to make logging fun.""" + + homepage = "https://logbook.readthedocs.io/en/stable/" + pypi = "Logbook/Logbook-1.7.0.post0.tar.gz" + + maintainers("camillescott") + + version("1.7.0.post0", sha256="a5e8016701ca3beea6a390b0ba1541037f663543ca508ccd36cfdc841639cdd7") + version("1.5.3", sha256="66f454ada0f56eae43066f604a222b09893f98c1adc18df169710761b8f32fe8") + + depends_on("python@3.8:", type=("build", "run"), when="@1.6:") + depends_on("python@2.7,3.4:3.6", type=("build", "run"), when="@1.5.3") + depends_on("py-cython", type="build") + depends_on("py-cython@:0.29.36", type="build", when="@1.5.3") + depends_on("py-setuptools", type="build") + diff --git a/repos/hpccf/packages/r-bsgenome/package.py b/repos/hpccf/packages/r-bsgenome/package.py deleted file mode 100644 index 033cc6be..00000000 --- a/repos/hpccf/packages/r-bsgenome/package.py +++ /dev/null @@ -1,48 +0,0 @@ -# Copyright 2013-2022 Lawrence Livermore National Security, LLC and other -# Spack Project Developers. See the top-level COPYRIGHT file for details. -# -# SPDX-License-Identifier: (Apache-2.0 OR MIT) - -from spack.package import * - - -class RBsgenome(RPackage): - """Software infrastructure for efficient representation of full genomes and - their SNPs. - - Infrastructure shared by all the Biostrings-based genome data packages.""" - - bioc = "BSgenome" - - version("1.66.1", commit="465e8803882edcde0484584807a4fa4ef75faf2d") - version("1.64.0", commit="59cdebde613e9702985c003f699f4aea2b0f0e7b") - version("1.62.0", commit="9b1859e11ffa082833f035a45274af6e4e83e863") - version("1.58.0", commit="3a4926e03a7a1d7140a10c1b2bf6090808470145") - version("1.52.0", commit="5398eba1cb56a873b29c04a7ce6858d5d60ff75b") - version("1.50.0", commit="43910755f7477e4fe9bb968f186fddbb2f7355f9") - version("1.48.0", commit="092a1b90482ace329cbd8ca2a338e91449acb93e") - version("1.46.0", commit="bdfbd6d09820993585b8231ddea5e11c99008dc5") - version("1.44.2", commit="105b00588a758d5ec7c347a7dff2756aea4516a0") - - depends_on("r@2.8.0:", type=("build", "run")) - depends_on("r-biocgenerics@0.13.8:", type=("build", "run")) - depends_on("r-s4vectors@0.9.36:", type=("build", "run")) - depends_on("r-s4vectors@0.17.28:", type=("build", "run"), when="@1.48.0:") - depends_on("r-iranges@2.1.33:", type=("build", "run")) - depends_on("r-iranges@2.11.16:", type=("build", "run"), when="@1.46.0:") - depends_on("r-iranges@2.13.16:", type=("build", "run"), when="@1.48.0:") - depends_on("r-genomeinfodb@1.11.4:", type=("build", "run")) - depends_on("r-genomeinfodb@1.13.1:", type=("build", "run"), when="@1.46.0:") - depends_on("r-genomeinfodb@1.15.2:", type=("build", "run"), when="@1.48.0:") - depends_on("r-genomeinfodb@1.25.6:", type=("build", "run"), when="@1.58.0:") - depends_on("r-genomicranges@1.27.6:", type=("build", "run")) - depends_on("r-genomicranges@1.29.14:", type=("build", "run"), when="@1.46.0:") - depends_on("r-genomicranges@1.31.10:", type=("build", "run"), when="@1.48.0:") - depends_on("r-biostrings@2.35.3:", type=("build", "run")) - depends_on("r-biostrings@2.47.6:", type=("build", "run"), when="@1.48.0:") - depends_on("r-rtracklayer@1.25.8:", type=("build", "run")) - depends_on("r-rtracklayer@1.39.7:", type=("build", "run"), when="@1.48.0:") - depends_on("r-matrixstats", type=("build", "run"), when="@1.58.0:") - depends_on("r-xvector", type=("build", "run")) - depends_on("r-xvector@0.29.3:", type=("build", "run"), when="@1.58.0:") - depends_on("r-rsamtools", type=("build", "run")) diff --git a/repos/hpccf/packages/r-ensembldb/package.py b/repos/hpccf/packages/r-ensembldb/package.py deleted file mode 100644 index d60059f6..00000000 --- a/repos/hpccf/packages/r-ensembldb/package.py +++ /dev/null @@ -1,65 +0,0 @@ -# Copyright 2013-2022 Lawrence Livermore National Security, LLC and other -# Spack Project Developers. See the top-level COPYRIGHT file for details. -# -# SPDX-License-Identifier: (Apache-2.0 OR MIT) - -from spack.package import * - - -class REnsembldb(RPackage): - """Utilities to create and use Ensembl-based annotation databases. - - The package provides functions to create and use transcript centric - annotation databases/packages. The annotation for the databases are - directly fetched from Ensembl using their Perl API. The functionality - and data is similar to that of the TxDb packages from the - GenomicFeatures package, but, in addition to retrieve all - gene/transcript models and annotations from the database, ensembldb - provides a filter framework allowing to retrieve annotations for - specific entries like genes encoded on a chromosome region or transcript - models of lincRNA genes. EnsDb databases built with ensembldb contain - also protein annotations and mappings between proteins and their - encoding transcripts. Finally, ensembldb provides functions to map - between genomic, transcript and protein coordinates.""" - - bioc = "ensembldb" - - version('2.23.0', commit='081b24874f5b41fde02c63bbdf9a6ef588124096') - version("2.20.2", commit="ac1fb8389efd88099600af298d6bb3384206f9ed") - version("2.20.1", commit="e547d184730cfe5e65f59e4f3512395fb1cdba1a") - version("2.18.3", commit="e2fcfc0c7700110df070a171d2d542b37ec098f3") - version("2.14.0", commit="c7150519ed4ef38e5eac1043209863dbc7be43a1") - version("2.8.1", commit="a4d8d89c143dca86b364d59dff8e46cc81c41ac0") - version("2.6.8", commit="c2c4f41b4ecc81d5328ce1d380065dfcb5e0c54c") - version("2.4.1", commit="b5b6b94826a2f46a4faecb9dde750ecd3bfaf327") - version("2.2.2", commit="d71610e58aed88dbbe6a74e7a8ddfb7451398060") - version("2.0.4", commit="514623d71e3cca7a4e547adb579b5a958702ef86") - - depends_on("r@3.5.0:", type=("build", "run"), when="@2.20.1:") - depends_on("r-biocgenerics@0.15.10:", type=("build", "run")) - depends_on("r-genomicranges@1.23.21:", type=("build", "run")) - depends_on("r-genomicranges@1.31.18:", type=("build", "run"), when="@2.4.1:") - depends_on("r-genomicfeatures@1.23.18:", type=("build", "run")) - depends_on("r-genomicfeatures@1.29.10:", type=("build", "run"), when="@2.2.2:") - depends_on("r-genomicfeatures@1.49.6:", type=("build", "run"), when="@2.23.0:") - depends_on("r-annotationfilter@0.99.7:", type=("build", "run")) - depends_on("r-annotationfilter@1.1.9:", type=("build", "run"), when="@2.2.2:") - depends_on("r-annotationfilter@1.5.2:", type=("build", "run"), when="@2.6.8:") - depends_on("r-rsqlite@1.1:", type=("build", "run")) - depends_on("r-dbi", type=("build", "run")) - depends_on("r-biobase", type=("build", "run")) - depends_on("r-genomeinfodb", type=("build", "run")) - depends_on("r-annotationdbi@1.31.19:", type=("build", "run")) - depends_on("r-rtracklayer", type=("build", "run")) - depends_on("r-s4vectors", type=("build", "run")) - depends_on("r-s4vectors@0.23.10:", type=("build", "run"), when="@2.14.0:") - depends_on("r-rsamtools", type=("build", "run")) - depends_on("r-iranges", type=("build", "run")) - depends_on("r-iranges@2.11.16:", type=("build", "run"), when="@2.2.2:") - depends_on("r-iranges@2.13.24:", type=("build", "run"), when="@2.4.1:") - depends_on("r-protgenerics", type=("build", "run")) - depends_on("r-biostrings", type=("build", "run")) - depends_on("r-biostrings@2.47.9:", type=("build", "run"), when="@2.4.1:") - depends_on("r-curl", type=("build", "run")) - - depends_on("r-annotationhub", type=("build", "run"), when="@2.0.4:2.2.2") diff --git a/repos/hpccf/packages/r-insight/package.py b/repos/hpccf/packages/r-insight/package.py deleted file mode 100644 index b9c7a5af..00000000 --- a/repos/hpccf/packages/r-insight/package.py +++ /dev/null @@ -1,33 +0,0 @@ -# Copyright 2013-2022 Lawrence Livermore National Security, LLC and other -# Spack Project Developers. See the top-level COPYRIGHT file for details. -# -# SPDX-License-Identifier: (Apache-2.0 OR MIT) - -from spack.package import * - - -class RInsight(RPackage): - """Easy Access to Model Information for Various Model Objects. - - A tool to provide an easy, intuitive and consistent access to information - contained in various R models, like model formulas, model terms, - information about random effects, data that was used to fit the model or - data from response variables. 'insight' mainly revolves around two types of - functions: Functions that find (the names of) information, starting with - 'find_', and functions that get the underlying data, starting with 'get_'. - The package has a consistent syntax and works with many different model - objects, where otherwise functions to access these information are - missing.""" - - cran = "insight" - - version("0.18.8", sha256="f52adaea67d36a333e8c430b85af50a581dbd5543390cd1f282502e4103f7505") - version("0.18.6", sha256="ab0dc3c8ec765f2e93f7bcc3a7abb05140f71db24d50bf8cdd595a5a4e771cae") - version("0.18.4", sha256="6e3f378bc2eb30c0300103bdd8a3e74371199b36867b45978ec9690a6fda0c5f") - version("0.17.1", sha256="653c5542a0c953ad4b75800e2ab52eed244e1e698aa5bc9fc64dc657a3cece35") - version("0.16.0", sha256="7944d7a386c99ea06d9d9e2b5f4aeb98fded7ec90b1cb908d03e278480be9e3d") - version("0.15.0", sha256="d6a148c3e1cfcb3829e2f8950bcbf98f500ee88bebd7e2482f9b085542e93fee") - version("0.14.1", sha256="0e7761997a46ee33039cdeff1779dbc210de3644e4444c6e893e4ef2f12cc129") - - depends_on("r@3.4:", type=("build", "run")) - depends_on("r@3.5:", type=("build", "run"), when="@0.18.4:") diff --git a/repos/hpccf/packages/r-raster/package.py b/repos/hpccf/packages/r-raster/package.py deleted file mode 100644 index 4bb3504d..00000000 --- a/repos/hpccf/packages/r-raster/package.py +++ /dev/null @@ -1,36 +0,0 @@ -# Copyright 2013-2022 Lawrence Livermore National Security, LLC and other -# Spack Project Developers. See the top-level COPYRIGHT file for details. -# -# SPDX-License-Identifier: (Apache-2.0 OR MIT) - -# -# TODO: This is a backport! Remove when base spack is upgraded. -# - -from spack.package import * - - -class RRaster(RPackage): - """Geographic Data Analysis and Modeling. - Reading, writing, manipulating, analyzing and modeling of spatial data. The - package implements basic and high-level functions for raster data and for - vector data operations such as intersections. See the manual and tutorials - on to get started.""" - - cran = "raster" - - version("3.5-15", sha256="29c7d3c5d34284f8b5a2ddc9989fbcf092ce209d5eb5310ebc772b5ebdfdd685") - version("3.5-11", sha256="e6c48 23925260c65fe98585d7a0d47778616ae2e4eb1a1782b219580a9db61a3") - version("3.4-5", sha256="c6620d790b3aba1b64aec31325f726e63f26a14a1b48c1a0f9167a0b1a64e4a5") - version("2.9-23", sha256="90aaec9e3b1e3e6015d9993ea7491e008f2f71990f8abb8610f979c4e28b38af") - version("2.9-22", sha256="8107d95f1aa85cea801c8101c6aa391becfef4b5b915d9bc7a323531fee26128") - version("2.5-8", sha256="47992abd783450513fbce3770298cc257030bf0eb77e42aa3a4b3924b16264cc") - - depends_on("r@3.0.0:", type=("build", "run")) - depends_on("r@3.5.0:", type=("build", "run"), when="@3.4-5:") - depends_on("r-sp@1.2-0:", type=("build", "run")) - depends_on("r-sp@1.4.1:", type=("build", "run"), when="@3.4-5:") - depends_on("r-sp@1.4.5:", type=("build", "run"), when="@3.5-11:") - depends_on("r-rcpp", type=("build", "run")) - depends_on("r-terra@1.4-11:", type=("build", "run"), when="@3.5-11:") - depends_on("r-terra@1.5-12:", type=("build", "run"), when="@3.5-15:") diff --git a/repos/hpccf/packages/r-terra/package.py b/repos/hpccf/packages/r-terra/package.py deleted file mode 100644 index f99098cb..00000000 --- a/repos/hpccf/packages/r-terra/package.py +++ /dev/null @@ -1,37 +0,0 @@ -# Copyright 2013-2022 Lawrence Livermore National Security, LLC and other -# Spack Project Developers. See the top-level COPYRIGHT file for details. -# -# SPDX-License-Identifier: (Apache-2.0 OR MIT) - -# -# TODO: This is a backport! Remove when base spack is upgraded. -# - -from spack.package import * - - -class RTerra(RPackage): - """Spatial Data Analysis. - Methods for spatial data analysis with raster and vector data. Raster - methods allow for low-level data manipulation as well as high-level global, - local, zonal, and focal computation. The predict and interpolate methods - facilitate the use of regression type (interpolation, machine learning) - models for spatial prediction, including with satellite remote sensing - data. Processing of very large files is supported. See the manual and - tutorials on to get started. 'terra' is very - similar to the 'raster' package; but 'terra' can do more, is easier to use, - and it is faster.""" - - cran = "terra" - - version("1.5-21", sha256="091ee928ccaa6561aa9f8ee6c1c99f139dc89f1653c2a76a035cca14d404f43f") - version("1.5-17", sha256="e7ac57d1712d280616a4b5a85cd915b2b3e24fe08ee044b740588d884e6be6e7") - version("1.5-12", sha256="865cc14ee8c3239037c08170df4011eed27cf638ac1d05f0b7cd704abf97cc19") - version("1.4-22", sha256="b8eccfa36764577248d7b390e24af6db65fb8824c07f9b782bd6b83c4d2b3976") - - depends_on("r@3.5.0:", type=("build", "run")) - depends_on("r-rcpp", type=("build", "run")) - depends_on("gdal@2.2.3:") - depends_on("geos@3.4.0:") - depends_on("proj@4.9.3:") - depends_on("sqlite") diff --git a/repos/hpccf/packages/r-units/package.py b/repos/hpccf/packages/r-units/package.py deleted file mode 100644 index 034fe552..00000000 --- a/repos/hpccf/packages/r-units/package.py +++ /dev/null @@ -1,34 +0,0 @@ -# Copyright 2013-2021 Lawrence Livermore National Security, LLC and other -# Spack Project Developers. See the top-level COPYRIGHT file for details. -# -# SPDX-License-Identifier: (Apache-2.0 OR MIT) - -from spack.package import * - - -class RUnits(RPackage): - """Measurement Units for R Vectors - - Support for measurement units in R vectors, matrices and arrays: automatic - propagation, conversion, derivation and simplification of units; raising - errors in case of unit incompatibility. Compatible with the POSIXct, Date - and difftime classes. Uses the UNIDATA udunits library and unit database - for unit compatibility checking and conversion. Documentation about - 'units' is provided in the paper by Pebesma, Mailund & Hiebert (2016, - ), included in this package as a vignette; see - 'citation("units")' for details.""" - - homepage = "https://github.com/edzer/units/" - url = "https://cloud.r-project.org/src/contrib/units_0.4-6.tar.gz" - list_url = "https://cloud.r-project.org/src/contrib/Archive/units" - - version('0.8.0', sha256='9c46fe138e8c1c3d3a51268776412f02d09673656516148cccb71b1071beb21a') - version('0.6-7', sha256='3f73a62bafdbe0f93bbf00ac4b1adb8f919dd04649ff8f1d007f2986e35cb7e5') - version('0.6-3', sha256='03de88d9dcfe80d22dd3813413f33657c576aed24a8091dbfc7f68602020a64f') - version('0.6-2', sha256='5e286775d0712c8e15b6ae3a533d4c4349b0f6410c2d9d897ca519c3d0e5f170') - version('0.4-6', sha256='db383c9b7ec221a5da29a2ddf4f74f9064c44ea2102ea7e07cc1cc5bb30fa1ef') - - depends_on('r@3.0.2:', type=('build', 'run')) - depends_on('r-rcpp@0.12.10:', type=('build', 'run')) - depends_on('r-udunits2@0.13:', when='@:0.5-1', type=('build', 'run')) - depends_on('udunits', when='@0.6-0:') diff --git a/repos/hpccf/packages/relion/package.py b/repos/hpccf/packages/relion/package.py deleted file mode 100644 index 50042656..00000000 --- a/repos/hpccf/packages/relion/package.py +++ /dev/null @@ -1,179 +0,0 @@ -# Copyright 2013-2022 Lawrence Livermore National Security, LLC and other -# Spack Project Developers. See the top-level COPYRIGHT file for details. -# -# SPDX-License-Identifier: (Apache-2.0 OR MIT) - -from spack.package import * - - -class Relion(CMakePackage, CudaPackage): - """RELION (for REgularised LIkelihood OptimisatioN, pronounce rely-on) is a - stand-alone computer program that employs an empirical Bayesian approach to - refinement of (multiple) 3D reconstructions or 2D class averages in - electron cryo-microscopy (cryo-EM).""" - - homepage = "http://www2.mrc-lmb.cam.ac.uk/relion" - git = "https://github.com/3dem/relion.git" - url = "https://github.com/3dem/relion/archive/3.1.3.zip" - - version("4.0.1", - commit="ec417f5", - preferred=True) - - version("4.0.0", commit="04079953afd9f74c8705e24004091575b4fd71e0") - - version("3.1.3", sha256="e67277200b54d1814045cfe02c678a58d88eb8f988091573453c8568bfde90fc") - version("3.1.2", sha256="dcdf6f214f79a03d29f0fed2de58054efa35a9d8401543bdc52bfb177987931f") - version("3.1.1", sha256="63e9b77e1ba9ec239375020ad6ff631424d1a5803cba5c608c09fd44d20b1618") - version("3.1.0", sha256="8a7e751fa6ebcdf9f36046499b3d88e170c4da86d5ff9ad1914b5f3d178867a8") - - # 3.0.8 latest release in 3.0 branch - version("3.0.8", sha256="18cdd58e3a612d32413eb37e473fe8fbf06262d2ed72e42da20356f459260973") - version("3.0.7", sha256="a6d37248fc4d0bfc18f4badb7986dc1b6d6849baa2128b0b4dade13cb6991a99") - - # relion master contains development code - # contains 3.0 branch code - version("master") - - variant("gui", default=True, description="build the gui") - variant("cuda", default=True, description="enable compute on gpu") - variant("double", default=True, description="double precision (cpu) code") - variant("double-gpu", default=False, description="double precision gpu") - - # if built with purpose=cluster then relion will link to gpfs libraries - # if that's not desirable then use purpose=desktop - variant( - "purpose", - default="cluster", - values=("cluster", "desktop"), - description="build relion for use in cluster or desktop", - ) - - variant( - "build_type", - default="RelWithDebInfo", - description="The build type to build", - values=("Debug", "Release", "RelWithDebInfo", "Profiling", "Benchmarking"), - ) - - # these new values were added in relion 3 - # do not seem to cause problems with < 3 - variant("mklfft", default=True, description="Use MKL rather than FFTW for FFT") - #variant("amdfftw", default=False, description="Use AMD-optimized FFTW") - variant( - "allow_ctf_in_sagd", - default=True, - description=( - "Allow CTF-modulation in SAGD, " "as specified in Claim 1 of patent US10,282,513B2" - ), - ) - variant("altcpu", default=False, description="Use CPU acceleration", when="~cuda") - - variant( - "external_motioncor2", - default=False, - description="Have external motioncor2 available in addition to " "Relion builtin", - ) - - variant("gpu_delay", default=False, description="Delay GPU start to alleviate power spikes.") - - depends_on("mpi") - depends_on("cmake@3:", type="build") - depends_on("fftw-api precision=float,double", when="~mklfft") - #depends_on("amdfftw precision=float,double", when="+amdfftw") - - # use the +xft variant so the interface is not so horrible looking - depends_on("fltk+xft", when="+gui") - - depends_on("libtiff") - depends_on("libpng", when="@4:") - - depends_on("cuda", when="+cuda") - depends_on("cuda@9:", when="@3: +cuda") - depends_on("tbb", when="+altcpu") - depends_on("mkl", when="+mklfft") - depends_on("ctffind", type="run") - depends_on("motioncor2", type="run", when="+external_motioncor2") - - # TODO: more externals to add - # Spack packages needed - # - Gctf - # - ResMap - patch("0002-Simple-patch-to-fix-intel-mkl-linking.patch", when="@:3.1.1 os=ubuntu18.04") - patch("delay_gpu_start.patch", when="@4.0.0: +gpu_delay") - - def cmake_args(self): - args = [ - "-DCMAKE_C_FLAGS=-g", - "-DCMAKE_CXX_FLAGS=-g", - "-DGUI=%s" % ("+gui" in self.spec), - "-DDoublePrec_CPU=%s" % ("+double" in self.spec), - "-DDoublePrec_GPU=%s" % ("+double-gpu" in self.spec), - "-DALLOW_CTF_IN_SAGD=%s" % ("+allow_ctf_in_sagd" in self.spec), - "-DMKLFFT=%s" % ("+mklfft" in self.spec), - "-DALTCPU=%s" % ("+altcpu" in self.spec), - ] - - if "+cuda" in self.spec: - carch = self.spec.variants["cuda_arch"].value[0] - - # relion+cuda requires selecting cuda_arch - if carch == "none": - raise ValueError("Must select a value for cuda_arch") - else: - args += [ - "-DCUDA=ON", - "-DCudaTexture=ON", - "-DCUDA_ARCH=%s" % (carch), - ] - - if "+mklfft" not in self.spec and int(carch) >= 11: - args += [ - "-DTHRUST_IGNORE_CUB_VERSION_CHECK=1" - ] - - if "^amdfftw" in self.spec: - args += [ - "-DAMDFFTW=ON" - ] - - if "+altcpu" in self.spec: - args += [ - "-DFORCE_OWN_TBB=OFF", - self.define("TBB_INCLUDE_DIR", self.spec["tbb"].headers.directories[0]), - self.define("TBB_LIBRARY", self.spec["tbb"].libs.directories[0]) - ] - - return args - - def patch(self): - # Remove flags not recognized by the NVIDIA compilers - if self.spec.satisfies("%nvhpc"): - filter_file("-std=c99", "-c99", "src/apps/CMakeLists.txt") - - # set up some defaults - filter_file( - r"(#define DEFAULTQSUBLOCATION).*", - r'\1 "{0}"'.format(join_path(self.spec.prefix.bin, "relion_qsub.csh")), - join_path("src", "pipeline_jobs.h"), - ) - filter_file( - r"(#define DEFAULTCTFFINDLOCATION).*", - r'\1 "{0}"'.format(join_path(self.spec["ctffind"].prefix.bin, "ctffind")), - join_path("src", "pipeline_jobs.h"), - ) - - if "+external_motioncor2" in self.spec: - filter_file( - r"(#define DEFAULTMOTIONCOR2LOCATION).*", - r'\1 "{0}"'.format(join_path(self.spec["motioncor2"].prefix.bin, "MotionCor2")), - join_path("src", "pipeline_jobs.h"), - ) - - if "+cuda" in self.spec: - carch = self.spec.variants["cuda_arch"].value[0] - if int(carch) >= 11: - # see: https://github.com/3dem/relion/commit/554e0ed993e5ac8a3fee4be7c5cf64a62216a8c7 - filter_file(r'^#define CUB_NS_QUALIFIER ::cub # for compatibility with CUDA 11.5', - r'#define CUB_NS_QUALIFIER ::cub // for compatibility with CUDA 11.5', - join_path("src", "acc", "cuda", "cuda_utils_cub.cuh")) diff --git a/repos/hpccf/packages/repeatmodeler/package.py b/repos/hpccf/packages/repeatmodeler/package.py deleted file mode 100644 index 37ccd6f5..00000000 --- a/repos/hpccf/packages/repeatmodeler/package.py +++ /dev/null @@ -1,70 +0,0 @@ -# Copyright 2013-2022 Lawrence Livermore National Security, LLC and other -# Spack Project Developers. See the top-level COPYRIGHT file for details. -# -# SPDX-License-Identifier: (Apache-2.0 OR MIT) - -from spack.package import * - - -class Repeatmodeler(Package): - """RepeatModeler is a de-novo repeat family identification and modeling - package.""" - - homepage = "https://www.repeatmasker.org/RepeatModeler/" - url = "https://www.repeatmasker.org/RepeatModeler/RepeatModeler-open-1.0.11.tar.gz" - - version("1.0.11", sha256="7ff0d588b40f9ad5ce78876f3ab8d2332a20f5128f6357413f741bb7fa172193") - - depends_on("perl", type=("build", "run")) - depends_on("perl-json", type=("build", "run")) - depends_on("perl-uri", type=("build", "run")) - depends_on("perl-libwww-perl", type=("build", "run")) - - depends_on("repeatmasker", type="run") - depends_on("recon+repeatmasker", type="run") - depends_on("repeatscout", type="run") - depends_on("trf", type="run") - depends_on("nseg", type="run") - depends_on("ncbi-rmblastn", type="run") - - def install(self, spec, prefix): - # like repeatmasker, another interactive installer - # questions: - # 1. - # 2. - # 3. - # 4. RepeatMasker bin path - # 5. RECON bin path - # 6. RepeatScout bin path - # 7. Nseg bin path - # 8. trf bin path - # 9. Add a search engine: - # 1. RMBlast -> Path, Default? (Y/N) - # 2. WUBlast/ABBlast -> Path, Default? (Y/N) - # 3. Done - - config_answers = [ - "", - "", - "", - spec["repeatmasker"].prefix.bin, - spec["recon"].prefix.bin, - spec["repeatscout"].prefix.bin, - spec["nseg"].prefix.bin, - spec["trf"].prefix.bin, - "1", - spec["ncbi-rmblastn"].prefix.bin, - "Y", - "3", - ] - - config_filename = "spack-config.in" - - with open(config_filename, "w") as f: - f.write("\n".join(config_answers)) - - with open(config_filename, "r") as f: - perl = which("perl") - perl("configure", input=f) - - install_tree(".", prefix.bin) diff --git a/repos/hpccf/packages/rstudio/package.py b/repos/hpccf/packages/rstudio/package.py deleted file mode 100644 index 00566fc2..00000000 --- a/repos/hpccf/packages/rstudio/package.py +++ /dev/null @@ -1,170 +0,0 @@ -# Copyright 2013-2023 Lawrence Livermore National Security, LLC and other -# Spack Project Developers. See the top-level COPYRIGHT file for details. -# -# SPDX-License-Identifier: (Apache-2.0 OR MIT) - -import os - -from spack.package import * -from spack.pkg.builtin.boost import Boost - - -class Rstudio(CMakePackage): - """RStudio is an integrated development environment (IDE) for R.""" - - homepage = "www.rstudio.com/products/rstudio/" - - version("2022.12.0-353", - sha256="e4f3503e2ad4229301360f56fd5288e5c8e769c490073dae7fe40366237ecce0") - - version("1.4.1717", - url="https://github.com/rstudio/rstudio/archive/refs/tags/v1.4.1717.tar.gz", - sha256="3af234180fd7cef451aef40faac2c7b52860f14a322244c1c7aede029814d261") - - def url_for_version(self, version): - url = "https://github.com/rstudio/rstudio/archive/refs/tags/v{0}.tar.gz" - return url.format(str(version).replace('-', '+')) - - variant("notebook", default=False, description="Enable notebook support.") - variant("server", default=False, when="@2022.12.0-353:", description="Build server version.") - - depends_on("r@3.0.1:", type="build") - depends_on("cmake@3.4.3:", type="build") - depends_on("pkgconfig", type="build") - depends_on("ant", type="build") - depends_on("{0}+pic".format(Boost.with_default_variants)) - #depends_on("qt+webkit@5.12:5.14") - depends_on("qt@5.15.8:") - depends_on("patchelf@0.9:") - depends_on("yaml-cpp@:0.6.3") # find_package fails with newest version - depends_on("node-js@16:") - depends_on("yarn") - depends_on("pandoc@2.11.4:") - depends_on("icu4c") - depends_on("soci~static~mysql+boost+postgresql+sqlite cxxstd=14") - depends_on("java@8:") - depends_on("libpam", when="+server") - depends_on("openssl@3:") - depends_on("gettext") - - with when("+notebook"): - depends_on("r-base64enc") - depends_on("r-digest") - depends_on("r-evaluate") - depends_on("r-glue") - depends_on("r-highr") - depends_on("r-htmltools") - depends_on("r-jsonlite") - depends_on("r-knitr") - depends_on("r-magrittr") - depends_on("r-markdown") - depends_on("r-mime") - depends_on("r-rmarkdown") - depends_on("r-stringi") - depends_on("r-stringr") - depends_on("r-tinytex") - depends_on("r-xfun") - depends_on("r-yaml") - - # to use node-js provided by spack: first patches this portion of config to a single line - patch("0004-use-system-node.patch") - - def cmake_args(self): - - args = [ - "-DRSTUDIO_PACKAGE_BUILD=1", - "-DCMAKE_BUILD_TYPE=Release", - "-DRSTUDIO_USE_SYSTEM_YAML_CPP=Yes", - "-DRSTUDIO_USE_SYSTEM_BOOST=Yes", - "-DRSTUDIO_USE_SYSTEM_SOCI=Yes", - "-DQUARTO_ENABLED=No", # temporary? - '-DQT_QMAKE_EXECUTABLE="{0}"'.format(self.spec["qt"].prefix.bin.qmake), - "-DCMAKE_INSTALL_RPATH_USE_LINK_PATH=OFF" - ] - - if '+server' in self.spec: - args.extend([ - "-DRSTUDIO_TARGET=Server" - ]) - else: - args.extend([ - "-DRSTUDIO_TARGET=Desktop", - ]) - - return args - - def setup_build_environment(self, env): - env.set("RSTUDIO_TOOLS_ROOT", self.prefix.tools) - - def patch(self): - # Now patch that single line for node to the spack provided version - filter_file( - '', - ''.format(self.spec["node-js"].prefix.bin.node), - "src/gwt/build.xml", - string=True, - ) - - # remove hardcoded soci path to use spack soci - if self.spec["soci"].version <= Version("4.0.0"): - soci_lib = self.spec["soci"].prefix.lib64 - else: - soci_lib = self.spec["soci"].prefix.lib - filter_file( - 'set(SOCI_LIBRARY_DIR "/usr/lib")', - 'set(SOCI_LIBRARY_DIR "{0}")'.format(soci_lib), - "src/cpp/CMakeLists.txt", - string=True, - ) - - # unbundle icu libraries - filter_file( - "${QT_LIBRARY_DIR}/${ICU_LIBRARY}.so", - join_path(self.spec["icu4c"].prefix.lib, "${ICU_LIBRARY}.so"), - "src/cpp/desktop/CMakeLists.txt", - string=True, - ) - - @run_before("cmake") - def install_deps(self): - deps = Executable("./dependencies/common/install-dictionaries") - deps() - deps = Executable("./dependencies/common/install-mathjax") - deps() - - # two methods for pandoc - # 1) replace install-pandoc: - # - link pandoc into tools/pandoc/$PANDOC_VERSION - # (this is what install-pandoc would do) - # - cmake then installs pandoc files from there into bin - # 2) remove install-pandoc and cmake install step + link directly into bin - - # method 1) - - with when("@1.4.1717"): - filter_file( - 'set(PANDOC_VERSION "2.11.4" CACHE INTERNAL "Pandoc version")', - 'set(PANDOC_VERSION "{0}" CACHE INTERNAL "Pandoc version")'.format( - self.spec["pandoc"].version - ), - "src/cpp/session/CMakeLists.txt", - string=True, - ) - - with when("@2022.12.0-353:"): - filter_file( - 'set(PANDOC_VERSION "2.18" CACHE INTERNAL "Pandoc version")', - 'set(PANDOC_VERSION "{0}" CACHE INTERNAL "Pandoc version")'.format( - self.spec["pandoc"].version - ), - "CMakeGlobals.txt", - string=True, - ) - - pandoc_dir = join_path(self.prefix.tools, "pandoc", self.spec["pandoc"].version) - os.makedirs(pandoc_dir) - with working_dir(pandoc_dir): - os.symlink(self.spec["pandoc"].prefix.bin.pandoc, "pandoc") - os.symlink( - os.path.join(self.spec["pandoc"].prefix.bin, "pandoc-citeproc"), "pandoc-citeproc" - ) diff --git a/repos/hpccf/packages/sailfish/package.py b/repos/hpccf/packages/sailfish/package.py deleted file mode 100644 index 402a9eda..00000000 --- a/repos/hpccf/packages/sailfish/package.py +++ /dev/null @@ -1,36 +0,0 @@ -# Copyright 2013-2022 Lawrence Livermore National Security, LLC and other -# Spack Project Developers. See the top-level COPYRIGHT file for details. -# -# SPDX-License-Identifier: (Apache-2.0 OR MIT) - -from spack.package import * -from spack.pkg.builtin.boost import Boost - - -class Sailfish(CMakePackage): - """Sailfish is a tool for transcript quantification from RNA-seq data.""" - - homepage = "https://www.cs.cmu.edu/~ckingsf/software/sailfish" - url = "https://github.com/kingsfordgroup/sailfish/archive/v0.10.1.tar.gz" - - version("0.10.1", sha256="a0d6d944382f2e07ffbfd0371132588e2f22bb846ecfc3d3435ff3d81b30d6c6") - - depends_on("boost@1.55:") - - # TODO: replace this with an explicit list of components of Boost, - # for instance depends_on('boost +filesystem') - # See https://github.com/spack/spack/pull/22303 for reference - depends_on(Boost.with_default_variants) - depends_on("intel-tbb") - depends_on("jemalloc") - depends_on("jellyfish") - depends_on("libgff") - depends_on("sparsehash") - - def patch(self): - filter_file("/opt/intel/tbb", - "{0}".format(self.spec["intel-tbb"].prefix.include), - "cmake/Modules/FindTBB.cmake") - - def cmake_args(self): - return ["-DTBB_INSTALL_DIR={0}".format(self.spec["intel-tbb"].prefix)] diff --git a/repos/hpccf/packages/salmon/package.py b/repos/hpccf/packages/salmon/package.py deleted file mode 100644 index 14ee0500..00000000 --- a/repos/hpccf/packages/salmon/package.py +++ /dev/null @@ -1,127 +0,0 @@ -# Copyright 2013-2022 Lawrence Livermore National Security, LLC and other -# Spack Project Developers. See the top-level COPYRIGHT file for details. -# -# SPDX-License-Identifier: (Apache-2.0 OR MIT) -from spack.package import * - - -class Salmon(CMakePackage): - """Salmon is a tool for quantifying the expression of transcripts using - RNA-seq data.""" - - homepage = "https://combine-lab.github.io/salmon/" - url = "https://github.com/COMBINE-lab/salmon/archive/v0.8.2.tar.gz" - maintainers = ["snehring"] - - version("1.10.1", sha256="babd9ccc189cfea07566d8a11d047f25fad5b446b4b69257bc6ad8869f8b7707") - version("1.9.0", sha256="450d953a5c43fe63fd745733f478d3fbaf24d926cb52731fd38ee21c4990d613") - version("1.4.0", sha256="6d3e25387450710f0aa779a1e9aaa9b4dec842324ff8551d66962d7c7606e71d") - version("0.14.1", sha256="05289170e69b5f291a8403b40d6b9bff54cc38825e9f721c210192b51a19273e") - version("0.12.0", sha256="91ebd1efc5b0b4c12ec6babecf3c0b79f7102e42b8895ca07c8c8fea869fefa3") - version("0.9.1", sha256="3a32c28d217f8f0af411c77c04144b1fa4e6fd3c2f676661cc875123e4f53520") - version("0.8.2", sha256="299168e873e71e9b07d63a84ae0b0c41b0876d1ad1d434b326a5be2dce7c4b91") - - variant( - "build_type", - default="RELEASE", - description="CMake build type", - values=("DEBUG", "RELEASE"), - ) - - # 1.8.0 relies on tbb provided config, earlier versions make - # assumptions about the layout of tbb files that are not true in - # 2021.1 and later - conflicts("intel-tbb@2021.1:", when="@:1.7.0") - conflicts("intel-oneapi-tbb@2021.1:", when="@:1.7.0") - depends_on("tbb") - depends_on( - "boost@1.66.0:" - "+program_options+exception+filesystem+system+chrono+serialization" - "+random+graph+timer+iostreams+math+thread+container", - when="@:0.14.1", - ) - depends_on( - "boost@1.72.0:" - "+program_options+exception+filesystem+system+chrono+serialization" - "+random+graph+timer+iostreams+math+thread+container", - when="@1.4.0:", - ) - depends_on("cereal") - depends_on("jemalloc") - depends_on("xz") - depends_on("zlib") - depends_on("bzip2") - depends_on("libdivsufsort") - depends_on("staden-io-lib~curl") - depends_on("libgff") - depends_on("pkgconfig") - depends_on("curl", when="@0.14.1:") - depends_on("htscodecs@1.5.0:", when="@1.10.1:") - - conflicts("%gcc@:5.1", when="@0.14.1:") - - resources = [ - ( - "1.10.1", - "pufferfish", - "cf2a007f3817c1087abd4170db70e6b3c04aa24babecf92a2d9d2eb7784b6021", - ), - ( - "1.9.0", - "pufferfish", - "2a862daeff95a19c9b188bc26a5d02fc0ecc5b9c9ae5523a67c9d14e62551c5d", - ), - ( - "1.4.0", - "pufferfish", - "059207e8d3134060ed70595e53f4189954c9e5edfaa6361b46304f55d1b71bc7", - ), - ("0.14.1", "RapMap", "fabac2f360513b803aa3567415eddcd97261ab8a23d4f600af5f98ee8ffd944b"), - ("0.12.0", "RapMap", "05102c0bbc8a0c0056a01cd0e8788fa5b504aee58ac226ab8c0e3ffec8019790"), - ("0.9.1", "RapMap", "8975e5a1ed61ed9354ba776272927545f417ecdce95823e71ba1e7b61de7d380"), - ("0.8.2", "RapMap", "1691f4bca2b604f05f36772ae45faf0842ab4809843df770bd10366a5cfd6822"), - ] - - for ver, repo, checksum in resources: - resource( - name="rapmap", - url="https://github.com/COMBINE-lab/{0}/archive/salmon-v{1}.zip".format(repo, ver), - sha256=checksum, - placement="external", - expand=False, - when="@{0}".format(ver), - ) - - def patch(self): - # remove static linking to libstdc++ - filter_file("-static-libstdc++", "", "CMakeLists.txt", string=True) - if self.spec.satisfies("@0.8.2:0.9.1"): - filter_file( - "${FAST_MALLOC_LIB}", - "${FAST_MALLOC_LIB}\n" "${CMAKE_DL_LIBS}", - "src/CMakeLists.txt", - string=True, - ) - - if self.spec.satisfies("@:0.14.1"): - filter_file("curl -k.*", "", "scripts/fetchRapMap.sh") - symlink("./salmon-v{0}.zip".format(self.version), "./external/rapmap.zip") - - if self.spec.satisfies("@1.4.0:"): - filter_file("curl -k.*", "", "scripts/fetchPufferfish.sh") - symlink("./salmon-v{0}.zip".format(self.version), "./external/pufferfish.zip") - # Fix issues related to lto-wrapper during install - filter_file( - "INTERPROCEDURAL_OPTIMIZATION True", - "INTERPROCEDURAL_OPTIMIZATION False", - "src/CMakeLists.txt", - string=True, - ) - filter_file("curl -k.*", "", "scripts/fetchPufferfish.sh") - - def cmake_args(self): - args = [ - "-DBOOST_ROOT=%s" % self.spec["boost"].prefix, - ] - - return args diff --git a/repos/hpccf/packages/turbovnc/package.py b/repos/hpccf/packages/turbovnc/package.py index 2f096630..9bdb7a0f 100644 --- a/repos/hpccf/packages/turbovnc/package.py +++ b/repos/hpccf/packages/turbovnc/package.py @@ -33,13 +33,16 @@ class Turbovnc(CMakePackage): # notify when the package is updated. # maintainers = ["github_user1", "github_user2"] + version("3.1.2", sha256="09809ac107ac038bd896c3a89d3988d5222e8d0f26bcbb62e92b65bced5b30e8") version("3.0.3", sha256="3a3e1bce1d6d41b33b52c51c8546c849db1226f42255f4cef306e7bd9e1cced4") variant("libjpeg-turbo", default=True, description="build with libjpeg-turbo support") depends_on("libjpeg-turbo@2.1:") - depends_on("openjdk@11:") + depends_on("libjpeg-turbo@3.0.4:", when="@3.1.2:") + depends_on("openjdk@17:") depends_on("virtualgl", type="run") + depends_on("virtualgl@3.1.1:", type="run", when="@3.1.2:") def cmake_args(self): args = [ diff --git a/templates/hpccf/base.tcl b/templates/hpccf/base.tcl index acb27e1e..5fee00f4 100644 --- a/templates/hpccf/base.tcl +++ b/templates/hpccf/base.tcl @@ -1,7 +1,50 @@ {% extends "modules/modulefile.tcl" %} + +{% block environment %} +{{ super() }} +if { [module-info mode load] && [info exists env(deprecate_on)] } { + + set deprecate_on "$env(deprecate_on)" + unsetenv deprecate_on + set deprecate_on_s [clock scan "$deprecate_on" -format "%Y-%m-%d"] + set now_s [clock seconds] + + if { $now_s > $deprecate_on_s } { + puts stderr "\n******************************************************************" + puts stderr "ERROR: this module is deprecated and was disabled on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "******************************************************************" + + exit + } else { + + puts stderr "\n**********************************************************************" + puts stderr "WARNING: this module is deprecated; it will be removed on $deprecate_on.\n" + puts stderr "Use a newer version if available. To request software, please see:" + puts stderr "https://hpc.ucdavis.edu/software-installation-policy" + puts stderr "**********************************************************************" + } +} +{% endblock %} + {% block footer %} + +try { + set user_email [exec -ignorestderr /usr/bin/grep --color=never -Po "^$env(USER):.*\<\\K.*?(?=\>)" /etc/passwd] +} on error {e} { + set user_email "" +} +setenv USER_EMAIL $user_email + if [module-info mode load] { {% block postload %} {% endblock postload %} } + +if [module-info mode unload] { + {% block postunload %} + {% endblock postunload %} +} + {% endblock footer %} diff --git a/templates/hpccf/farm/rstudio-server.tcl b/templates/hpccf/farm/rstudio-server.tcl index 568ca2f8..f056ea3c 100644 --- a/templates/hpccf/farm/rstudio-server.tcl +++ b/templates/hpccf/farm/rstudio-server.tcl @@ -11,13 +11,16 @@ if { [module-info mode load] } { if {[string equal $hostname "farm"]} { puts stderr " -RStudio Server is not allowed on the head node; it must be run in -an interactive Slurm session. For example, you could run: +RStudio Server is not allowed on the head node; it must be run in an interactive Slurm +session. For example, you could run: - srun -p high --time=9:00:00 --cpus-per-task=4 --mem=5G --pty /bin/bash -l + srun --partition=high2 --time=9:00:00 --cpus-per-task=4 --mem=20G --pty /bin/bash -l -Once your session launches, reload this module again and follow -the provided directions to launch the server. +Adjust the --partition= argument to your high partition of choice, and adjust the --mem= +argument to be large enough to encompass your entire R session. + +Once your session launches, reload this module again and follow the provided directions to +launch the server. " exit } diff --git a/templates/hpccf/farm/turbovnc.tcl b/templates/hpccf/farm/turbovnc.tcl index 8c04bd06..edde29b5 100644 --- a/templates/hpccf/farm/turbovnc.tcl +++ b/templates/hpccf/farm/turbovnc.tcl @@ -19,21 +19,20 @@ You need to run it on a node through srun and use SSH to do port forwarding. For example: srun --partition=gpu-a100-h --gres=gpu:1 --time=9:00:00 --ntasks=1 --cpus-per-task=4 --mem=50G --pty /bin/bash -l -After your srun has been allocated resources you can then: module load [module-info name] +After your srun has been allocated resources you can then run the following two commands: + +module load [module-info name] +turbovnc-farm -The wrapper script will automatically run, but you can rerun it if necessary: turbovnc-farm " exit } puts stderr " -Automatically running the wrapper, you may rerun it if necessary: turbovnc-farm +Now, run the wrapper script, you may rerun it if necessary: turbovnc-farm " - - puts stdout "turbovnc-farm" - } {% endblock %} diff --git a/templates/hpccf/franklin/relion.3.1.3.cpu.slurm.template.sh b/templates/hpccf/franklin/relion.3.1.3.cpu.slurm.template.sh index 1fd0a515..254e87be 100644 --- a/templates/hpccf/franklin/relion.3.1.3.cpu.slurm.template.sh +++ b/templates/hpccf/franklin/relion.3.1.3.cpu.slurm.template.sh @@ -44,9 +44,9 @@ export OMP_NUM_THREADS=$SLURM_CPUS_PER_TASK # -module load openmpi/4.1.4 +module unload openmpi +module load openmpi/4.1.5+amd module load relion/cpu/3.1.3+amd -module load motioncor2/1.5.0 which relion_refine_mpi diff --git a/templates/hpccf/franklin/relion.3.1.3.gpu.skylake_avx512.slurm.template.sh b/templates/hpccf/franklin/relion.3.1.3.gpu.skylake_avx512.slurm.template.sh new file mode 100644 index 00000000..6dd805bf --- /dev/null +++ b/templates/hpccf/franklin/relion.3.1.3.gpu.skylake_avx512.slurm.template.sh @@ -0,0 +1,75 @@ +#!/bin/bash +# +#----------------------------------------- +# multiple GPU with hybrid MPI + OpenMP +#----------------------------------------- +# +#SBATCH --job-name=XXXnameXXX +#SBATCH --output=XXXoutfileXXX +# +#Number of MPI tasks (MPI ranks in the hybrid job) +#SBATCH --ntasks=XXXmpinodesXXX +#For classification and refinement jobs, the master MPI process does not share +#the heavy calcualtions performed on the GPU, so you can use as many MPI tasks +#as many GPUs + 1, i.e. in the case of 4 GPUs this will be 4+1=5. +#3D auto-refinement always needs to be run with at least 3 MPI processes, +#meaning that you will need to use at least two GPUs and 3 MPI tasks. +# +#Number of OpenMP threads per MPI task +#SBATCH --cpus-per-task=XXXthreadsXXX +#The total number of CPUs used by the job +#can be calculated as: number of MPI tasks * cpus per task +# +#Define the number of hours the job should run. +#Maximum runtime is limited to 5 days, ie. 120 hours +#SBATCH --time=XXXextra3XXX +# +#Define the amount of RAM used per MPI task in GigaBytes +#The total amount of memory used by the job +#can be calculated as: number of MPI tasks * memory per CPU +#SBATCH --mem-per-cpu=XXXextra2XXX +# +#Send emails when a job starts, it is finished or it exits +#SBATCH --mail-user=XXXextra1XXX +#SBATCH --mail-type=ALL +# +#Define the "gpu" partition for GPU-accelerated jobs +#SBATCH --partition=XXXqueueXXX +# +#SBATCH --account=XXXextra4XXX +# +#Define the number of GPUs used by your job +#SBATCH --gres=gpu:XXXextra5XXX +# +#SBATCH --no-requeue +# +#Set the number of OpenMP threads per MPI task to SLURM internal variable value +export OMP_NUM_THREADS=$SLURM_CPUS_PER_TASK +# +# +#print out the list of GPUs before the job is started +/usr/bin/nvidia-smi +# +# + +module unload openmpi +module load openmpi/4.1.5+intel +module load intel-oneapi-mkl +module load relion/gpu/3.1.3+intel + + +which relion_refine_mpi + +module list + +echo "RELION JOB STARTED at: `date`" + +mkdir -p slurm +cp XXXoutfileXXX slurm/slurm$SLURM_JOB_ID_0 +ln -s ../XXXoutfileXXX slurm/slurm$SLURM_JOB_ID + +#run your Relion job here +#echo srun --mpi=pmix -n $SLURM_NTASKS $RELION_command +srun --mpi=pmix -n $SLURM_NTASKS XXXcommandXXX + +echo "RELION JOB ENDED at: `date`" diff --git a/templates/hpccf/franklin/relion.3.1.3.gpu.x86_64_v3.slurm.template.sh b/templates/hpccf/franklin/relion.3.1.3.gpu.x86_64_v3.slurm.template.sh deleted file mode 100644 index bba984e9..00000000 --- a/templates/hpccf/franklin/relion.3.1.3.gpu.x86_64_v3.slurm.template.sh +++ /dev/null @@ -1,74 +0,0 @@ -#!/bin/bash -# -#----------------------------------------- -# multiple GPU with hybrid MPI + OpenMP -#----------------------------------------- -# -#SBATCH --job-name=XXXnameXXX -#SBATCH --output=XXXoutfileXXX -# -#Number of MPI tasks (MPI ranks in the hybrid job) -#SBATCH --ntasks=XXXmpinodesXXX -#For classification and refinement jobs, the master MPI process does not share -#the heavy calcualtions performed on the GPU, so you can use as many MPI tasks -#as many GPUs + 1, i.e. in the case of 4 GPUs this will be 4+1=5. -#3D auto-refinement always needs to be run with at least 3 MPI processes, -#meaning that you will need to use at least two GPUs and 3 MPI tasks. -# -#Number of OpenMP threads per MPI task -#SBATCH --cpus-per-task=XXXthreadsXXX -#The total number of CPUs used by the job -#can be calculated as: number of MPI tasks * cpus per task -# -#Define the number of hours the job should run. -#Maximum runtime is limited to 5 days, ie. 120 hours -#SBATCH --time=XXXextra4XXX -# -#Define the amount of RAM used per MPI task in GigaBytes -#The total amount of memory used by the job -#can be calculated as: number of MPI tasks * memory per CPU -#SBATCH --mem-per-cpu=XXXextra3XXX -# -#Send emails when a job starts, it is finished or it exits -#SBATCH --mail-user=XXXextra1XXX -#SBATCH --mail-type=ALL -# -#Define the "gpu" partition for GPU-accelerated jobs -#SBATCH --partition=XXXqueueXXX -# -#SBATCH --account=XXXextra5XXX -# -#Define the number of GPUs used by your job -#SBATCH --gres=gpu:XXXextra2XXX -# -#SBATCH --no-requeue -# -#Set the number of OpenMP threads per MPI task to SLURM internal variable value -export OMP_NUM_THREADS=$SLURM_CPUS_PER_TASK -# -# -#print out the list of GPUs before the job is started -/usr/bin/nvidia-smi -# -# - -module load openmpi/4.1.4 -module load intel-oneapi-mkl/2022.2.1 -module load relion/gpu/3.1.3+intel - - -which relion_refine_mpi - -module list - -echo "RELION JOB STARTED at: `date`" - -mkdir -p slurm -cp XXXoutfileXXX slurm/slurm$SLURM_JOB_ID_0 -ln -s ../XXXoutfileXXX slurm/slurm$SLURM_JOB_ID - -#run your Relion job here -#echo srun --mpi=pmix -n $SLURM_NTASKS $RELION_command -srun --mpi=pmix -n $SLURM_NTASKS XXXcommandXXX - -echo "RELION JOB ENDED at: `date`" diff --git a/templates/hpccf/franklin/relion.3.1.3.gpu.zen2.slurm.template.sh b/templates/hpccf/franklin/relion.3.1.3.gpu.zen2.slurm.template.sh index 6fb014d8..47633fea 100644 --- a/templates/hpccf/franklin/relion.3.1.3.gpu.zen2.slurm.template.sh +++ b/templates/hpccf/franklin/relion.3.1.3.gpu.zen2.slurm.template.sh @@ -22,12 +22,12 @@ # #Define the number of hours the job should run. #Maximum runtime is limited to 5 days, ie. 120 hours -#SBATCH --time=XXXextra4XXX +#SBATCH --time=XXXextra3XXX # #Define the amount of RAM used per MPI task in GigaBytes #The total amount of memory used by the job #can be calculated as: number of MPI tasks * memory per CPU -#SBATCH --mem-per-cpu=XXXextra3XXX +#SBATCH --mem-per-cpu=XXXextra2XXX # #Send emails when a job starts, it is finished or it exits #SBATCH --mail-user=XXXextra1XXX @@ -36,10 +36,10 @@ #Define the "gpu" partition for GPU-accelerated jobs #SBATCH --partition=XXXqueueXXX # -#SBATCH --account=XXXextra5XXX +#SBATCH --account=XXXextra4XXX # #Define the number of GPUs used by your job -#SBATCH --gres=gpu:XXXextra2XXX +#SBATCH --gres=gpu:XXXextra5XXX # #SBATCH --no-requeue # @@ -52,8 +52,8 @@ export OMP_NUM_THREADS=$SLURM_CPUS_PER_TASK # # -module load openmpi/4.1.4 -module load motioncor2/1.5.0 +module unload openmpi +module load openmpi/4.1.5+amd module load relion/gpu/3.1.3+amd which relion_refine_mpi diff --git a/templates/hpccf/franklin/relion.4.0.0.cpu.slurm.template.sh b/templates/hpccf/franklin/relion.4.0.0.cpu.slurm.template.sh deleted file mode 100644 index 3a945d96..00000000 --- a/templates/hpccf/franklin/relion.4.0.0.cpu.slurm.template.sh +++ /dev/null @@ -1,60 +0,0 @@ -#!/bin/bash -# -#----------------------------------------- -# Multi-node, multi-thread CPU optimized . -#----------------------------------------- -# -#SBATCH --job-name=XXXnameXXX -#SBATCH --output=XXXoutfileXXX -# -#Number of MPI tasks (MPI ranks in the hybrid job) -#SBATCH --ntasks=XXXmpinodesXXX -# -#Number of OpenMP threads per MPI task -#SBATCH --cpus-per-task=XXXthreadsXXX -#The total number of CPUs used by the job -#can be calculated as: number of MPI tasks * cpus per task -# -#Define the number of hours the job should run. -#Maximum runtime is limited to 5 days, ie. 120 hours -#SBATCH --time=XXXextra3XXX -# -#Define the amount of RAM used per MPI task in GigaBytes -#The total amount of memory used by the job -#can be calculated as: number of MPI tasks * memory per CPU -#SBATCH --mem-per-cpu=XXXextra2XXX -# -#Send emails when a job starts, it is finished or it exits -#SBATCH --mail-user=XXXextra1XXX -#SBATCH --mail-type=ALL -# -#Define the "gpu" partition for GPU-accelerated jobs -#SBATCH --partition=XXXqueueXXX -# -#SBATCH --account=XXXextra4XXX -# -#SBATCH --no-requeue -# -#Set the number of OpenMP threads per MPI task to SLURM internal variable value -export OMP_NUM_THREADS=$SLURM_CPUS_PER_TASK -# - -module load openmpi/4.1.4 -module load relion/cpu/4.0.0+amd -module load motioncor2/1.5.0 - -which relion_refine_mpi - -module list - -echo "RELION JOB STARTED at: `date`" - -mkdir -p slurm -cp XXXoutfileXXX slurm/slurm$SLURM_JOB_ID_0 -ln -s ../XXXoutfileXXX slurm/slurm$SLURM_JOB_ID - -#run your Relion job here -#echo srun --mpi=pmix -n $SLURM_NTASKS $RELION_command -srun --mpi=pmix -n $SLURM_NTASKS XXXcommandXXX - -echo "RELION JOB ENDED at: `date`" diff --git a/templates/hpccf/franklin/relion.4.0.0.gpu.x86_64_v3.slurm.template.sh b/templates/hpccf/franklin/relion.4.0.0.gpu.x86_64_v3.slurm.template.sh deleted file mode 100644 index 4620145a..00000000 --- a/templates/hpccf/franklin/relion.4.0.0.gpu.x86_64_v3.slurm.template.sh +++ /dev/null @@ -1,75 +0,0 @@ -#!/bin/bash -# -#----------------------------------------- -# multiple GPU with hybrid MPI + OpenMP -#----------------------------------------- -# -#SBATCH --job-name=XXXnameXXX -#SBATCH --output=XXXoutfileXXX -# -#Number of MPI tasks (MPI ranks in the hybrid job) -#SBATCH --ntasks=XXXmpinodesXXX -#For classification and refinement jobs, the master MPI process does not share -#the heavy calcualtions performed on the GPU, so you can use as many MPI tasks -#as many GPUs + 1, i.e. in the case of 4 GPUs this will be 4+1=5. -#3D auto-refinement always needs to be run with at least 3 MPI processes, -#meaning that you will need to use at least two GPUs and 3 MPI tasks. -# -#Number of OpenMP threads per MPI task -#SBATCH --cpus-per-task=XXXthreadsXXX -#The total number of CPUs used by the job -#can be calculated as: number of MPI tasks * cpus per task -# -#Define the number of hours the job should run. -#Maximum runtime is limited to 5 days, ie. 120 hours -#SBATCH --time=XXXextra4XXX -# -#Define the amount of RAM used per MPI task in GigaBytes -#The total amount of memory used by the job -#can be calculated as: number of MPI tasks * memory per CPU -#SBATCH --mem-per-cpu=XXXextra3XXX -# -#Send emails when a job starts, it is finished or it exits -#SBATCH --mail-user=XXXextra1XXX -#SBATCH --mail-type=ALL -# -#Define the "gpu" partition for GPU-accelerated jobs -#SBATCH --partition=XXXqueueXXX -# -#SBATCH --account=XXXextra5XXX -# -#SBATCH --account=XXXextra5XXX -# -#Define the number of GPUs used by your job -#SBATCH --gres=gpu:XXXextra2XXX -# -#SBATCH --no-requeue -# -#Set the number of OpenMP threads per MPI task to SLURM internal variable value -export OMP_NUM_THREADS=$SLURM_CPUS_PER_TASK -# -# -#print out the list of GPUs before the job is started -/usr/bin/nvidia-smi -# -# - -module load openmpi/4.1.4 -module load intel-oneapi-mkl/2022.2.1 -module load relion/gpu/4.0.0+intel - -which relion_refine_mpi - -module list - -echo "RELION JOB STARTED at: `date`" - -mkdir -p slurm -cp XXXoutfileXXX slurm/slurm$SLURM_JOB_ID_0 -ln -s ../XXXoutfileXXX slurm/slurm$SLURM_JOB_ID - -#run your Relion job here -#echo srun --mpi=pmix -n $SLURM_NTASKS $RELION_command -srun --mpi=pmix -n $SLURM_NTASKS XXXcommandXXX - -echo "RELION JOB ENDED at: `date`" diff --git a/templates/hpccf/franklin/relion.4.0.0.gpu.zen2.slurm.template.sh b/templates/hpccf/franklin/relion.4.0.0.gpu.zen2.slurm.template.sh deleted file mode 100644 index 3a40315b..00000000 --- a/templates/hpccf/franklin/relion.4.0.0.gpu.zen2.slurm.template.sh +++ /dev/null @@ -1,72 +0,0 @@ -#!/bin/bash -# -#----------------------------------------- -# multiple GPU with hybrid MPI + OpenMP -#----------------------------------------- -# -#SBATCH --job-name=XXXnameXXX -#SBATCH --output=XXXoutfileXXX -# -#Number of MPI tasks (MPI ranks in the hybrid job) -#SBATCH --ntasks=XXXmpinodesXXX -#For classification and refinement jobs, the master MPI process does not share -#the heavy calcualtions performed on the GPU, so you can use as many MPI tasks -#as many GPUs + 1, i.e. in the case of 4 GPUs this will be 4+1=5. -#3D auto-refinement always needs to be run with at least 3 MPI processes, -#meaning that you will need to use at least two GPUs and 3 MPI tasks. -# -#Number of OpenMP threads per MPI task -#SBATCH --cpus-per-task=XXXthreadsXXX -#The total number of CPUs used by the job -#can be calculated as: number of MPI tasks * cpus per task -# -#Define the number of hours the job should run. -#Maximum runtime is limited to 5 days, ie. 120 hours -#SBATCH --time=XXXextra4XXX -# -#Define the amount of RAM used per MPI task in GigaBytes -#The total amount of memory used by the job -#can be calculated as: number of MPI tasks * memory per CPU -#SBATCH --mem-per-cpu=XXXextra3XXX -# -#Send emails when a job starts, it is finished or it exits -#SBATCH --mail-user=XXXextra1XXX -#SBATCH --mail-type=ALL -# -#Define the "gpu" partition for GPU-accelerated jobs -#SBATCH --partition=XXXqueueXXX -# -#SBATCH --account=XXXextra5XXX -# -#Define the number of GPUs used by your job -#SBATCH --gres=gpu:XXXextra2XXX -# -#SBATCH --no-requeue -# -#Set the number of OpenMP threads per MPI task to SLURM internal variable value -export OMP_NUM_THREADS=$SLURM_CPUS_PER_TASK -# -# -#print out the list of GPUs before the job is started -/usr/bin/nvidia-smi -# -# - -module load openmpi/4.1.4 -module load relion/gpu/4.0.0+amd - -which relion_refine_mpi - -module list - -echo "RELION JOB STARTED at: `date`" - -mkdir -p slurm -cp XXXoutfileXXX slurm/slurm$SLURM_JOB_ID_0 -ln -s ../XXXoutfileXXX slurm/slurm$SLURM_JOB_ID - -#run your Relion job here -#echo srun --mpi=pmix -n $SLURM_NTASKS $RELION_command -srun --mpi=pmix -n $SLURM_NTASKS XXXcommandXXX - -echo "RELION JOB ENDED at: `date`" diff --git a/templates/hpccf/franklin/relion.4.0.1.cpu.slurm.template.sh b/templates/hpccf/franklin/relion.4.0.1.cpu.slurm.template.sh index 133a026d..7e894048 100644 --- a/templates/hpccf/franklin/relion.4.0.1.cpu.slurm.template.sh +++ b/templates/hpccf/franklin/relion.4.0.1.cpu.slurm.template.sh @@ -1,4 +1,4 @@ -#!/bin/bash +#!/bin/bash -l # #----------------------------------------- # Multi-node, multi-thread CPU optimized . @@ -39,9 +39,9 @@ export OMP_NUM_THREADS=$SLURM_CPUS_PER_TASK # -module load openmpi/4.1.4 +module unload openmpi +module load openmpi/4.1.5+amd module load relion/cpu/4.0.1+amd -module load motioncor2/1.5.0 which relion_refine_mpi diff --git a/templates/hpccf/franklin/relion.4.0.1.gpu.skylake_avx512.slurm.template.sh b/templates/hpccf/franklin/relion.4.0.1.gpu.skylake_avx512.slurm.template.sh new file mode 100644 index 00000000..8c0ab0a5 --- /dev/null +++ b/templates/hpccf/franklin/relion.4.0.1.gpu.skylake_avx512.slurm.template.sh @@ -0,0 +1,74 @@ +#!/bin/bash -l +# +#----------------------------------------- +# multiple GPU with hybrid MPI + OpenMP +#----------------------------------------- +# +#SBATCH --job-name=XXXnameXXX +#SBATCH --output=XXXoutfileXXX +# +#Number of MPI tasks (MPI ranks in the hybrid job) +#SBATCH --ntasks=XXXmpinodesXXX +#For classification and refinement jobs, the master MPI process does not share +#the heavy calcualtions performed on the GPU, so you can use as many MPI tasks +#as many GPUs + 1, i.e. in the case of 4 GPUs this will be 4+1=5. +#3D auto-refinement always needs to be run with at least 3 MPI processes, +#meaning that you will need to use at least two GPUs and 3 MPI tasks. +# +#Number of OpenMP threads per MPI task +#SBATCH --cpus-per-task=XXXthreadsXXX +#The total number of CPUs used by the job +#can be calculated as: number of MPI tasks * cpus per task +# +#Define the number of hours the job should run. +#Maximum runtime is limited to 5 days, ie. 120 hours +#SBATCH --time=XXXextra3XXX +# +#Define the amount of RAM used per MPI task in GigaBytes +#The total amount of memory used by the job +#can be calculated as: number of MPI tasks * memory per CPU +#SBATCH --mem-per-cpu=XXXextra2XXX +# +#Send emails when a job starts, it is finished or it exits +#SBATCH --mail-user=XXXextra1XXX +#SBATCH --mail-type=ALL +# +#Define the "gpu" partition for GPU-accelerated jobs +#SBATCH --partition=XXXqueueXXX +# +#SBATCH --account=XXXextra4XXX +# +#Define the number of GPUs used by your job +#SBATCH --gres=gpu:XXXextra5XXX +# +#SBATCH --no-requeue +# +#Set the number of OpenMP threads per MPI task to SLURM internal variable value +export OMP_NUM_THREADS=$SLURM_CPUS_PER_TASK +# +# +#print out the list of GPUs before the job is started +/usr/bin/nvidia-smi +# +# + +module unload openmpi +module load openmpi/4.1.5+intel +module load intel-oneapi-mkl +module load relion/gpu/4.0.1+intel + +which relion_refine_mpi + +module list + +echo "RELION JOB STARTED at: `date`" + +mkdir -p slurm +cp XXXoutfileXXX slurm/slurm$SLURM_JOB_ID_0 +ln -s ../XXXoutfileXXX slurm/slurm$SLURM_JOB_ID + +#run your Relion job here +#echo srun --mpi=pmix -n $SLURM_NTASKS $RELION_command +srun --mpi=pmix -n $SLURM_NTASKS XXXcommandXXX + +echo "RELION JOB ENDED at: `date`" diff --git a/templates/hpccf/franklin/relion.4.0.1.gpu.x86_64_v3.slurm.template.sh b/templates/hpccf/franklin/relion.4.0.1.gpu.x86_64_v3.slurm.template.sh deleted file mode 100644 index e6feb0cd..00000000 --- a/templates/hpccf/franklin/relion.4.0.1.gpu.x86_64_v3.slurm.template.sh +++ /dev/null @@ -1,73 +0,0 @@ -#!/bin/bash -# -#----------------------------------------- -# multiple GPU with hybrid MPI + OpenMP -#----------------------------------------- -# -#SBATCH --job-name=XXXnameXXX -#SBATCH --output=XXXoutfileXXX -# -#Number of MPI tasks (MPI ranks in the hybrid job) -#SBATCH --ntasks=XXXmpinodesXXX -#For classification and refinement jobs, the master MPI process does not share -#the heavy calcualtions performed on the GPU, so you can use as many MPI tasks -#as many GPUs + 1, i.e. in the case of 4 GPUs this will be 4+1=5. -#3D auto-refinement always needs to be run with at least 3 MPI processes, -#meaning that you will need to use at least two GPUs and 3 MPI tasks. -# -#Number of OpenMP threads per MPI task -#SBATCH --cpus-per-task=XXXthreadsXXX -#The total number of CPUs used by the job -#can be calculated as: number of MPI tasks * cpus per task -# -#Define the number of hours the job should run. -#Maximum runtime is limited to 5 days, ie. 120 hours -#SBATCH --time=XXXextra4XXX -# -#Define the amount of RAM used per MPI task in GigaBytes -#The total amount of memory used by the job -#can be calculated as: number of MPI tasks * memory per CPU -#SBATCH --mem-per-cpu=XXXextra3XXX -# -#Send emails when a job starts, it is finished or it exits -#SBATCH --mail-user=XXXextra1XXX -#SBATCH --mail-type=ALL -# -#Define the "gpu" partition for GPU-accelerated jobs -#SBATCH --partition=XXXqueueXXX -# -#SBATCH --account=XXXextra5XXX -# -#Define the number of GPUs used by your job -#SBATCH --gres=gpu:XXXextra2XXX -# -#SBATCH --no-requeue -# -#Set the number of OpenMP threads per MPI task to SLURM internal variable value -export OMP_NUM_THREADS=$SLURM_CPUS_PER_TASK -# -# -#print out the list of GPUs before the job is started -/usr/bin/nvidia-smi -# -# - -module load openmpi/4.1.4 -module load intel-oneapi-mkl/2022.2.1 -module load relion/gpu/4.0.1+intel - -which relion_refine_mpi - -module list - -echo "RELION JOB STARTED at: `date`" - -mkdir -p slurm -cp XXXoutfileXXX slurm/slurm$SLURM_JOB_ID_0 -ln -s ../XXXoutfileXXX slurm/slurm$SLURM_JOB_ID - -#run your Relion job here -#echo srun --mpi=pmix -n $SLURM_NTASKS $RELION_command -srun --mpi=pmix -n $SLURM_NTASKS XXXcommandXXX - -echo "RELION JOB ENDED at: `date`" diff --git a/templates/hpccf/franklin/relion.4.0.1.gpu.zen2.slurm.template.sh b/templates/hpccf/franklin/relion.4.0.1.gpu.zen2.slurm.template.sh index c2db54b6..4ec28321 100644 --- a/templates/hpccf/franklin/relion.4.0.1.gpu.zen2.slurm.template.sh +++ b/templates/hpccf/franklin/relion.4.0.1.gpu.zen2.slurm.template.sh @@ -1,4 +1,4 @@ -#!/bin/bash +#!/bin/bash -l # #----------------------------------------- # multiple GPU with hybrid MPI + OpenMP @@ -22,12 +22,12 @@ # #Define the number of hours the job should run. #Maximum runtime is limited to 5 days, ie. 120 hours -#SBATCH --time=XXXextra4XXX +#SBATCH --time=XXXextra3XXX # #Define the amount of RAM used per MPI task in GigaBytes #The total amount of memory used by the job #can be calculated as: number of MPI tasks * memory per CPU -#SBATCH --mem-per-cpu=XXXextra3XXX +#SBATCH --mem-per-cpu=XXXextra2XXX # #Send emails when a job starts, it is finished or it exits #SBATCH --mail-user=XXXextra1XXX @@ -36,10 +36,10 @@ #Define the "gpu" partition for GPU-accelerated jobs #SBATCH --partition=XXXqueueXXX # -#SBATCH --account=XXXextra5XXX +#SBATCH --account=XXXextra4XXX # #Define the number of GPUs used by your job -#SBATCH --gres=gpu:XXXextra2XXX +#SBATCH --gres=gpu:XXXextra5XXX # #SBATCH --no-requeue # @@ -52,7 +52,8 @@ export OMP_NUM_THREADS=$SLURM_CPUS_PER_TASK # # -module load openmpi/4.1.4 +module unload openmpi +module load openmpi/4.1.5+amd module load relion/gpu/4.0.1+amd which relion_refine_mpi diff --git a/templates/hpccf/franklin/relion.cpu.tcl b/templates/hpccf/franklin/relion.cpu.tcl new file mode 100644 index 00000000..0ce0d322 --- /dev/null +++ b/templates/hpccf/franklin/relion.cpu.tcl @@ -0,0 +1,36 @@ +{% extends "hpccf/default.tcl" %} +{% block footer %} +{{ super() }} + +prereq motioncor2 +prereq gctf/1.06 +prereq ghostscript + +setenv RELION_MOTIONCOR2_EXECUTABLE [file join [getenv MOTIONCOR2_ROOT] "bin/MotionCor2"] +#setenv RELION_CTFFIND_EXECUTABLE [file join [getenv CTFFIND_ROOT] "bin/ctffind"] +setenv RELION_GCTF_EXECUTABLE [file join [getenv GCTF_ROOT] "bin/Gctf-v1.06_sm_30_cu8.0_x86_64"] + +setenv RELION_QSUB_EXTRA_COUNT "4" + +setenv RELION_QSUB_EXTRA1 "Email:" +setenv RELION_QSUB_EXTRA1_DEFAULT $user_email +setenv RELION_QSUB_EXTRA1_HELP "The email address to use for slurm notifications." + +setenv RELION_QSUB_EXTRA2 "Memory per CPU (MB):" +setenv RELION_QSUB_EXTRA2_DEFAULT "10000" +setenv RELION_QSUB_EXTRA2_HELP "Memory used per CPU thread, in MiB. Total memory can be calculated as (number of MPI tasks) * (memory per CPU)." + +setenv RELION_QSUB_EXTRA3 "Job Time:" +setenv RELION_QSUB_EXTRA3_DEFAULT "12:00:00" +setenv RELION_QSUB_EXTRA3_HELP "SLURM job time limit in format HH:MM:SS or DAYS-HH:MM:SS." + +setenv RELION_QSUB_EXTRA4 "Account:" +setenv RELION_QSUB_EXTRA4_HELP "SLURM --account parameter." + +setenv RELION_QUEUE_USE "yes" +#setenv RELION_QSUB_COMMAND "sbatch" +setenv RELION_SHELL "bash" +setenv RELION_SCRATCH_DIR "/tmp/" +setenv RELION_QUEUE_NAME "low" + +{% endblock %} diff --git a/templates/hpccf/franklin/relion.gpu.tcl b/templates/hpccf/franklin/relion.gpu.tcl new file mode 100644 index 00000000..4b8274d8 --- /dev/null +++ b/templates/hpccf/franklin/relion.gpu.tcl @@ -0,0 +1,11 @@ +{% extends "hpccf/franklin/relion.cpu.tcl" %} +{% block footer %} +{{ super() }} + +setenv RELION_QSUB_EXTRA_COUNT "5" + +setenv RELION_QSUB_EXTRA5 "GPU resources:" +setenv RELION_QSUB_EXTRA5_DEFAULT "2" +setenv RELION_QSUB_EXTRA5_HELP "Number (and optionally type) of GPUs to request for this job. If only an integer is supplied, will request any GPU. If TYPE:NUM is supplied (example: a4000:4), specific models of GPU will be requested. Note that specific combinations of GPU type and job queue may fail; that is, if you select \"high\" as your queue and \"a4000:4\" as your GPU resources, but your account does not have access to the A4000 nodes' high queue, the job will fail to submit. You can view available GPU resource types by running sinfo -o \"%20N %10c %10m %30G\"" + +{% endblock %} diff --git a/templates/hpccf/gcc.tcl b/templates/hpccf/gcc.tcl new file mode 100644 index 00000000..b4c2a4f6 --- /dev/null +++ b/templates/hpccf/gcc.tcl @@ -0,0 +1,8 @@ +{% extends "hpccf/default.tcl" %} +{% block footer %} +{{ super() }} +set-alias gcc /usr/bin/gcc-{{spec.version[0]}} +set-alias g++ /usr/bin/g++-{{spec.version[0]}} +set-alias cc /usr/bin/gcc-{{spec.version[0]}} +set-alias c++ /usr/bin/g++-{{spec.version[0]}} +{% endblock %} diff --git a/templates/hpccf/getemail.sh b/templates/hpccf/getemail.sh new file mode 100644 index 00000000..fc69234a --- /dev/null +++ b/templates/hpccf/getemail.sh @@ -0,0 +1,3 @@ +#!/bin/bash +EMAIL=$(grep -i "^$USER" /etc/passwd | grep -Po '<\K.*?(?=>)') +echo $EMAIL